sequence OBO-Edit 2.3.1 04:09:2015 13:56 autogenerated-by: DAG-Edit version 1.417 saved-by: eilbeck date: Tue May 11 15:18:44 PDT 2004 version: $Revision: 1.45 $ kareneilbeck 1.2 http://purl.obolibrary.org/obo/IAO_0000115 definition http://purl.obolibrary.org/obo/IAO_0100001 term replaced by http://purl.obolibrary.org/obo/SO_0000000 sequence http://purl.obolibrary.org/obo/SO_0000000 SO:0000000 http://purl.obolibrary.org/obo/SO_0000000 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000000 Sequence_Ontology http://purl.obolibrary.org/obo/SO_0000000 true SO:ke http://purl.obolibrary.org/obo/SO_0000001 A sequence_feature with an extent greater than zero. A nucleotide region is composed of bases and a polypeptide region is composed of amino acids. http://purl.obolibrary.org/obo/SO_0000001 sequence http://purl.obolibrary.org/obo/SO_0000001 sequence http://purl.obolibrary.org/obo/SO_0000001 SO:0000001 http://purl.obolibrary.org/obo/SO_0000001 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000001 region SO:ke http://purl.obolibrary.org/obo/SO_0000002 A folded sequence. http://purl.obolibrary.org/obo/SO_0000002 sequence secondary structure http://purl.obolibrary.org/obo/SO_0000002 sequence http://purl.obolibrary.org/obo/SO_0000002 SO:0000002 http://purl.obolibrary.org/obo/SO_0000002 sequence_secondary_structure http://www.ncbi.nlm.nih.gov/pubmed/7919797?dopt=Abstract http://purl.obolibrary.org/obo/SO_0000003 G-quartets are unusual nucleic acid structures consisting of a planar arrangement where each guanine is hydrogen bonded by hoogsteen pairing to another guanine in the quartet. wiki http://purl.obolibrary.org/obo/SO_0000003 http://en.wikipedia.org/wiki/G-quadruplex http://purl.obolibrary.org/obo/SO_0000003 G quartet http://purl.obolibrary.org/obo/SO_0000003 G tetrad http://purl.obolibrary.org/obo/SO_0000003 G-quadruplex http://purl.obolibrary.org/obo/SO_0000003 G-quartet http://purl.obolibrary.org/obo/SO_0000003 G-tetrad http://purl.obolibrary.org/obo/SO_0000003 G_quadruplex http://purl.obolibrary.org/obo/SO_0000003 guanine tetrad http://purl.obolibrary.org/obo/SO_0000003 sequence http://purl.obolibrary.org/obo/SO_0000003 SO:0000003 http://purl.obolibrary.org/obo/SO_0000003 G_quartet http://purl.obolibrary.org/obo/SO_0000004 interior coding exon http://purl.obolibrary.org/obo/SO_0000004 sequence http://purl.obolibrary.org/obo/SO_0000004 SO:0000004 http://purl.obolibrary.org/obo/SO_0000004 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000004 interior_coding_exon http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000005 The many tandem repeats (identical or related) of a short basic repeating unit; many have a base composition or other property different from the genome average that allows them to be separated from the bulk (main band) genomic DNA. wiki http://purl.obolibrary.org/obo/SO_0000005 http://en.wikipedia.org/wiki/Satellite_DNA http://purl.obolibrary.org/obo/SO_0000005 satellite DNA http://purl.obolibrary.org/obo/SO_0000005 sequence http://purl.obolibrary.org/obo/SO_0000005 SO:0000005 http://purl.obolibrary.org/obo/SO_0000005 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000005 satellite_DNA SO:ke http://purl.obolibrary.org/obo/SO_0000006 A region amplified by a PCR reaction. wiki http://purl.obolibrary.org/obo/SO_0000006 http://en.wikipedia.org/wiki/RAPD http://purl.obolibrary.org/obo/SO_0000006 PCR product http://purl.obolibrary.org/obo/SO_0000006 sequence http://purl.obolibrary.org/obo/SO_0000006 amplicon http://purl.obolibrary.org/obo/SO_0000006 SO:0000006 http://purl.obolibrary.org/obo/SO_0000006 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000006 This term is mapped to MGED. This term is now located in OBI, with the following ID OBI_0000406. http://purl.obolibrary.org/obo/SO_0000006 PCR_product SO:ls http://purl.obolibrary.org/obo/SO_0000007 One of a pair of sequencing reads in which the two members of the pair are related by originating at either end of a clone insert. http://purl.obolibrary.org/obo/SO_0000007 mate pair http://purl.obolibrary.org/obo/SO_0000007 read-pair http://purl.obolibrary.org/obo/SO_0000007 sequence http://purl.obolibrary.org/obo/SO_0000007 SO:0000007 http://purl.obolibrary.org/obo/SO_0000007 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000007 read_pair http://purl.obolibrary.org/obo/SO_0000008 sequence http://purl.obolibrary.org/obo/SO_0000008 SO:0000008 http://purl.obolibrary.org/obo/SO_0000008 gene_sensu_your_favorite_organism http://purl.obolibrary.org/obo/SO_0000008 true http://purl.obolibrary.org/obo/SO_0000009 sequence http://purl.obolibrary.org/obo/SO_0000009 SO:0000009 http://purl.obolibrary.org/obo/SO_0000009 gene_class http://purl.obolibrary.org/obo/SO_0000009 true http://purl.obolibrary.org/obo/SO_0000010 protein-coding http://purl.obolibrary.org/obo/SO_0000010 sequence http://purl.obolibrary.org/obo/SO_0000010 SO:0000010 http://purl.obolibrary.org/obo/SO_0000010 protein_coding http://purl.obolibrary.org/obo/SO_0000011 non protein-coding http://purl.obolibrary.org/obo/SO_0000011 sequence http://purl.obolibrary.org/obo/SO_0000011 SO:0000011 http://purl.obolibrary.org/obo/SO_0000011 non_protein_coding http://www.ebi.ac.uk/embl/WebFeat/align/scRNA_s.html http://purl.obolibrary.org/obo/SO_0000012 The primary transcript of any one of several small cytoplasmic RNA molecules present in the cytoplasm and sometimes nucleus of a Eukaryote. http://purl.obolibrary.org/obo/SO_0000012 scRNA primary transcript http://purl.obolibrary.org/obo/SO_0000012 scRNA transcript http://purl.obolibrary.org/obo/SO_0000012 small cytoplasmic RNA transcript http://purl.obolibrary.org/obo/SO_0000012 sequence http://purl.obolibrary.org/obo/SO_0000012 small cytoplasmic RNA http://purl.obolibrary.org/obo/SO_0000012 small_cytoplasmic_RNA http://purl.obolibrary.org/obo/SO_0000012 SO:0000012 http://purl.obolibrary.org/obo/SO_0000012 scRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000013 A small non coding RNA sequence, present in the cytoplasm. http://purl.obolibrary.org/obo/SO_0000013 small cytoplasmic RNA http://purl.obolibrary.org/obo/SO_0000013 sequence http://purl.obolibrary.org/obo/SO_0000013 SO:0000013 http://purl.obolibrary.org/obo/SO_0000013 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000013 scRNA PMID:12651739 PMID:16858867 http://purl.obolibrary.org/obo/SO_0000014 A sequence element characteristic of some RNA polymerase II promoters required for the correct positioning of the polymerase for the start of transcription. Overlaps the TSS. The mammalian consensus sequence is YYAN(T|A)YY; the Drosophila consensus sequence is TCA(G|T)t(T|C). In each the A is at position +1 with respect to the TSS. Functionally similar to the TATA box element. http://purl.obolibrary.org/obo/SO_0000014 INR motif http://purl.obolibrary.org/obo/SO_0000014 initiator http://purl.obolibrary.org/obo/SO_0000014 initiator motif http://purl.obolibrary.org/obo/SO_0000014 sequence http://purl.obolibrary.org/obo/SO_0000014 DMp2 http://purl.obolibrary.org/obo/SO_0000014 SO:0000014 http://purl.obolibrary.org/obo/SO_0000014 Binds TAF1, TAF2. http://purl.obolibrary.org/obo/SO_0000014 INR_motif PMID:12651739:12537576 PMID:16858867 http://purl.obolibrary.org/obo/SO_0000015 A sequence element characteristic of some RNA polymerase II promoters; Positioned from +28 to +32 with respect to the TSS (+1). Experimental results suggest that the DPE acts in conjunction with the INR_motif to provide a binding site for TFIID in the absence of a TATA box to mediate transcription of TATA-less promoters. Consensus sequence (A|G)G(A|T)(C|T)(G|A|C). http://purl.obolibrary.org/obo/SO_0000015 DPE motif http://purl.obolibrary.org/obo/SO_0000015 downstream core promoter element http://purl.obolibrary.org/obo/SO_0000015 CRWMGCGWKCGCTTS http://purl.obolibrary.org/obo/SO_0000015 sequence http://purl.obolibrary.org/obo/SO_0000015 SO:0000015 http://purl.obolibrary.org/obo/SO_0000015 Binds TAF6, TAF9. http://purl.obolibrary.org/obo/SO_0000015 DPE_motif PMID:12651739 PMID:16858867 http://purl.obolibrary.org/obo/SO_0000016 A sequence element characteristic of some RNA polymerase II promoters, located immediately upstream of some TATA box elements at -37 to -32 with respect to the TSS (+1). Consensus sequence is (G|C)(G|C)(G|A)CGCC. Binds TFIIB. http://purl.obolibrary.org/obo/SO_0000016 B-recognition element http://purl.obolibrary.org/obo/SO_0000016 BRE motif http://purl.obolibrary.org/obo/SO_0000016 BREu motif http://purl.obolibrary.org/obo/SO_0000016 transcription factor B-recognition element http://purl.obolibrary.org/obo/SO_0000016 sequence http://purl.obolibrary.org/obo/SO_0000016 BREu http://purl.obolibrary.org/obo/SO_0000016 TFIIB recognition element http://purl.obolibrary.org/obo/SO_0000016 SO:0000016 http://purl.obolibrary.org/obo/SO_0000016 Binds TFIIB. http://purl.obolibrary.org/obo/SO_0000016 BREu_motif PMID:12651739 http://purl.obolibrary.org/obo/SO_0000017 A sequence element characteristic of the promoters of snRNA genes transcribed by RNA polymerase II or by RNA polymerase III. Located between -45 and -60 relative to the TSS. The human PSE_motif consensus sequence is TCACCNTNA(C|G)TNAAAAG(T|G). http://purl.obolibrary.org/obo/SO_0000017 PSE motif http://purl.obolibrary.org/obo/SO_0000017 proximal sequence element http://purl.obolibrary.org/obo/SO_0000017 sequence http://purl.obolibrary.org/obo/SO_0000017 SO:0000017 http://purl.obolibrary.org/obo/SO_0000017 PSE_motif ISBN:038752046 http://purl.obolibrary.org/obo/SO_0000018 A group of loci that can be grouped in a linear order representing the different degrees of linkage among the genes concerned. wiki http://purl.obolibrary.org/obo/SO_0000018 http://en.wikipedia.org/wiki/Linkage_group http://purl.obolibrary.org/obo/SO_0000018 linkage group http://purl.obolibrary.org/obo/SO_0000018 sequence http://purl.obolibrary.org/obo/SO_0000018 SO:0000018 http://purl.obolibrary.org/obo/SO_0000018 linkage_group SO:ke http://purl.obolibrary.org/obo/SO_0000020 A region of double stranded RNA where the bases do not conform to WC base pairing. The loop is closed on both sides by canonical base pairing. If the interruption to base pairing occurs on one strand only, it is known as a bulge. http://purl.obolibrary.org/obo/SO_0000020 RNA internal loop http://purl.obolibrary.org/obo/SO_0000020 sequence http://purl.obolibrary.org/obo/SO_0000020 SO:0000020 http://purl.obolibrary.org/obo/SO_0000020 RNA_internal_loop SO:ke http://purl.obolibrary.org/obo/SO_0000021 An internal RNA loop where one of the strands includes more bases than the corresponding region on the other strand. http://purl.obolibrary.org/obo/SO_0000021 asymmetric RNA internal loop http://purl.obolibrary.org/obo/SO_0000021 sequence http://purl.obolibrary.org/obo/SO_0000021 SO:0000021 http://purl.obolibrary.org/obo/SO_0000021 asymmetric_RNA_internal_loop SO:ke http://purl.obolibrary.org/obo/SO_0000022 A region forming a motif, composed of adenines, where the minor groove edges are inserted into the minor groove of another helix. http://purl.obolibrary.org/obo/SO_0000022 A minor RNA motif http://purl.obolibrary.org/obo/SO_0000022 sequence http://purl.obolibrary.org/obo/SO_0000022 SO:0000022 http://purl.obolibrary.org/obo/SO_0000022 A_minor_RNA_motif SO:ke http://purl.obolibrary.org/obo/SO_0000023 The kink turn (K-turn) is an RNA structural motif that creates a sharp (~120 degree) bend between two continuous helices. wiki http://purl.obolibrary.org/obo/SO_0000023 http://en.wikipedia.org/wiki/K-turn http://purl.obolibrary.org/obo/SO_0000023 K turn RNA motif http://purl.obolibrary.org/obo/SO_0000023 K-turn http://purl.obolibrary.org/obo/SO_0000023 kink turn http://purl.obolibrary.org/obo/SO_0000023 kink-turn motif http://purl.obolibrary.org/obo/SO_0000023 sequence http://purl.obolibrary.org/obo/SO_0000023 SO:0000023 http://purl.obolibrary.org/obo/SO_0000023 K_turn_RNA_motif http://www.ncbi.nlm.nih.gov/pubmed/7897662 http://purl.obolibrary.org/obo/SO_0000024 A loop in ribosomal RNA containing the sites of attack for ricin and sarcin. http://purl.obolibrary.org/obo/SO_0000024 sarcin like RNA motif http://purl.obolibrary.org/obo/SO_0000024 sarcin/ricin RNA domain http://purl.obolibrary.org/obo/SO_0000024 sarcin/ricin domain http://purl.obolibrary.org/obo/SO_0000024 sarcin/ricin loop http://purl.obolibrary.org/obo/SO_0000024 sequence http://purl.obolibrary.org/obo/SO_0000024 SO:0000024 http://purl.obolibrary.org/obo/SO_0000024 sarcin_like_RNA_motif SO:ke http://purl.obolibrary.org/obo/SO_0000025 An internal RNA loop where the extent of the loop on both stands is the same size. http://purl.obolibrary.org/obo/SO_0000025 A-minor RNA motif http://purl.obolibrary.org/obo/SO_0000025 sequence http://purl.obolibrary.org/obo/SO_0000025 SO:0000025 http://purl.obolibrary.org/obo/SO_0000025 symmetric_RNA_internal_loop http://purl.obolibrary.org/obo/SO_0000026 RNA junction loop http://purl.obolibrary.org/obo/SO_0000026 sequence http://purl.obolibrary.org/obo/SO_0000026 SO:0000026 http://purl.obolibrary.org/obo/SO_0000026 RNA_junction_loop http://purl.obolibrary.org/obo/SO_0000027 RNA hook turn http://purl.obolibrary.org/obo/SO_0000027 hook-turn motif http://purl.obolibrary.org/obo/SO_0000027 sequence http://purl.obolibrary.org/obo/SO_0000027 hook turn http://purl.obolibrary.org/obo/SO_0000027 SO:0000027 http://purl.obolibrary.org/obo/SO_0000027 RNA_hook_turn wiki http://purl.obolibrary.org/obo/SO_0000028 http://en.wikipedia.org/wiki/Base_pair http://purl.obolibrary.org/obo/SO_0000028 base pair http://purl.obolibrary.org/obo/SO_0000028 sequence http://purl.obolibrary.org/obo/SO_0000028 SO:0000028 http://purl.obolibrary.org/obo/SO_0000028 base_pair PMID:12177293 http://purl.obolibrary.org/obo/SO_0000029 The canonical base pair, where two bases interact via WC edges, with glycosidic bonds oriented cis relative to the axis of orientation. http://purl.obolibrary.org/obo/SO_0000029 WC base pair http://purl.obolibrary.org/obo/SO_0000029 Watson Crick base pair http://purl.obolibrary.org/obo/SO_0000029 Watson-Crick pair http://purl.obolibrary.org/obo/SO_0000029 canonical base pair http://purl.obolibrary.org/obo/SO_0000029 sequence http://purl.obolibrary.org/obo/SO_0000029 Watson-Crick base pair http://purl.obolibrary.org/obo/SO_0000029 SO:0000029 http://purl.obolibrary.org/obo/SO_0000029 WC_base_pair PMID:12177293 http://purl.obolibrary.org/obo/SO_0000030 A type of non-canonical base-pairing. http://purl.obolibrary.org/obo/SO_0000030 sugar edge base pair http://purl.obolibrary.org/obo/SO_0000030 sequence http://purl.obolibrary.org/obo/SO_0000030 SO:0000030 http://purl.obolibrary.org/obo/SO_0000030 sugar_edge_base_pair http://aptamer.icmb.utexas.edu http://purl.obolibrary.org/obo/SO_0000031 DNA or RNA molecules that have been selected from random pools based on their ability to bind other molecules. wiki http://purl.obolibrary.org/obo/SO_0000031 http://en.wikipedia.org/wiki/Aptamer http://purl.obolibrary.org/obo/SO_0000031 sequence http://purl.obolibrary.org/obo/SO_0000031 SO:0000031 http://purl.obolibrary.org/obo/SO_0000031 aptamer http:aptamer.icmb.utexas.edu http://purl.obolibrary.org/obo/SO_0000032 DNA molecules that have been selected from random pools based on their ability to bind other molecules. http://purl.obolibrary.org/obo/SO_0000032 DNA aptamer http://purl.obolibrary.org/obo/SO_0000032 sequence http://purl.obolibrary.org/obo/SO_0000032 SO:0000032 http://purl.obolibrary.org/obo/SO_0000032 DNA_aptamer http://aptamer.icmb.utexas.edu http://purl.obolibrary.org/obo/SO_0000033 RNA molecules that have been selected from random pools based on their ability to bind other molecules. http://purl.obolibrary.org/obo/SO_0000033 RNA aptamer http://purl.obolibrary.org/obo/SO_0000033 sequence http://purl.obolibrary.org/obo/SO_0000033 SO:0000033 http://purl.obolibrary.org/obo/SO_0000033 RNA_aptamer http://www.gene-tools.com/ http://purl.obolibrary.org/obo/SO_0000034 Morpholino oligos are synthesized from four different Morpholino subunits, each of which contains one of the four genetic bases (A, C, G, T) linked to a 6-membered morpholine ring. Eighteen to 25 subunits of these four subunit types are joined in a specific order by non-ionic phosphorodiamidate intersubunit linkages to give a Morpholino. http://purl.obolibrary.org/obo/SO_0000034 morphant http://purl.obolibrary.org/obo/SO_0000034 morpholino http://purl.obolibrary.org/obo/SO_0000034 morpholino oligo http://purl.obolibrary.org/obo/SO_0000034 sequence http://purl.obolibrary.org/obo/SO_0000034 SO:0000034 http://purl.obolibrary.org/obo/SO_0000034 morpholino_oligo PMID:2820954 http://purl.obolibrary.org/obo/SO_0000035 A riboswitch is a part of an mRNA that can act as a direct sensor of small molecules to control their own expression. A riboswitch is a cis element in the 5' end of an mRNA, that acts as a direct sensor of metabolites. wiki http://purl.obolibrary.org/obo/SO_0000035 http://en.wikipedia.org/wiki/Riboswitch http://purl.obolibrary.org/obo/SO_0000035 riboswitch RNA http://purl.obolibrary.org/obo/SO_0000035 sequence http://purl.obolibrary.org/obo/SO_0000035 SO:0000035 http://purl.obolibrary.org/obo/SO_0000035 riboswitch SO:ma http://purl.obolibrary.org/obo/SO_0000036 A DNA region that is required for the binding of chromatin to the nuclear matrix. wiki http://purl.obolibrary.org/obo/SO_0000036 http://en.wikipedia.org/wiki/Matrix_attachment_site http://purl.obolibrary.org/obo/SO_0000036 MAR http://purl.obolibrary.org/obo/SO_0000036 S/MAR http://purl.obolibrary.org/obo/SO_0000036 SMAR http://purl.obolibrary.org/obo/SO_0000036 matrix association region http://purl.obolibrary.org/obo/SO_0000036 matrix attachment region http://purl.obolibrary.org/obo/SO_0000036 matrix attachment site http://purl.obolibrary.org/obo/SO_0000036 nuclear matrix association region http://purl.obolibrary.org/obo/SO_0000036 nuclear matrix attachment site http://purl.obolibrary.org/obo/SO_0000036 scaffold attachment site http://purl.obolibrary.org/obo/SO_0000036 scaffold matrix attachment region http://purl.obolibrary.org/obo/SO_0000036 sequence http://purl.obolibrary.org/obo/SO_0000036 S/MAR element http://purl.obolibrary.org/obo/SO_0000036 SO:0000036 http://purl.obolibrary.org/obo/SO_0000036 matrix_attachment_site SO:ma http://purl.obolibrary.org/obo/SO_0000037 A DNA region that includes DNAse hypersensitive sites located 5' to a gene that confers the high-level, position-independent, and copy number-dependent expression to that gene. wiki http://purl.obolibrary.org/obo/SO_0000037 http://en.wikipedia.org/wiki/Locus_control_region http://purl.obolibrary.org/obo/SO_0000037 LCR http://purl.obolibrary.org/obo/SO_0000037 locus control region http://purl.obolibrary.org/obo/SO_0000037 sequence http://purl.obolibrary.org/obo/SO_0000037 locus control element http://purl.obolibrary.org/obo/SO_0000037 SO:0000037 http://purl.obolibrary.org/obo/SO_0000037 locus_control_region SO:ke http://purl.obolibrary.org/obo/SO_0000038 A collection of match parts. http://purl.obolibrary.org/obo/SO_0000038 sequence http://purl.obolibrary.org/obo/SO_0000038 SO:0000038 http://purl.obolibrary.org/obo/SO_0000038 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000038 match_set http://purl.obolibrary.org/obo/SO_0000038 true SO:ke http://purl.obolibrary.org/obo/SO_0000039 A part of a match, for example an hsp from blast is a match_part. http://purl.obolibrary.org/obo/SO_0000039 match part http://purl.obolibrary.org/obo/SO_0000039 sequence http://purl.obolibrary.org/obo/SO_0000039 SO:0000039 http://purl.obolibrary.org/obo/SO_0000039 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000039 match_part SO:ma http://purl.obolibrary.org/obo/SO_0000040 A clone of a DNA region of a genome. http://purl.obolibrary.org/obo/SO_0000040 genomic clone http://purl.obolibrary.org/obo/SO_0000040 sequence http://purl.obolibrary.org/obo/SO_0000040 SO:0000040 http://purl.obolibrary.org/obo/SO_0000040 genomic_clone SO:ke http://purl.obolibrary.org/obo/SO_0000041 An operation that can be applied to a sequence, that results in a change. http://purl.obolibrary.org/obo/SO_0000041 sequence operation http://purl.obolibrary.org/obo/SO_0000041 sequence http://purl.obolibrary.org/obo/SO_0000041 SO:0000041 http://purl.obolibrary.org/obo/SO_0000041 sequence_operation http://purl.obolibrary.org/obo/SO_0000041 true SO:ma http://purl.obolibrary.org/obo/SO_0000042 An attribute of a pseudogene (SO:0000336). http://purl.obolibrary.org/obo/SO_0000042 pseudogene attribute http://purl.obolibrary.org/obo/SO_0000042 sequence http://purl.obolibrary.org/obo/SO_0000042 SO:0000042 http://purl.obolibrary.org/obo/SO_0000042 pseudogene_attribute http://purl.obolibrary.org/obo/SO_0000042 true SO:xp http://purl.obolibrary.org/obo/SO_0000043 A pseudogene where by an mRNA was retrotransposed. The mRNA sequence is transcribed back into the genome, lacking introns and promoters, but often including a polyA tail. http://purl.obolibrary.org/obo/SO_0000043 processed pseudogene http://purl.obolibrary.org/obo/SO_0000043 retropseudogene http://purl.obolibrary.org/obo/SO_0000043 sequence http://purl.obolibrary.org/obo/SO_0000043 R psi G http://purl.obolibrary.org/obo/SO_0000043 pseudogene by reverse transcription http://purl.obolibrary.org/obo/SO_0000043 SO:0000043 http://purl.obolibrary.org/obo/SO_0000043 Please not the synonym R psi M uses the spelled out form of the greek letter. http://purl.obolibrary.org/obo/SO_0000043 processed_pseudogene SO:ke http://purl.obolibrary.org/obo/SO_0000044 A pseudogene caused by unequal crossing over at recombination. http://purl.obolibrary.org/obo/SO_0000044 pseudogene by unequal crossing over http://purl.obolibrary.org/obo/SO_0000044 sequence http://purl.obolibrary.org/obo/SO_0000044 SO:0000044 http://purl.obolibrary.org/obo/SO_0000044 pseudogene_by_unequal_crossing_over SO:ke http://purl.obolibrary.org/obo/SO_0000045 To remove a subsection of sequence. http://purl.obolibrary.org/obo/SO_0000045 sequence http://purl.obolibrary.org/obo/SO_0000045 SO:0000045 http://purl.obolibrary.org/obo/SO_0000045 delete http://purl.obolibrary.org/obo/SO_0000045 true SO:ke http://purl.obolibrary.org/obo/SO_0000046 To insert a subsection of sequence. http://purl.obolibrary.org/obo/SO_0000046 sequence http://purl.obolibrary.org/obo/SO_0000046 SO:0000046 http://purl.obolibrary.org/obo/SO_0000046 insert http://purl.obolibrary.org/obo/SO_0000046 true SO:ke http://purl.obolibrary.org/obo/SO_0000047 To invert a subsection of sequence. http://purl.obolibrary.org/obo/SO_0000047 sequence http://purl.obolibrary.org/obo/SO_0000047 SO:0000047 http://purl.obolibrary.org/obo/SO_0000047 invert http://purl.obolibrary.org/obo/SO_0000047 true SO:ke http://purl.obolibrary.org/obo/SO_0000048 To substitute a subsection of sequence for another. http://purl.obolibrary.org/obo/SO_0000048 sequence http://purl.obolibrary.org/obo/SO_0000048 SO:0000048 http://purl.obolibrary.org/obo/SO_0000048 substitute http://purl.obolibrary.org/obo/SO_0000048 true SO:ke http://purl.obolibrary.org/obo/SO_0000049 To translocate a subsection of sequence. http://purl.obolibrary.org/obo/SO_0000049 sequence http://purl.obolibrary.org/obo/SO_0000049 SO:0000049 http://purl.obolibrary.org/obo/SO_0000049 translocate http://purl.obolibrary.org/obo/SO_0000049 true SO:ke http://purl.obolibrary.org/obo/SO_0000050 A part of a gene, that has no other route in the ontology back to region. This concept is necessary for logical inference as these parts must have the properties of region. It also allows us to associate all the parts of genes with a gene. http://purl.obolibrary.org/obo/SO_0000050 sequence http://purl.obolibrary.org/obo/SO_0000050 SO:0000050 http://purl.obolibrary.org/obo/SO_0000050 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000050 gene_part http://purl.obolibrary.org/obo/SO_0000050 true SO:ma http://purl.obolibrary.org/obo/SO_0000051 A DNA sequence used experimentally to detect the presence or absence of a complementary nucleic acid. wiki http://purl.obolibrary.org/obo/SO_0000051 http://en.wikipedia.org/wiki/Hybridization_probe http://purl.obolibrary.org/obo/SO_0000051 sequence http://purl.obolibrary.org/obo/SO_0000051 SO:0000051 http://purl.obolibrary.org/obo/SO_0000051 probe http://purl.obolibrary.org/obo/SO_0000052 sequence http://purl.obolibrary.org/obo/SO_0000052 assortment-derived_deficiency http://purl.obolibrary.org/obo/SO_0000052 SO:0000052 http://purl.obolibrary.org/obo/SO_0000052 assortment_derived_deficiency http://purl.obolibrary.org/obo/SO_0000052 true SO:ke http://purl.obolibrary.org/obo/SO_0000053 A sequence_variant_effect which changes the regulatory region of a gene. http://purl.obolibrary.org/obo/SO_0000053 SO:0001556 http://purl.obolibrary.org/obo/SO_0000053 sequence variant affecting regulatory region http://purl.obolibrary.org/obo/SO_0000053 sequence http://purl.obolibrary.org/obo/SO_0000053 mutation affecting regulatory region http://purl.obolibrary.org/obo/SO_0000053 SO:0000053 http://purl.obolibrary.org/obo/SO_0000053 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_0000053 sequence_variant_affecting_regulatory_region http://purl.obolibrary.org/obo/SO_0000053 true SO:ke http://purl.obolibrary.org/obo/SO_0000054 A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number. wiki http://purl.obolibrary.org/obo/SO_0000054 http://en.wikipedia.org/wiki/Aneuploid http://purl.obolibrary.org/obo/SO_0000054 sequence http://purl.obolibrary.org/obo/SO_0000054 SO:0000054 http://purl.obolibrary.org/obo/SO_0000054 aneuploid SO:ke http://purl.obolibrary.org/obo/SO_0000055 A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number as extra chromosomes are present. wiki http://purl.obolibrary.org/obo/SO_0000055 http://en.wikipedia.org/wiki/Hyperploid http://purl.obolibrary.org/obo/SO_0000055 sequence http://purl.obolibrary.org/obo/SO_0000055 SO:0000055 http://purl.obolibrary.org/obo/SO_0000055 hyperploid SO:ke http://purl.obolibrary.org/obo/SO_0000056 A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number as some chromosomes are missing. wiki http://purl.obolibrary.org/obo/SO_0000056 http://en.wikipedia.org/wiki/Hypoploid http://purl.obolibrary.org/obo/SO_0000056 sequence http://purl.obolibrary.org/obo/SO_0000056 SO:0000056 http://purl.obolibrary.org/obo/SO_0000056 hypoploid SO:ma http://purl.obolibrary.org/obo/SO_0000057 A regulatory element of an operon to which activators or repressors bind thereby effecting translation of genes in that operon. wiki http://purl.obolibrary.org/obo/SO_0000057 http://en.wikipedia.org/wiki/Operator_(biology)#Operator http://purl.obolibrary.org/obo/SO_0000057 operator segment http://purl.obolibrary.org/obo/SO_0000057 sequence http://purl.obolibrary.org/obo/SO_0000057 SO:0000057 http://purl.obolibrary.org/obo/SO_0000057 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000057 operator http://purl.obolibrary.org/obo/SO_0000058 sequence http://purl.obolibrary.org/obo/SO_0000058 assortment-derived_aneuploid http://purl.obolibrary.org/obo/SO_0000058 SO:0000058 http://purl.obolibrary.org/obo/SO_0000058 assortment_derived_aneuploid http://purl.obolibrary.org/obo/SO_0000058 true SO:cb http://purl.obolibrary.org/obo/SO_0000059 A binding site that, of a nucleotide molecule, that interacts selectively and non-covalently with polypeptide residues of a nuclease. http://purl.obolibrary.org/obo/SO_0000059 nuclease binding site http://purl.obolibrary.org/obo/SO_0000059 sequence http://purl.obolibrary.org/obo/SO_0000059 SO:0000059 http://purl.obolibrary.org/obo/SO_0000059 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000059 nuclease_binding_site http://purl.obolibrary.org/obo/SO_0000060 compound chromosome arm http://purl.obolibrary.org/obo/SO_0000060 sequence http://purl.obolibrary.org/obo/SO_0000060 SO:0000060 http://purl.obolibrary.org/obo/SO_0000060 FLAG - this term is should probably be a part of rather than an is_a. http://purl.obolibrary.org/obo/SO_0000060 compound_chromosome_arm SO:cb http://purl.obolibrary.org/obo/SO_0000061 A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues of a restriction enzyme. http://purl.obolibrary.org/obo/SO_0000061 restriction endonuclease binding site http://purl.obolibrary.org/obo/SO_0000061 restriction enzyme binding site http://purl.obolibrary.org/obo/SO_0000061 sequence http://purl.obolibrary.org/obo/SO_0000061 SO:0000061 http://purl.obolibrary.org/obo/SO_0000061 A region of a molecule that binds to a restriction enzyme. http://purl.obolibrary.org/obo/SO_0000061 restriction_enzyme_binding_site FB:reference_manual http://purl.obolibrary.org/obo/SO_0000062 An intrachromosomal transposition whereby a translocation in which one of the four broken ends loses a segment before re-joining. http://purl.obolibrary.org/obo/SO_0000062 deficient intrachromosomal transposition http://purl.obolibrary.org/obo/SO_0000062 sequence http://purl.obolibrary.org/obo/SO_0000062 SO:0000062 http://purl.obolibrary.org/obo/SO_0000062 deficient_intrachromosomal_transposition SO:ke http://purl.obolibrary.org/obo/SO_0000063 An interchromosomal transposition whereby a translocation in which one of the four broken ends loses a segment before re-joining. http://purl.obolibrary.org/obo/SO_0000063 deficient interchromosomal transposition http://purl.obolibrary.org/obo/SO_0000063 sequence http://purl.obolibrary.org/obo/SO_0000063 SO:0000063 http://purl.obolibrary.org/obo/SO_0000063 deficient_interchromosomal_transposition http://purl.obolibrary.org/obo/SO_0000064 sequence http://purl.obolibrary.org/obo/SO_0000064 SO:0000064 http://purl.obolibrary.org/obo/SO_0000064 This classes of attributes was added by MA to allow the broad description of genes based on qualities of the transcript(s). A product of SO meeting 2004. http://purl.obolibrary.org/obo/SO_0000064 gene_by_transcript_attribute http://purl.obolibrary.org/obo/SO_0000064 true SO:ke http://purl.obolibrary.org/obo/SO_0000065 A chromosome structure variation whereby an arm exists as an individual chromosome element. http://purl.obolibrary.org/obo/SO_0000065 free chromosome arm http://purl.obolibrary.org/obo/SO_0000065 sequence http://purl.obolibrary.org/obo/SO_0000065 SO:0000065 http://purl.obolibrary.org/obo/SO_0000065 free_chromosome_arm http://purl.obolibrary.org/obo/SO_0000066 sequence http://purl.obolibrary.org/obo/SO_0000066 SO:0000066 http://purl.obolibrary.org/obo/SO_0000066 gene_by_polyadenylation_attribute http://purl.obolibrary.org/obo/SO_0000066 true http://purl.obolibrary.org/obo/SO_0000067 gene to gene feature http://purl.obolibrary.org/obo/SO_0000067 sequence http://purl.obolibrary.org/obo/SO_0000067 SO:0000067 http://purl.obolibrary.org/obo/SO_0000067 gene_to_gene_feature SO:ke http://purl.obolibrary.org/obo/SO_0000068 An attribute describing a gene that has a sequence that overlaps the sequence of another gene. http://purl.obolibrary.org/obo/SO_0000068 sequence http://purl.obolibrary.org/obo/SO_0000068 SO:0000068 http://purl.obolibrary.org/obo/SO_0000068 overlapping SO:ke http://purl.obolibrary.org/obo/SO_0000069 An attribute to describe a gene when it is located within the intron of another gene. http://purl.obolibrary.org/obo/SO_0000069 inside intron http://purl.obolibrary.org/obo/SO_0000069 sequence http://purl.obolibrary.org/obo/SO_0000069 SO:0000069 http://purl.obolibrary.org/obo/SO_0000069 inside_intron SO:ke http://purl.obolibrary.org/obo/SO_0000070 An attribute to describe a gene when it is located within the intron of another gene and on the opposite strand. http://purl.obolibrary.org/obo/SO_0000070 inside intron antiparallel http://purl.obolibrary.org/obo/SO_0000070 sequence http://purl.obolibrary.org/obo/SO_0000070 SO:0000070 http://purl.obolibrary.org/obo/SO_0000070 inside_intron_antiparallel SO:ke http://purl.obolibrary.org/obo/SO_0000071 An attribute to describe a gene when it is located within the intron of another gene and on the same strand. http://purl.obolibrary.org/obo/SO_0000071 inside intron parallel http://purl.obolibrary.org/obo/SO_0000071 sequence http://purl.obolibrary.org/obo/SO_0000071 SO:0000071 http://purl.obolibrary.org/obo/SO_0000071 inside_intron_parallel http://purl.obolibrary.org/obo/SO_0000072 sequence http://purl.obolibrary.org/obo/SO_0000072 SO:0000072 http://purl.obolibrary.org/obo/SO_0000072 end_overlapping_gene http://purl.obolibrary.org/obo/SO_0000072 true SO:ke http://purl.obolibrary.org/obo/SO_0000073 An attribute to describe a gene when the five prime region overlaps with another gene's 3' region. http://purl.obolibrary.org/obo/SO_0000073 five prime-three prime overlap http://purl.obolibrary.org/obo/SO_0000073 sequence http://purl.obolibrary.org/obo/SO_0000073 SO:0000073 http://purl.obolibrary.org/obo/SO_0000073 five_prime_three_prime_overlap SO:ke http://purl.obolibrary.org/obo/SO_0000074 An attribute to describe a gene when the five prime region overlaps with another gene's five prime region. http://purl.obolibrary.org/obo/SO_0000074 five prime-five prime overlap http://purl.obolibrary.org/obo/SO_0000074 sequence http://purl.obolibrary.org/obo/SO_0000074 SO:0000074 http://purl.obolibrary.org/obo/SO_0000074 five_prime_five_prime_overlap SO:ke http://purl.obolibrary.org/obo/SO_0000075 An attribute to describe a gene when the 3' region overlaps with another gene's 3' region. http://purl.obolibrary.org/obo/SO_0000075 three prime-three prime overlap http://purl.obolibrary.org/obo/SO_0000075 sequence http://purl.obolibrary.org/obo/SO_0000075 SO:0000075 http://purl.obolibrary.org/obo/SO_0000075 three_prime_three_prime_overlap SO:ke http://purl.obolibrary.org/obo/SO_0000076 An attribute to describe a gene when the 3' region overlaps with another gene's 5' region. http://purl.obolibrary.org/obo/SO_0000076 5' 3' overlap http://purl.obolibrary.org/obo/SO_0000076 three prime five prime overlap http://purl.obolibrary.org/obo/SO_0000076 sequence http://purl.obolibrary.org/obo/SO_0000076 SO:0000076 http://purl.obolibrary.org/obo/SO_0000076 three_prime_five_prime_overlap SO:ke http://purl.obolibrary.org/obo/SO_0000077 A region sequence that is complementary to a sequence of messenger RNA. wiki http://purl.obolibrary.org/obo/SO_0000077 http://en.wikipedia.org/wiki/Antisense http://purl.obolibrary.org/obo/SO_0000077 sequence http://purl.obolibrary.org/obo/SO_0000077 SO:0000077 http://purl.obolibrary.org/obo/SO_0000077 antisense SO:xp http://purl.obolibrary.org/obo/SO_0000078 A transcript that is polycistronic. http://purl.obolibrary.org/obo/SO_0000078 polycistronic transcript http://purl.obolibrary.org/obo/SO_0000078 sequence http://purl.obolibrary.org/obo/SO_0000078 SO:0000078 http://purl.obolibrary.org/obo/SO_0000078 polycistronic_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000079 A transcript that is dicistronic. http://purl.obolibrary.org/obo/SO_0000079 dicistronic transcript http://purl.obolibrary.org/obo/SO_0000079 sequence http://purl.obolibrary.org/obo/SO_0000079 SO:0000079 http://purl.obolibrary.org/obo/SO_0000079 dicistronic_transcript http://purl.obolibrary.org/obo/SO_0000080 operon member http://purl.obolibrary.org/obo/SO_0000080 sequence http://purl.obolibrary.org/obo/SO_0000080 SO:0000080 http://purl.obolibrary.org/obo/SO_0000080 operon_member http://purl.obolibrary.org/obo/SO_0000081 gene array member http://purl.obolibrary.org/obo/SO_0000081 sequence http://purl.obolibrary.org/obo/SO_0000081 SO:0000081 http://purl.obolibrary.org/obo/SO_0000081 gene_array_member http://purl.obolibrary.org/obo/SO_0000082 sequence http://purl.obolibrary.org/obo/SO_0000082 SO:0000082 http://purl.obolibrary.org/obo/SO_0000082 processed_transcript_attribute http://purl.obolibrary.org/obo/SO_0000082 true http://purl.obolibrary.org/obo/SO_0000083 macronuclear sequence http://purl.obolibrary.org/obo/SO_0000083 sequence http://purl.obolibrary.org/obo/SO_0000083 SO:0000083 http://purl.obolibrary.org/obo/SO_0000083 macronuclear_sequence http://purl.obolibrary.org/obo/SO_0000084 micronuclear sequence http://purl.obolibrary.org/obo/SO_0000084 sequence http://purl.obolibrary.org/obo/SO_0000084 SO:0000084 http://purl.obolibrary.org/obo/SO_0000084 micronuclear_sequence http://purl.obolibrary.org/obo/SO_0000085 sequence http://purl.obolibrary.org/obo/SO_0000085 SO:0000085 http://purl.obolibrary.org/obo/SO_0000085 gene_by_genome_location http://purl.obolibrary.org/obo/SO_0000085 true http://purl.obolibrary.org/obo/SO_0000086 sequence http://purl.obolibrary.org/obo/SO_0000086 SO:0000086 http://purl.obolibrary.org/obo/SO_0000086 gene_by_organelle_of_genome http://purl.obolibrary.org/obo/SO_0000086 true SO:xp http://purl.obolibrary.org/obo/SO_0000087 A gene from nuclear sequence. wiki http://purl.obolibrary.org/obo/SO_0000087 http://en.wikipedia.org/wiki/Nuclear_gene http://purl.obolibrary.org/obo/SO_0000087 nuclear gene http://purl.obolibrary.org/obo/SO_0000087 sequence http://purl.obolibrary.org/obo/SO_0000087 SO:0000087 http://purl.obolibrary.org/obo/SO_0000087 nuclear_gene SO:xp http://purl.obolibrary.org/obo/SO_0000088 A gene located in mitochondrial sequence. wiki http://purl.obolibrary.org/obo/SO_0000088 http://en.wikipedia.org/wiki/Mitochondrial_gene http://purl.obolibrary.org/obo/SO_0000088 mitochondrial gene http://purl.obolibrary.org/obo/SO_0000088 mt gene http://purl.obolibrary.org/obo/SO_0000088 sequence http://purl.obolibrary.org/obo/SO_0000088 SO:0000088 http://purl.obolibrary.org/obo/SO_0000088 mt_gene SO:xp http://purl.obolibrary.org/obo/SO_0000089 A gene located in kinetoplast sequence. http://purl.obolibrary.org/obo/SO_0000089 kinetoplast gene http://purl.obolibrary.org/obo/SO_0000089 sequence http://purl.obolibrary.org/obo/SO_0000089 SO:0000089 http://purl.obolibrary.org/obo/SO_0000089 kinetoplast_gene SO:xp http://purl.obolibrary.org/obo/SO_0000090 A gene from plastid sequence. http://purl.obolibrary.org/obo/SO_0000090 plastid gene http://purl.obolibrary.org/obo/SO_0000090 sequence http://purl.obolibrary.org/obo/SO_0000090 SO:0000090 http://purl.obolibrary.org/obo/SO_0000090 plastid_gene SO:xp http://purl.obolibrary.org/obo/SO_0000091 A gene from apicoplast sequence. http://purl.obolibrary.org/obo/SO_0000091 apicoplast gene http://purl.obolibrary.org/obo/SO_0000091 sequence http://purl.obolibrary.org/obo/SO_0000091 SO:0000091 http://purl.obolibrary.org/obo/SO_0000091 apicoplast_gene SO:xp http://purl.obolibrary.org/obo/SO_0000092 A gene from chloroplast sequence. http://purl.obolibrary.org/obo/SO_0000092 chloroplast gene http://purl.obolibrary.org/obo/SO_0000092 ct gene http://purl.obolibrary.org/obo/SO_0000092 sequence http://purl.obolibrary.org/obo/SO_0000092 SO:0000092 http://purl.obolibrary.org/obo/SO_0000092 ct_gene SO:xp http://purl.obolibrary.org/obo/SO_0000093 A gene from chromoplast_sequence. http://purl.obolibrary.org/obo/SO_0000093 chromoplast gene http://purl.obolibrary.org/obo/SO_0000093 sequence http://purl.obolibrary.org/obo/SO_0000093 SO:0000093 http://purl.obolibrary.org/obo/SO_0000093 chromoplast_gene SO:xp http://purl.obolibrary.org/obo/SO_0000094 A gene from cyanelle sequence. http://purl.obolibrary.org/obo/SO_0000094 cyanelle gene http://purl.obolibrary.org/obo/SO_0000094 sequence http://purl.obolibrary.org/obo/SO_0000094 SO:0000094 http://purl.obolibrary.org/obo/SO_0000094 cyanelle_gene SO:xp http://purl.obolibrary.org/obo/SO_0000095 A plastid gene from leucoplast sequence. http://purl.obolibrary.org/obo/SO_0000095 leucoplast gene http://purl.obolibrary.org/obo/SO_0000095 sequence http://purl.obolibrary.org/obo/SO_0000095 SO:0000095 http://purl.obolibrary.org/obo/SO_0000095 leucoplast_gene SO:ke http://purl.obolibrary.org/obo/SO_0000096 A gene from proplastid sequence. http://purl.obolibrary.org/obo/SO_0000096 proplastid gene http://purl.obolibrary.org/obo/SO_0000096 sequence http://purl.obolibrary.org/obo/SO_0000096 SO:0000096 http://purl.obolibrary.org/obo/SO_0000096 proplastid_gene SO:xp http://purl.obolibrary.org/obo/SO_0000097 A gene from nucleomorph sequence. http://purl.obolibrary.org/obo/SO_0000097 nucleomorph gene http://purl.obolibrary.org/obo/SO_0000097 sequence http://purl.obolibrary.org/obo/SO_0000097 SO:0000097 http://purl.obolibrary.org/obo/SO_0000097 nucleomorph_gene SO:xp http://purl.obolibrary.org/obo/SO_0000098 A gene from plasmid sequence. http://purl.obolibrary.org/obo/SO_0000098 plasmid gene http://purl.obolibrary.org/obo/SO_0000098 sequence http://purl.obolibrary.org/obo/SO_0000098 SO:0000098 http://purl.obolibrary.org/obo/SO_0000098 plasmid_gene SO:xp http://purl.obolibrary.org/obo/SO_0000099 A gene from proviral sequence. http://purl.obolibrary.org/obo/SO_0000099 proviral gene http://purl.obolibrary.org/obo/SO_0000099 sequence http://purl.obolibrary.org/obo/SO_0000099 SO:0000099 http://purl.obolibrary.org/obo/SO_0000099 proviral_gene SO:xp http://purl.obolibrary.org/obo/SO_0000100 A proviral gene with origin endogenous retrovirus. http://purl.obolibrary.org/obo/SO_0000100 endogenous retroviral gene http://purl.obolibrary.org/obo/SO_0000100 sequence http://purl.obolibrary.org/obo/SO_0000100 SO:0000100 http://purl.obolibrary.org/obo/SO_0000100 endogenous_retroviral_gene http://www.sci.sdsu.edu/~smaloy/Glossary/T.html http://purl.obolibrary.org/obo/SO_0000101 A transposon or insertion sequence. An element that can insert in a variety of DNA sequences. wiki http://purl.obolibrary.org/obo/SO_0000101 http://en.wikipedia.org/wiki/Transposable_element http://purl.obolibrary.org/obo/SO_0000101 transposable element http://purl.obolibrary.org/obo/SO_0000101 transposon http://purl.obolibrary.org/obo/SO_0000101 sequence http://purl.obolibrary.org/obo/SO_0000101 SO:0000101 http://purl.obolibrary.org/obo/SO_0000101 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000101 transposable_element SO:ke http://purl.obolibrary.org/obo/SO_0000102 A match to an EST or cDNA sequence. http://purl.obolibrary.org/obo/SO_0000102 expressed sequence match http://purl.obolibrary.org/obo/SO_0000102 sequence http://purl.obolibrary.org/obo/SO_0000102 SO:0000102 http://purl.obolibrary.org/obo/SO_0000102 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000102 expressed_sequence_match SO:ke http://purl.obolibrary.org/obo/SO_0000103 The end of the clone insert. http://purl.obolibrary.org/obo/SO_0000103 clone insert end http://purl.obolibrary.org/obo/SO_0000103 sequence http://purl.obolibrary.org/obo/SO_0000103 SO:0000103 http://purl.obolibrary.org/obo/SO_0000103 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000103 clone_insert_end SO:ma http://purl.obolibrary.org/obo/SO_0000104 A sequence of amino acids linked by peptide bonds which may lack appreciable tertiary structure and may not be liable to irreversible denaturation. http://purl.obolibrary.org/obo/SO_0000104 SO:0000358 wiki http://purl.obolibrary.org/obo/SO_0000104 http://en.wikipedia.org/wiki/Polypeptide http://purl.obolibrary.org/obo/SO_0000104 protein http://purl.obolibrary.org/obo/SO_0000104 sequence http://purl.obolibrary.org/obo/SO_0000104 SO:0000104 http://purl.obolibrary.org/obo/SO_0000104 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000104 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. The term 'protein' was merged with 'polypeptide'. Although 'protein' was a sequence_attribute and therefore meant to describe the quality rather than an actual feature, it was being used erroneously. It is replaced by 'peptidyl' as the polymer attribute. http://purl.obolibrary.org/obo/SO_0000104 polypeptide http://www.medterms.com/script/main/art.asp?articlekey=5152 http://purl.obolibrary.org/obo/SO_0000105 A region of the chromosome between the centromere and the telomere. Human chromosomes have two arms, the p arm (short) and the q arm (long) which are separated from each other by the centromere. http://purl.obolibrary.org/obo/SO_0000105 chromosome arm http://purl.obolibrary.org/obo/SO_0000105 sequence http://purl.obolibrary.org/obo/SO_0000105 SO:0000105 http://purl.obolibrary.org/obo/SO_0000105 chromosome_arm http://purl.obolibrary.org/obo/SO_0000106 sequence http://purl.obolibrary.org/obo/SO_0000106 SO:0000106 http://purl.obolibrary.org/obo/SO_0000106 non_capped_primary_transcript http://purl.obolibrary.org/obo/SO_0000106 true http://purl.obolibrary.org/obo/SO_0000107 sequencing primer http://purl.obolibrary.org/obo/SO_0000107 sequence http://purl.obolibrary.org/obo/SO_0000107 SO:0000107 http://purl.obolibrary.org/obo/SO_0000107 sequencing_primer SO:xp http://purl.obolibrary.org/obo/SO_0000108 An mRNA with a frameshift. http://purl.obolibrary.org/obo/SO_0000108 frameshifted mRNA http://purl.obolibrary.org/obo/SO_0000108 mRNA with frameshift http://purl.obolibrary.org/obo/SO_0000108 sequence http://purl.obolibrary.org/obo/SO_0000108 SO:0000108 http://purl.obolibrary.org/obo/SO_0000108 mRNA_with_frameshift SO:ke http://purl.obolibrary.org/obo/SO_0000109 A sequence_variant is a non exact copy of a sequence_feature or genome exhibiting one or more sequence_alteration. http://purl.obolibrary.org/obo/SO_0000109 sequence http://purl.obolibrary.org/obo/SO_0000109 mutation http://purl.obolibrary.org/obo/SO_0000109 SO:0000109 http://purl.obolibrary.org/obo/SO_0000109 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000109 sequence_variant_obs http://purl.obolibrary.org/obo/SO_0000109 true LAMHDI:mb SO:ke http://purl.obolibrary.org/obo/SO_0000110 Any extent of continuous biological sequence. http://purl.obolibrary.org/obo/SO_0000110 located_sequence_feature http://purl.obolibrary.org/obo/SO_0000110 sequence feature http://purl.obolibrary.org/obo/SO_0000110 sequence http://purl.obolibrary.org/obo/SO_0000110 located sequence feature http://purl.obolibrary.org/obo/SO_0000110 SO:0000110 http://purl.obolibrary.org/obo/SO_0000110 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000110 sequence_feature SO:ke http://purl.obolibrary.org/obo/SO_0000111 A gene encoded within a transposable element. For example gag, int, env and pol are the transposable element genes of the TY element in yeast. http://purl.obolibrary.org/obo/SO_0000111 transposable element gene http://purl.obolibrary.org/obo/SO_0000111 sequence http://purl.obolibrary.org/obo/SO_0000111 SO:0000111 http://purl.obolibrary.org/obo/SO_0000111 transposable_element_gene SO:ke http://purl.obolibrary.org/obo/SO_0000112 An oligo to which new deoxyribonucleotides can be added by DNA polymerase. wiki http://purl.obolibrary.org/obo/SO_0000112 http://en.wikipedia.org/wiki/Primer_(molecular_biology) http://purl.obolibrary.org/obo/SO_0000112 DNA primer http://purl.obolibrary.org/obo/SO_0000112 primer oligonucleotide http://purl.obolibrary.org/obo/SO_0000112 primer polynucleotide http://purl.obolibrary.org/obo/SO_0000112 primer sequence http://purl.obolibrary.org/obo/SO_0000112 sequence http://purl.obolibrary.org/obo/SO_0000112 SO:0000112 http://purl.obolibrary.org/obo/SO_0000112 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000112 primer SO:ke http://purl.obolibrary.org/obo/SO_0000113 A viral sequence which has integrated into a host genome. http://purl.obolibrary.org/obo/SO_0000113 proviral region http://purl.obolibrary.org/obo/SO_0000113 sequence http://purl.obolibrary.org/obo/SO_0000113 proviral sequence http://purl.obolibrary.org/obo/SO_0000113 SO:0000113 http://purl.obolibrary.org/obo/SO_0000113 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000113 proviral_region SO:ke http://purl.obolibrary.org/obo/SO_0000114 A methylated deoxy-cytosine. http://purl.obolibrary.org/obo/SO_0000114 methylated C http://purl.obolibrary.org/obo/SO_0000114 methylated cytosine http://purl.obolibrary.org/obo/SO_0000114 methylated cytosine base http://purl.obolibrary.org/obo/SO_0000114 methylated cytosine residue http://purl.obolibrary.org/obo/SO_0000114 methylated_C http://purl.obolibrary.org/obo/SO_0000114 sequence http://purl.obolibrary.org/obo/SO_0000114 SO:0000114 http://purl.obolibrary.org/obo/SO_0000114 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000114 methylated_cytosine http://purl.obolibrary.org/obo/SO_0000115 sequence http://purl.obolibrary.org/obo/SO_0000115 SO:0000115 http://purl.obolibrary.org/obo/SO_0000115 transcript_feature http://purl.obolibrary.org/obo/SO_0000115 true SO:ke http://purl.obolibrary.org/obo/SO_0000116 An attribute describing a sequence that is modified by editing. http://purl.obolibrary.org/obo/SO_0000116 sequence http://purl.obolibrary.org/obo/SO_0000116 SO:0000116 http://purl.obolibrary.org/obo/SO_0000116 edited http://purl.obolibrary.org/obo/SO_0000117 sequence http://purl.obolibrary.org/obo/SO_0000117 SO:0000117 http://purl.obolibrary.org/obo/SO_0000117 transcript_with_readthrough_stop_codon http://purl.obolibrary.org/obo/SO_0000117 true SO:xp http://purl.obolibrary.org/obo/SO_0000118 A transcript with a translational frameshift. http://purl.obolibrary.org/obo/SO_0000118 transcript with translational frameshift http://purl.obolibrary.org/obo/SO_0000118 sequence http://purl.obolibrary.org/obo/SO_0000118 SO:0000118 http://purl.obolibrary.org/obo/SO_0000118 transcript_with_translational_frameshift SO:ke http://purl.obolibrary.org/obo/SO_0000119 An attribute to describe a sequence that is regulated. http://purl.obolibrary.org/obo/SO_0000119 sequence http://purl.obolibrary.org/obo/SO_0000119 SO:0000119 http://purl.obolibrary.org/obo/SO_0000119 regulated SO:ke http://purl.obolibrary.org/obo/SO_0000120 A primary transcript that, at least in part, encodes one or more proteins. http://purl.obolibrary.org/obo/SO_0000120 protein coding primary transcript http://purl.obolibrary.org/obo/SO_0000120 sequence http://purl.obolibrary.org/obo/SO_0000120 pre mRNA http://purl.obolibrary.org/obo/SO_0000120 SO:0000120 http://purl.obolibrary.org/obo/SO_0000120 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000120 May contain introns. http://purl.obolibrary.org/obo/SO_0000120 protein_coding_primary_transcript http://mged.sourceforge.net/ontologies/MGEDontology.php http://purl.obolibrary.org/obo/SO_0000121 A single stranded oligo used for polymerase chain reaction. http://purl.obolibrary.org/obo/SO_0000121 DNA forward primer http://purl.obolibrary.org/obo/SO_0000121 forward DNA primer http://purl.obolibrary.org/obo/SO_0000121 forward primer http://purl.obolibrary.org/obo/SO_0000121 forward primer oligo http://purl.obolibrary.org/obo/SO_0000121 forward primer oligonucleotide http://purl.obolibrary.org/obo/SO_0000121 forward primer polynucleotide http://purl.obolibrary.org/obo/SO_0000121 forward primer sequence http://purl.obolibrary.org/obo/SO_0000121 sequence http://purl.obolibrary.org/obo/SO_0000121 SO:0000121 http://purl.obolibrary.org/obo/SO_0000121 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000121 forward_primer SO:ke http://purl.obolibrary.org/obo/SO_0000122 A folded RNA sequence. http://purl.obolibrary.org/obo/SO_0000122 RNA sequence secondary structure http://purl.obolibrary.org/obo/SO_0000122 sequence http://purl.obolibrary.org/obo/SO_0000122 SO:0000122 http://purl.obolibrary.org/obo/SO_0000122 RNA_sequence_secondary_structure SO:ma http://purl.obolibrary.org/obo/SO_0000123 An attribute describing a gene that is regulated at transcription. http://purl.obolibrary.org/obo/SO_0000123 transcriptionally regulated http://purl.obolibrary.org/obo/SO_0000123 sequence http://purl.obolibrary.org/obo/SO_0000123 SO:0000123 http://purl.obolibrary.org/obo/SO_0000123 By:<protein_id>. http://purl.obolibrary.org/obo/SO_0000123 transcriptionally_regulated SO:ke http://purl.obolibrary.org/obo/SO_0000124 Expressed in relatively constant amounts without regard to cellular environmental conditions such as the concentration of a particular substrate. http://purl.obolibrary.org/obo/SO_0000124 transcriptionally constitutive http://purl.obolibrary.org/obo/SO_0000124 sequence http://purl.obolibrary.org/obo/SO_0000124 SO:0000124 http://purl.obolibrary.org/obo/SO_0000124 transcriptionally_constitutive SO:ke http://purl.obolibrary.org/obo/SO_0000125 An inducer molecule is required for transcription to occur. http://purl.obolibrary.org/obo/SO_0000125 transcriptionally induced http://purl.obolibrary.org/obo/SO_0000125 sequence http://purl.obolibrary.org/obo/SO_0000125 SO:0000125 http://purl.obolibrary.org/obo/SO_0000125 transcriptionally_induced SO:ke http://purl.obolibrary.org/obo/SO_0000126 A repressor molecule is required for transcription to stop. http://purl.obolibrary.org/obo/SO_0000126 transcriptionally repressed http://purl.obolibrary.org/obo/SO_0000126 sequence http://purl.obolibrary.org/obo/SO_0000126 SO:0000126 http://purl.obolibrary.org/obo/SO_0000126 transcriptionally_repressed SO:xp http://purl.obolibrary.org/obo/SO_0000127 A gene that is silenced. http://purl.obolibrary.org/obo/SO_0000127 silenced gene http://purl.obolibrary.org/obo/SO_0000127 sequence http://purl.obolibrary.org/obo/SO_0000127 SO:0000127 http://purl.obolibrary.org/obo/SO_0000127 silenced_gene SO:xp http://purl.obolibrary.org/obo/SO_0000128 A gene that is silenced by DNA modification. http://purl.obolibrary.org/obo/SO_0000128 gene silenced by DNA modification http://purl.obolibrary.org/obo/SO_0000128 sequence http://purl.obolibrary.org/obo/SO_0000128 SO:0000128 http://purl.obolibrary.org/obo/SO_0000128 gene_silenced_by_DNA_modification SO:xp http://purl.obolibrary.org/obo/SO_0000129 A gene that is silenced by DNA methylation. http://purl.obolibrary.org/obo/SO_0000129 gene silenced by DNA methylation http://purl.obolibrary.org/obo/SO_0000129 methylation-silenced gene http://purl.obolibrary.org/obo/SO_0000129 sequence http://purl.obolibrary.org/obo/SO_0000129 SO:0000129 http://purl.obolibrary.org/obo/SO_0000129 gene_silenced_by_DNA_methylation SO:ke http://purl.obolibrary.org/obo/SO_0000130 An attribute describing a gene that is regulated after it has been translated. http://purl.obolibrary.org/obo/SO_0000130 post translationally regulated http://purl.obolibrary.org/obo/SO_0000130 post-translationally regulated http://purl.obolibrary.org/obo/SO_0000130 sequence http://purl.obolibrary.org/obo/SO_0000130 SO:0000130 http://purl.obolibrary.org/obo/SO_0000130 post_translationally_regulated SO:ke http://purl.obolibrary.org/obo/SO_0000131 An attribute describing a gene that is regulated as it is translated. http://purl.obolibrary.org/obo/SO_0000131 translationally regulated http://purl.obolibrary.org/obo/SO_0000131 sequence http://purl.obolibrary.org/obo/SO_0000131 SO:0000131 http://purl.obolibrary.org/obo/SO_0000131 translationally_regulated http://mged.sourceforge.net/ontologies/MGEDontology.php http://purl.obolibrary.org/obo/SO_0000132 A single stranded oligo used for polymerase chain reaction. http://purl.obolibrary.org/obo/SO_0000132 DNA reverse primer http://purl.obolibrary.org/obo/SO_0000132 reverse DNA primer http://purl.obolibrary.org/obo/SO_0000132 reverse primer http://purl.obolibrary.org/obo/SO_0000132 reverse primer oligo http://purl.obolibrary.org/obo/SO_0000132 reverse primer oligonucleotide http://purl.obolibrary.org/obo/SO_0000132 reverse primer sequence http://purl.obolibrary.org/obo/SO_0000132 sequence http://purl.obolibrary.org/obo/SO_0000132 SO:0000132 http://purl.obolibrary.org/obo/SO_0000132 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000132 reverse_primer SO:ke http://purl.obolibrary.org/obo/SO_0000133 This attribute describes a gene where heritable changes other than those in the DNA sequence occur. These changes include: modification to the DNA (such as DNA methylation, the covalent modification of cytosine), and post-translational modification of histones. http://purl.obolibrary.org/obo/SO_0000133 epigenetically modified http://purl.obolibrary.org/obo/SO_0000133 sequence http://purl.obolibrary.org/obo/SO_0000133 SO:0000133 http://purl.obolibrary.org/obo/SO_0000133 epigenetically_modified SO:ke http://purl.obolibrary.org/obo/SO_0000134 Imprinted genes are epigenetically modified genes that are expressed monoallelically according to their parent of origin. http://purl.obolibrary.org/obo/SO_0000134 imprinted wiki http://purl.obolibrary.org/obo/SO_0000134 http:http://en.wikipedia.org/wiki/Genomic_imprinting http://purl.obolibrary.org/obo/SO_0000134 genomically imprinted http://purl.obolibrary.org/obo/SO_0000134 sequence http://purl.obolibrary.org/obo/SO_0000134 SO:0000134 http://purl.obolibrary.org/obo/SO_0000134 genomically_imprinted SO:ke http://purl.obolibrary.org/obo/SO_0000135 The maternal copy of the gene is modified, rendering it transcriptionally silent. http://purl.obolibrary.org/obo/SO_0000135 maternally imprinted http://purl.obolibrary.org/obo/SO_0000135 sequence http://purl.obolibrary.org/obo/SO_0000135 SO:0000135 http://purl.obolibrary.org/obo/SO_0000135 maternally_imprinted SO:ke http://purl.obolibrary.org/obo/SO_0000136 The paternal copy of the gene is modified, rendering it transcriptionally silent. http://purl.obolibrary.org/obo/SO_0000136 paternally imprinted http://purl.obolibrary.org/obo/SO_0000136 sequence http://purl.obolibrary.org/obo/SO_0000136 SO:0000136 http://purl.obolibrary.org/obo/SO_0000136 paternally_imprinted SO:ke http://purl.obolibrary.org/obo/SO_0000137 Allelic exclusion is a process occurring in diploid organisms, where a gene is inactivated and not expressed in that cell. http://purl.obolibrary.org/obo/SO_0000137 allelically excluded http://purl.obolibrary.org/obo/SO_0000137 sequence http://purl.obolibrary.org/obo/SO_0000137 SO:0000137 http://purl.obolibrary.org/obo/SO_0000137 Examples are x-inactivation and immunoglobulin formation. http://purl.obolibrary.org/obo/SO_0000137 allelically_excluded SO:xp http://purl.obolibrary.org/obo/SO_0000138 An epigenetically modified gene, rearranged at the DNA level. http://purl.obolibrary.org/obo/SO_0000138 gene rearranged at DNA level http://purl.obolibrary.org/obo/SO_0000138 sequence http://purl.obolibrary.org/obo/SO_0000138 SO:0000138 http://purl.obolibrary.org/obo/SO_0000138 gene_rearranged_at_DNA_level SO:ke http://purl.obolibrary.org/obo/SO_0000139 Region in mRNA where ribosome assembles. http://purl.obolibrary.org/obo/SO_0000139 ribosome entry site http://purl.obolibrary.org/obo/SO_0000139 sequence http://purl.obolibrary.org/obo/SO_0000139 SO:0000139 http://purl.obolibrary.org/obo/SO_0000139 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000139 ribosome_entry_site SO:as http://purl.obolibrary.org/obo/SO_0000140 A sequence segment located within the five prime end of an mRNA that causes premature termination of translation. wiki http://purl.obolibrary.org/obo/SO_0000140 http://en.wikipedia.org/wiki/Attenuator http://purl.obolibrary.org/obo/SO_0000140 attenuator sequence http://purl.obolibrary.org/obo/SO_0000140 sequence http://purl.obolibrary.org/obo/SO_0000140 SO:0000140 http://purl.obolibrary.org/obo/SO_0000140 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000140 attenuator http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000141 The sequence of DNA located either at the end of the transcript that causes RNA polymerase to terminate transcription. wiki http://purl.obolibrary.org/obo/SO_0000141 http://en.wikipedia.org/wiki/Terminator_(genetics) http://purl.obolibrary.org/obo/SO_0000141 terminator sequence http://purl.obolibrary.org/obo/SO_0000141 sequence http://purl.obolibrary.org/obo/SO_0000141 SO:0000141 http://purl.obolibrary.org/obo/SO_0000141 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000141 terminator SO:ke http://purl.obolibrary.org/obo/SO_0000142 A folded DNA sequence. http://purl.obolibrary.org/obo/SO_0000142 DNA sequence secondary structure http://purl.obolibrary.org/obo/SO_0000142 sequence http://purl.obolibrary.org/obo/SO_0000142 SO:0000142 http://purl.obolibrary.org/obo/SO_0000142 DNA_sequence_secondary_structure SO:ke http://purl.obolibrary.org/obo/SO_0000143 A region of known length which may be used to manufacture a longer region. http://purl.obolibrary.org/obo/SO_0000143 assembly component http://purl.obolibrary.org/obo/SO_0000143 sequence http://purl.obolibrary.org/obo/SO_0000143 SO:0000143 http://purl.obolibrary.org/obo/SO_0000143 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000143 assembly_component http://purl.obolibrary.org/obo/SO_0000144 sequence http://purl.obolibrary.org/obo/SO_0000144 SO:0000144 http://purl.obolibrary.org/obo/SO_0000144 primary_transcript_attribute http://purl.obolibrary.org/obo/SO_0000144 true SO:xp http://purl.obolibrary.org/obo/SO_0000145 A codon that has been redefined at translation. The redefinition may be as a result of translational bypass, translational frameshifting or stop codon readthrough. http://purl.obolibrary.org/obo/SO_0000145 recoded codon http://purl.obolibrary.org/obo/SO_0000145 sequence http://purl.obolibrary.org/obo/SO_0000145 SO:0000145 http://purl.obolibrary.org/obo/SO_0000145 recoded_codon SO:ke http://purl.obolibrary.org/obo/SO_0000146 An attribute describing when a sequence, usually an mRNA is capped by the addition of a modified guanine nucleotide at the 5' end. http://purl.obolibrary.org/obo/SO_0000146 sequence http://purl.obolibrary.org/obo/SO_0000146 SO:0000146 http://purl.obolibrary.org/obo/SO_0000146 capped SO:ke http://purl.obolibrary.org/obo/SO_0000147 A region of the transcript sequence within a gene which is not removed from the primary RNA transcript by RNA splicing. wiki http://purl.obolibrary.org/obo/SO_0000147 http://en.wikipedia.org/wiki/Exon http://purl.obolibrary.org/obo/SO_0000147 sequence http://purl.obolibrary.org/obo/SO_0000147 SO:0000147 http://purl.obolibrary.org/obo/SO_0000147 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000147 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000147 exon SO:ls http://purl.obolibrary.org/obo/SO_0000148 One or more contigs that have been ordered and oriented using end-read information. Contains gaps that are filled with N's. http://purl.obolibrary.org/obo/SO_0000148 sequence http://purl.obolibrary.org/obo/SO_0000148 scaffold http://purl.obolibrary.org/obo/SO_0000148 SO:0000148 http://purl.obolibrary.org/obo/SO_0000148 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000148 supercontig SO:ls http://purl.obolibrary.org/obo/SO_0000149 A contiguous sequence derived from sequence assembly. Has no gaps, but may contain N's from unavailable bases. wiki http://purl.obolibrary.org/obo/SO_0000149 http://en.wikipedia.org/wiki/Contig http://purl.obolibrary.org/obo/SO_0000149 sequence http://purl.obolibrary.org/obo/SO_0000149 SO:0000149 http://purl.obolibrary.org/obo/SO_0000149 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000149 contig SO:rd http://purl.obolibrary.org/obo/SO_0000150 A sequence obtained from a single sequencing experiment. Typically a read is produced when a base calling program interprets information from a chromatogram trace file produced from a sequencing machine. http://purl.obolibrary.org/obo/SO_0000150 sequence http://purl.obolibrary.org/obo/SO_0000150 SO:0000150 http://purl.obolibrary.org/obo/SO_0000150 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000150 read SO:ke http://purl.obolibrary.org/obo/SO_0000151 A piece of DNA that has been inserted in a vector so that it can be propagated in a host bacterium or some other organism. wiki http://purl.obolibrary.org/obo/SO_0000151 http:http://en.wikipedia.org/wiki/Clone_(genetics) http://purl.obolibrary.org/obo/SO_0000151 sequence http://purl.obolibrary.org/obo/SO_0000151 SO:0000151 http://purl.obolibrary.org/obo/SO_0000151 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000151 clone SO:ma http://purl.obolibrary.org/obo/SO_0000152 Yeast Artificial Chromosome, a vector constructed from the telomeric, centromeric, and replication origin sequences needed for replication in yeast cells. http://purl.obolibrary.org/obo/SO_0000152 yeast artificial chromosome http://purl.obolibrary.org/obo/SO_0000152 sequence http://purl.obolibrary.org/obo/SO_0000152 SO:0000152 http://purl.obolibrary.org/obo/SO_0000152 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000152 YAC SO:ma http://purl.obolibrary.org/obo/SO_0000153 Bacterial Artificial Chromosome, a cloning vector that can be propagated as mini-chromosomes in a bacterial host. http://purl.obolibrary.org/obo/SO_0000153 bacterial artificial chromosome http://purl.obolibrary.org/obo/SO_0000153 sequence http://purl.obolibrary.org/obo/SO_0000153 SO:0000153 http://purl.obolibrary.org/obo/SO_0000153 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000153 BAC http://en.wikipedia.org/wiki/P1-derived_artificial_chromosome http://purl.obolibrary.org/obo/SO_0000154 The P1-derived artificial chromosome are DNA constructs that are derived from the DNA of P1 bacteriophage. They can carry large amounts (about 100-300 kilobases) of other sequences for a variety of bioengineering purposes. It is one type of vector used to clone DNA fragments (100- to 300-kb insert size; average, 150 kb) in Escherichia coli cells. wiki http://purl.obolibrary.org/obo/SO_0000154 http://en.wikipedia.org/wiki/P1-derived_artificial_chromosome http://purl.obolibrary.org/obo/SO_0000154 P1 http://purl.obolibrary.org/obo/SO_0000154 P1 artificial chromosome http://purl.obolibrary.org/obo/SO_0000154 sequence http://purl.obolibrary.org/obo/SO_0000154 SO:0000154 http://purl.obolibrary.org/obo/SO_0000154 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. Drosophila melanogaster PACs carry an average insert size of 80 kb. The library represents a 6-fold coverage of the genome. http://purl.obolibrary.org/obo/SO_0000154 PAC SO:ma http://purl.obolibrary.org/obo/SO_0000155 A self replicating, using the hosts cellular machinery, often circular nucleic acid molecule that is distinct from a chromosome in the organism. http://purl.obolibrary.org/obo/SO_0000155 plasmid sequence http://purl.obolibrary.org/obo/SO_0000155 sequence http://purl.obolibrary.org/obo/SO_0000155 SO:0000155 http://purl.obolibrary.org/obo/SO_0000155 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000155 plasmid SO:ma http://purl.obolibrary.org/obo/SO_0000156 A cloning vector that is a hybrid of lambda phages and a plasmid that can be propagated as a plasmid or packaged as a phage,since they retain the lambda cos sites. wiki http://purl.obolibrary.org/obo/SO_0000156 http://en.wikipedia.org/wiki/Cosmid http://purl.obolibrary.org/obo/SO_0000156 cosmid vector http://purl.obolibrary.org/obo/SO_0000156 sequence http://purl.obolibrary.org/obo/SO_0000156 SO:0000156 http://purl.obolibrary.org/obo/SO_0000156 Paper: vans GA et al. High efficiency vectors for cosmid microcloning and genomic analysis. Gene 1989; 79(1):9-20. This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000156 cosmid SO:ma http://purl.obolibrary.org/obo/SO_0000157 A plasmid which carries within its sequence a bacteriophage replication origin. When the host bacterium is infected with "helper" phage, a phagemid is replicated along with the phage DNA and packaged into phage capsids. wiki http://purl.obolibrary.org/obo/SO_0000157 http://en.wikipedia.org/wiki/Phagemid http://purl.obolibrary.org/obo/SO_0000157 sequence http://purl.obolibrary.org/obo/SO_0000157 phagemid vector http://purl.obolibrary.org/obo/SO_0000157 SO:0000157 http://purl.obolibrary.org/obo/SO_0000157 phagemid SO:ma http://purl.obolibrary.org/obo/SO_0000158 A cloning vector that utilizes the E. coli F factor. wiki http://purl.obolibrary.org/obo/SO_0000158 http://en.wikipedia.org/wiki/Fosmid http://purl.obolibrary.org/obo/SO_0000158 sequence http://purl.obolibrary.org/obo/SO_0000158 fosmid vector http://purl.obolibrary.org/obo/SO_0000158 SO:0000158 http://purl.obolibrary.org/obo/SO_0000158 Birren BW et al. A human chromosome 22 fosmid resource: mapping and analysis of 96 clones. Genomics 1996. http://purl.obolibrary.org/obo/SO_0000158 fosmid SO:ke http://purl.obolibrary.org/obo/SO_0000159 The point at which one or more contiguous nucleotides were excised. http://purl.obolibrary.org/obo/SO_0000159 SO:1000033 wiki http://purl.obolibrary.org/obo/SO_0000159 http://en.wikipedia.org/wiki/Nucleotide_deletion Deletion http://purl.obolibrary.org/obo/SO_0000159 loinc:LA6692-3 http://purl.obolibrary.org/obo/SO_0000159 deleted_sequence http://purl.obolibrary.org/obo/SO_0000159 nucleotide deletion http://purl.obolibrary.org/obo/SO_0000159 nucleotide_deletion http://purl.obolibrary.org/obo/SO_0000159 sequence http://purl.obolibrary.org/obo/SO_0000159 SO:0000159 http://purl.obolibrary.org/obo/SO_0000159 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000159 deletion ISBN:0-1767-2380-8 http://purl.obolibrary.org/obo/SO_0000160 A linear clone derived from lambda bacteriophage. The genes involved in the lysogenic pathway are removed from the from the viral DNA. Up to 25 kb of foreign DNA can then be inserted into the lambda genome. http://purl.obolibrary.org/obo/SO_0000160 sequence http://purl.obolibrary.org/obo/SO_0000160 SO:0000160 http://purl.obolibrary.org/obo/SO_0000160 lambda_clone http://purl.obolibrary.org/obo/SO_0000160 true SO:ke http://purl.obolibrary.org/obo/SO_0000161 A modified base in which adenine has been methylated. http://purl.obolibrary.org/obo/SO_0000161 methylated A http://purl.obolibrary.org/obo/SO_0000161 methylated adenine http://purl.obolibrary.org/obo/SO_0000161 methylated adenine base http://purl.obolibrary.org/obo/SO_0000161 methylated adenine residue http://purl.obolibrary.org/obo/SO_0000161 methylated_A http://purl.obolibrary.org/obo/SO_0000161 sequence http://purl.obolibrary.org/obo/SO_0000161 SO:0000161 http://purl.obolibrary.org/obo/SO_0000161 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000161 methylated_adenine SO:cjm SO:ke http://purl.obolibrary.org/obo/SO_0000162 Consensus region of primary transcript bordering junction of splicing. A region that overlaps exactly 2 base and adjacent_to splice_junction. wiki http://purl.obolibrary.org/obo/SO_0000162 http://en.wikipedia.org/wiki/Splice_site http://purl.obolibrary.org/obo/SO_0000162 splice site http://purl.obolibrary.org/obo/SO_0000162 sequence http://purl.obolibrary.org/obo/SO_0000162 SO:0000162 http://purl.obolibrary.org/obo/SO_0000162 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000162 With spliceosomal introns, the splice sites bind the spliceosomal machinery. http://purl.obolibrary.org/obo/SO_0000162 splice_site SO:cjm SO:ke http://www.ucl.ac.uk/~ucbhjow/b241/glossary.html http://purl.obolibrary.org/obo/SO_0000163 Intronic 2 bp region bordering the exon, at the 5' edge of the intron. A splice_site that is downstream_adjacent_to exon and starts intron. http://purl.obolibrary.org/obo/SO_0000163 5' splice site http://purl.obolibrary.org/obo/SO_0000163 donor splice site http://purl.obolibrary.org/obo/SO_0000163 five prime splice site http://purl.obolibrary.org/obo/SO_0000163 splice donor site http://purl.obolibrary.org/obo/SO_0000163 sequence http://purl.obolibrary.org/obo/SO_0000163 donor http://purl.obolibrary.org/obo/SO_0000163 SO:0000163 http://purl.obolibrary.org/obo/SO_0000163 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000163 five_prime_cis_splice_site SO:cjm SO:ke http://www.ucl.ac.uk/~ucbhjow/b241/glossary.html http://purl.obolibrary.org/obo/SO_0000164 Intronic 2 bp region bordering the exon, at the 3' edge of the intron. A splice_site that is upstream_adjacent_to exon and finishes intron. http://purl.obolibrary.org/obo/SO_0000164 acceptor splice site http://purl.obolibrary.org/obo/SO_0000164 splice acceptor site http://purl.obolibrary.org/obo/SO_0000164 three prime splice site http://purl.obolibrary.org/obo/SO_0000164 sequence http://purl.obolibrary.org/obo/SO_0000164 3' splice site http://purl.obolibrary.org/obo/SO_0000164 acceptor http://purl.obolibrary.org/obo/SO_0000164 SO:0000164 http://purl.obolibrary.org/obo/SO_0000164 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000164 three_prime_cis_splice_site http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000165 A cis-acting sequence that increases the utilization of (some) eukaryotic promoters, and can function in either orientation and in any location (upstream or downstream) relative to the promoter. wiki http://purl.obolibrary.org/obo/SO_0000165 http://en.wikipedia.org/wiki/Enhancer_(genetics) http://purl.obolibrary.org/obo/SO_0000165 sequence http://purl.obolibrary.org/obo/SO_0000165 SO:0000165 http://purl.obolibrary.org/obo/SO_0000165 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000165 An enhancer may participate in an enhanceosome GO:0034206. A protein-DNA complex formed by the association of a distinct set of general and specific transcription factors with a region of enhancer DNA. The cooperative assembly of an enhanceosome confers specificity of transcriptional regulation. This comment is a place holder should we start to make cross products with GO. http://purl.obolibrary.org/obo/SO_0000165 enhancer SO:xp http://purl.obolibrary.org/obo/SO_0000166 An enhancer bound by a factor. http://purl.obolibrary.org/obo/SO_0000166 enhancer bound by factor http://purl.obolibrary.org/obo/SO_0000166 sequence http://purl.obolibrary.org/obo/SO_0000166 SO:0000166 http://purl.obolibrary.org/obo/SO_0000166 enhancer_bound_by_factor SO:regcreative http://purl.obolibrary.org/obo/SO_0000167 A regulatory_region composed of the TSS(s) and binding sites for TF_complexes of the basal transcription machinery. wiki http://purl.obolibrary.org/obo/SO_0000167 http://en.wikipedia.org/wiki/Promoter http://purl.obolibrary.org/obo/SO_0000167 promoter sequence http://purl.obolibrary.org/obo/SO_0000167 sequence http://purl.obolibrary.org/obo/SO_0000167 SO:0000167 http://purl.obolibrary.org/obo/SO_0000167 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000167 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. The region on a DNA molecule involved in RNA polymerase binding to initiate transcription. http://purl.obolibrary.org/obo/SO_0000167 promoter SO:ma http://purl.obolibrary.org/obo/SO_0000168 A specific nucleotide sequence of DNA at or near which a particular restriction enzyme cuts the DNA. http://purl.obolibrary.org/obo/SO_0000168 sequence http://purl.obolibrary.org/obo/SO_0000168 SO:0000168 http://purl.obolibrary.org/obo/SO_0000168 restriction_enzyme_cut_site http://purl.obolibrary.org/obo/SO_0000168 true SO:ke http://purl.obolibrary.org/obo/SO_0000169 A DNA sequence in eukaryotic DNA to which RNA polymerase I binds, to begin transcription. http://purl.obolibrary.org/obo/SO_0000169 RNA polymerase A promoter http://purl.obolibrary.org/obo/SO_0000169 RNApol I promoter http://purl.obolibrary.org/obo/SO_0000169 pol I promoter http://purl.obolibrary.org/obo/SO_0000169 polymerase I promoter http://purl.obolibrary.org/obo/SO_0000169 sequence http://purl.obolibrary.org/obo/SO_0000169 SO:0000169 http://purl.obolibrary.org/obo/SO_0000169 RNApol_I_promoter SO:ke http://purl.obolibrary.org/obo/SO_0000170 A DNA sequence in eukaryotic DNA to which RNA polymerase II binds, to begin transcription. http://purl.obolibrary.org/obo/SO_0000170 RNA polymerase B promoter http://purl.obolibrary.org/obo/SO_0000170 RNApol II promoter http://purl.obolibrary.org/obo/SO_0000170 polymerase II promoter http://purl.obolibrary.org/obo/SO_0000170 sequence http://purl.obolibrary.org/obo/SO_0000170 pol II promoter http://purl.obolibrary.org/obo/SO_0000170 SO:0000170 http://purl.obolibrary.org/obo/SO_0000170 RNApol_II_promoter SO:ke http://purl.obolibrary.org/obo/SO_0000171 A DNA sequence in eukaryotic DNA to which RNA polymerase III binds, to begin transcription. http://purl.obolibrary.org/obo/SO_0000171 RNA polymerase C promoter http://purl.obolibrary.org/obo/SO_0000171 RNApol III promoter http://purl.obolibrary.org/obo/SO_0000171 pol III promoter http://purl.obolibrary.org/obo/SO_0000171 polymerase III promoter http://purl.obolibrary.org/obo/SO_0000171 sequence http://purl.obolibrary.org/obo/SO_0000171 SO:0000171 http://purl.obolibrary.org/obo/SO_0000171 RNApol_III_promoter http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000172 Part of a conserved sequence located about 75-bp upstream of the start point of eukaryotic transcription units which may be involved in RNA polymerase binding; consensus=GG(C|T)CAATCT. wiki http://purl.obolibrary.org/obo/SO_0000172 http://en.wikipedia.org/wiki/CAAT_box http://purl.obolibrary.org/obo/SO_0000172 CAAT box http://purl.obolibrary.org/obo/SO_0000172 CAAT signal http://purl.obolibrary.org/obo/SO_0000172 CAAT-box http://purl.obolibrary.org/obo/SO_0000172 sequence http://purl.obolibrary.org/obo/SO_0000172 SO:0000172 http://purl.obolibrary.org/obo/SO_0000172 CAAT_signal http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000173 A conserved GC-rich region located upstream of the start point of eukaryotic transcription units which may occur in multiple copies or in either orientation; consensus=GGGCGG. http://purl.obolibrary.org/obo/SO_0000173 GC rich promoter region http://purl.obolibrary.org/obo/SO_0000173 GC-rich region http://purl.obolibrary.org/obo/SO_0000173 sequence http://purl.obolibrary.org/obo/SO_0000173 SO:0000173 http://purl.obolibrary.org/obo/SO_0000173 GC_rich_promoter_region PMID:16858867 http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000174 A conserved AT-rich septamer found about 25-bp before the start point of many eukaryotic RNA polymerase II transcript units; may be involved in positioning the enzyme for correct initiation; consensus=TATA(A|T)A(A|T). wiki http://purl.obolibrary.org/obo/SO_0000174 http://en.wikipedia.org/wiki/TATA_box http://purl.obolibrary.org/obo/SO_0000174 Goldstein-Hogness box http://purl.obolibrary.org/obo/SO_0000174 TATA box http://purl.obolibrary.org/obo/SO_0000174 sequence http://purl.obolibrary.org/obo/SO_0000174 SO:0000174 http://purl.obolibrary.org/obo/SO_0000174 Binds TBP. http://purl.obolibrary.org/obo/SO_0000174 TATA_box http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000175 A conserved region about 10-bp upstream of the start point of bacterial transcription units which may be involved in binding RNA polymerase; consensus=TAtAaT. This region is associated with sigma factor 70. wiki http://purl.obolibrary.org/obo/SO_0000175 http://en.wikipedia.org/wiki/Pribnow_box http://purl.obolibrary.org/obo/SO_0000175 -10 signal http://purl.obolibrary.org/obo/SO_0000175 Pribnow Schaller box http://purl.obolibrary.org/obo/SO_0000175 Pribnow box http://purl.obolibrary.org/obo/SO_0000175 Pribnow-Schaller box http://purl.obolibrary.org/obo/SO_0000175 minus 10 signal http://purl.obolibrary.org/obo/SO_0000175 sequence http://purl.obolibrary.org/obo/SO_0000175 SO:0000175 http://purl.obolibrary.org/obo/SO_0000175 minus_10_signal http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000176 A conserved hexamer about 35-bp upstream of the start point of bacterial transcription units; consensus=TTGACa or TGTTGACA. This region is associated with sigma factor 70. http://purl.obolibrary.org/obo/SO_0000176 -35 signal http://purl.obolibrary.org/obo/SO_0000176 minus 35 signal http://purl.obolibrary.org/obo/SO_0000176 sequence http://purl.obolibrary.org/obo/SO_0000176 SO:0000176 http://purl.obolibrary.org/obo/SO_0000176 minus_35_signal SO:ma http://purl.obolibrary.org/obo/SO_0000177 A nucleotide match against a sequence from another organism. http://purl.obolibrary.org/obo/SO_0000177 cross genome match http://purl.obolibrary.org/obo/SO_0000177 sequence http://purl.obolibrary.org/obo/SO_0000177 SO:0000177 http://purl.obolibrary.org/obo/SO_0000177 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000177 cross_genome_match SO:ma http://purl.obolibrary.org/obo/SO_0000178 A group of contiguous genes transcribed as a single (polycistronic) mRNA from a single regulatory region. wiki http://purl.obolibrary.org/obo/SO_0000178 http://en.wikipedia.org/wiki/Operon http://purl.obolibrary.org/obo/SO_0000178 sequence http://purl.obolibrary.org/obo/SO_0000178 SO:0000178 http://purl.obolibrary.org/obo/SO_0000178 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000178 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000178 operon SO:ke http://purl.obolibrary.org/obo/SO_0000179 The start of the clone insert. http://purl.obolibrary.org/obo/SO_0000179 clone insert start http://purl.obolibrary.org/obo/SO_0000179 sequence http://purl.obolibrary.org/obo/SO_0000179 SO:0000179 http://purl.obolibrary.org/obo/SO_0000179 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000179 clone_insert_start http://www.dddmag.com/Glossary.aspx#r http://purl.obolibrary.org/obo/SO_0000180 A transposable element that is incorporated into a chromosome by a mechanism that requires reverse transcriptase. wiki http://purl.obolibrary.org/obo/SO_0000180 http://en.wikipedia.org/wiki/Retrotransposon http://purl.obolibrary.org/obo/SO_0000180 class I transposon http://purl.obolibrary.org/obo/SO_0000180 retrotransposon element http://purl.obolibrary.org/obo/SO_0000180 sequence http://purl.obolibrary.org/obo/SO_0000180 class I http://purl.obolibrary.org/obo/SO_0000180 SO:0000180 http://purl.obolibrary.org/obo/SO_0000180 retrotransposon SO:ke http://purl.obolibrary.org/obo/SO_0000181 A match against a translated sequence. http://purl.obolibrary.org/obo/SO_0000181 translated nucleotide match http://purl.obolibrary.org/obo/SO_0000181 sequence http://purl.obolibrary.org/obo/SO_0000181 SO:0000181 http://purl.obolibrary.org/obo/SO_0000181 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000181 translated_nucleotide_match SO:ke http://purl.obolibrary.org/obo/SO_0000182 A transposon where the mechanism of transposition is via a DNA intermediate. http://purl.obolibrary.org/obo/SO_0000182 DNA transposon http://purl.obolibrary.org/obo/SO_0000182 class II transposon http://purl.obolibrary.org/obo/SO_0000182 sequence http://purl.obolibrary.org/obo/SO_0000182 class II http://purl.obolibrary.org/obo/SO_0000182 SO:0000182 http://purl.obolibrary.org/obo/SO_0000182 DNA_transposon SO:ke http://purl.obolibrary.org/obo/SO_0000183 A region of the gene which is not transcribed. http://purl.obolibrary.org/obo/SO_0000183 non transcribed region http://purl.obolibrary.org/obo/SO_0000183 non-transcribed sequence http://purl.obolibrary.org/obo/SO_0000183 nontranscribed region http://purl.obolibrary.org/obo/SO_0000183 nontranscribed sequence http://purl.obolibrary.org/obo/SO_0000183 sequence http://purl.obolibrary.org/obo/SO_0000183 SO:0000183 http://purl.obolibrary.org/obo/SO_0000183 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000183 non_transcribed_region PMID:9428511 http://purl.obolibrary.org/obo/SO_0000184 A major type of spliceosomal intron spliced by the U2 spliceosome, that includes U1, U2, U4/U6 and U5 snRNAs. http://purl.obolibrary.org/obo/SO_0000184 U2 intron http://purl.obolibrary.org/obo/SO_0000184 sequence http://purl.obolibrary.org/obo/SO_0000184 SO:0000184 http://purl.obolibrary.org/obo/SO_0000184 May have either GT-AG or AT-AG 5' and 3' boundaries. http://purl.obolibrary.org/obo/SO_0000184 U2_intron SO:ma http://purl.obolibrary.org/obo/SO_0000185 A transcript that in its initial state requires modification to be functional. wiki http://purl.obolibrary.org/obo/SO_0000185 http://en.wikipedia.org/wiki/Primary_transcript http://purl.obolibrary.org/obo/SO_0000185 precursor RNA http://purl.obolibrary.org/obo/SO_0000185 primary transcript http://purl.obolibrary.org/obo/SO_0000185 sequence http://purl.obolibrary.org/obo/SO_0000185 SO:0000185 http://purl.obolibrary.org/obo/SO_0000185 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000185 primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000186 A retrotransposon flanked by long terminal repeat sequences. http://purl.obolibrary.org/obo/SO_0000186 LTR retrotransposon http://purl.obolibrary.org/obo/SO_0000186 long terminal repeat retrotransposon http://purl.obolibrary.org/obo/SO_0000186 sequence http://purl.obolibrary.org/obo/SO_0000186 SO:0000186 http://purl.obolibrary.org/obo/SO_0000186 LTR_retrotransposon SO:ke http://purl.obolibrary.org/obo/SO_0000187 A group of characterized repeat sequences. http://purl.obolibrary.org/obo/SO_0000187 sequence http://purl.obolibrary.org/obo/SO_0000187 SO:0000187 http://purl.obolibrary.org/obo/SO_0000187 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000187 repeat_family http://purl.obolibrary.org/obo/SO_0000187 true http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000188 A region of a primary transcript that is transcribed, but removed from within the transcript by splicing together the sequences (exons) on either side of it. wiki http://purl.obolibrary.org/obo/SO_0000188 http://en.wikipedia.org/wiki/Intron http://purl.obolibrary.org/obo/SO_0000188 sequence http://purl.obolibrary.org/obo/SO_0000188 SO:0000188 http://purl.obolibrary.org/obo/SO_0000188 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000188 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000188 intron SO:ke http://purl.obolibrary.org/obo/SO_0000189 A retrotransposon without long terminal repeat sequences. http://purl.obolibrary.org/obo/SO_0000189 non LTR retrotransposon http://purl.obolibrary.org/obo/SO_0000189 sequence http://purl.obolibrary.org/obo/SO_0000189 SO:0000189 http://purl.obolibrary.org/obo/SO_0000189 non_LTR_retrotransposon http://purl.obolibrary.org/obo/SO_0000190 5' intron http://purl.obolibrary.org/obo/SO_0000190 5' intron sequence http://purl.obolibrary.org/obo/SO_0000190 five prime intron http://purl.obolibrary.org/obo/SO_0000190 sequence http://purl.obolibrary.org/obo/SO_0000190 SO:0000190 http://purl.obolibrary.org/obo/SO_0000190 five_prime_intron http://purl.obolibrary.org/obo/SO_0000191 interior intron http://purl.obolibrary.org/obo/SO_0000191 sequence http://purl.obolibrary.org/obo/SO_0000191 SO:0000191 http://purl.obolibrary.org/obo/SO_0000191 interior_intron http://purl.obolibrary.org/obo/SO_0000192 3' intron http://purl.obolibrary.org/obo/SO_0000192 three prime intron http://purl.obolibrary.org/obo/SO_0000192 sequence http://purl.obolibrary.org/obo/SO_0000192 3' intron sequence http://purl.obolibrary.org/obo/SO_0000192 SO:0000192 http://purl.obolibrary.org/obo/SO_0000192 three_prime_intron GOC:pj http://purl.obolibrary.org/obo/SO_0000193 A DNA fragment used as a reagent to detect the polymorphic genomic loci by hybridizing against the genomic DNA digested with a given restriction enzyme. wiki http://purl.obolibrary.org/obo/SO_0000193 http://en.wikipedia.org/wiki/Restriction_fragment_length_polymorphism http://purl.obolibrary.org/obo/SO_0000193 RFLP http://purl.obolibrary.org/obo/SO_0000193 RFLP fragment http://purl.obolibrary.org/obo/SO_0000193 restriction fragment length polymorphism http://purl.obolibrary.org/obo/SO_0000193 sequence http://purl.obolibrary.org/obo/SO_0000193 SO:0000193 http://purl.obolibrary.org/obo/SO_0000193 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000193 RFLP_fragment http://www.ucl.ac.uk/~ucbhjow/b241/glossary.html http://purl.obolibrary.org/obo/SO_0000194 A dispersed repeat family with many copies, each from 1 to 6 kb long. New elements are generated by retroposition of a transcribed copy. Typically the LINE contains 2 ORF's one of which is reverse transcriptase, and 3'and 5' direct repeats. http://purl.obolibrary.org/obo/SO_0000194 LINE http://purl.obolibrary.org/obo/SO_0000194 LINE element http://purl.obolibrary.org/obo/SO_0000194 Long interspersed element http://purl.obolibrary.org/obo/SO_0000194 Long interspersed nuclear element http://purl.obolibrary.org/obo/SO_0000194 sequence http://purl.obolibrary.org/obo/SO_0000194 SO:0000194 http://purl.obolibrary.org/obo/SO_0000194 LINE_element SO:ke http://purl.obolibrary.org/obo/SO_0000195 An exon whereby at least one base is part of a codon (here, 'codon' is inclusive of the stop_codon). http://purl.obolibrary.org/obo/SO_0000195 coding exon http://purl.obolibrary.org/obo/SO_0000195 sequence http://purl.obolibrary.org/obo/SO_0000195 SO:0000195 http://purl.obolibrary.org/obo/SO_0000195 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000195 coding_exon SO:cjm http://purl.obolibrary.org/obo/SO_0000196 The sequence of the five_prime_coding_exon that codes for protein. http://purl.obolibrary.org/obo/SO_0000196 five prime exon coding region http://purl.obolibrary.org/obo/SO_0000196 sequence http://purl.obolibrary.org/obo/SO_0000196 SO:0000196 http://purl.obolibrary.org/obo/SO_0000196 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000196 five_prime_coding_exon_coding_region SO:cjm http://purl.obolibrary.org/obo/SO_0000197 The sequence of the three_prime_coding_exon that codes for protein. http://purl.obolibrary.org/obo/SO_0000197 three prime exon coding region http://purl.obolibrary.org/obo/SO_0000197 sequence http://purl.obolibrary.org/obo/SO_0000197 SO:0000197 http://purl.obolibrary.org/obo/SO_0000197 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000197 three_prime_coding_exon_coding_region SO:ke http://purl.obolibrary.org/obo/SO_0000198 An exon that does not contain any codons. http://purl.obolibrary.org/obo/SO_0000198 noncoding exon http://purl.obolibrary.org/obo/SO_0000198 sequence http://purl.obolibrary.org/obo/SO_0000198 SO:0000198 http://purl.obolibrary.org/obo/SO_0000198 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000198 noncoding_exon NCBI:th SO:ke http://purl.obolibrary.org/obo/SO_0000199 A region of nucleotide sequence that has translocated to a new position. The observed adjacency of two previously separated regions. http://purl.obolibrary.org/obo/SO_0000199 translocated sequence http://purl.obolibrary.org/obo/SO_0000199 sequence http://www.ncbi.nlm.nih.gov/dbvar/ http://purl.obolibrary.org/obo/SO_0000199 transchr http://purl.obolibrary.org/obo/SO_0000199 SO:0000199 http://purl.obolibrary.org/obo/SO_0000199 http://purl.obolibrary.org/obo/so-xp.obo#DBVAR http://purl.obolibrary.org/obo/SO_0000199 translocation SO:ke http://purl.obolibrary.org/obo/SO_0000200 The 5' most coding exon. http://purl.obolibrary.org/obo/SO_0000200 5' coding exon http://purl.obolibrary.org/obo/SO_0000200 five prime coding exon http://purl.obolibrary.org/obo/SO_0000200 sequence http://purl.obolibrary.org/obo/SO_0000200 SO:0000200 http://purl.obolibrary.org/obo/SO_0000200 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000200 five_prime_coding_exon PMID:10373547 http://purl.obolibrary.org/obo/SO_0000201 An exon that is bounded by 5' and 3' splice sites. http://purl.obolibrary.org/obo/SO_0000201 interior exon http://purl.obolibrary.org/obo/SO_0000201 sequence http://purl.obolibrary.org/obo/SO_0000201 SO:0000201 http://purl.obolibrary.org/obo/SO_0000201 interior_exon SO:ma http://purl.obolibrary.org/obo/SO_0000202 The coding exon that is most 3-prime on a given transcript. http://purl.obolibrary.org/obo/SO_0000202 three prime coding exon http://purl.obolibrary.org/obo/SO_0000202 sequence http://purl.obolibrary.org/obo/SO_0000202 3' coding exon http://purl.obolibrary.org/obo/SO_0000202 SO:0000202 http://purl.obolibrary.org/obo/SO_0000202 three_prime_coding_exon SO:ke http://purl.obolibrary.org/obo/SO_0000203 Messenger RNA sequences that are untranslated and lie five prime or three prime to sequences which are translated. http://purl.obolibrary.org/obo/SO_0000203 untranslated region http://purl.obolibrary.org/obo/SO_0000203 sequence http://purl.obolibrary.org/obo/SO_0000203 SO:0000203 http://purl.obolibrary.org/obo/SO_0000203 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000203 UTR http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000204 A region at the 5' end of a mature transcript (preceding the initiation codon) that is not translated into a protein. wiki http://purl.obolibrary.org/obo/SO_0000204 http://en.wikipedia.org/wiki/5'_UTR http://purl.obolibrary.org/obo/SO_0000204 5' UTR http://purl.obolibrary.org/obo/SO_0000204 five prime UTR http://purl.obolibrary.org/obo/SO_0000204 five_prime_untranslated_region http://purl.obolibrary.org/obo/SO_0000204 sequence http://purl.obolibrary.org/obo/SO_0000204 SO:0000204 http://purl.obolibrary.org/obo/SO_0000204 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000204 five_prime_UTR http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000205 A region at the 3' end of a mature transcript (following the stop codon) that is not translated into a protein. wiki http://purl.obolibrary.org/obo/SO_0000205 http://en.wikipedia.org/wiki/Three_prime_untranslated_region http://purl.obolibrary.org/obo/SO_0000205 three prime UTR http://purl.obolibrary.org/obo/SO_0000205 three prime untranslated region http://purl.obolibrary.org/obo/SO_0000205 sequence http://purl.obolibrary.org/obo/SO_0000205 SO:0000205 http://purl.obolibrary.org/obo/SO_0000205 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000205 three_prime_UTR SO:ke http://purl.obolibrary.org/obo/SO_0000206 A repetitive element, a few hundred base pairs long, that is dispersed throughout the genome. A common human SINE is the Alu element. wiki http://purl.obolibrary.org/obo/SO_0000206 http://en.wikipedia.org/wiki/Short_interspersed_nuclear_element http://purl.obolibrary.org/obo/SO_0000206 SINE element http://purl.obolibrary.org/obo/SO_0000206 Short interspersed element http://purl.obolibrary.org/obo/SO_0000206 Short interspersed nuclear element http://purl.obolibrary.org/obo/SO_0000206 sequence http://purl.obolibrary.org/obo/SO_0000206 SO:0000206 http://purl.obolibrary.org/obo/SO_0000206 SINE_element http://purl.obolibrary.org/obo/SO_0000207 simple sequence length variation http://purl.obolibrary.org/obo/SO_0000207 sequence http://purl.obolibrary.org/obo/SO_0000207 SSLP http://purl.obolibrary.org/obo/SO_0000207 simple sequence length polymorphism http://purl.obolibrary.org/obo/SO_0000207 SO:0000207 http://purl.obolibrary.org/obo/SO_0000207 simple_sequence_length_variation http://www.genetics.org/cgi/reprint/156/4/1983.pdf http://purl.obolibrary.org/obo/SO_0000208 A DNA transposable element defined as having termini with perfect, or nearly perfect short inverted repeats, generally 10 - 40 nucleotides long. http://purl.obolibrary.org/obo/SO_0000208 TIR element http://purl.obolibrary.org/obo/SO_0000208 terminal inverted repeat element http://purl.obolibrary.org/obo/SO_0000208 sequence http://purl.obolibrary.org/obo/SO_0000208 SO:0000208 http://purl.obolibrary.org/obo/SO_0000208 terminal_inverted_repeat_element SO:ke http://purl.obolibrary.org/obo/SO_0000209 A primary transcript encoding a ribosomal RNA. http://purl.obolibrary.org/obo/SO_0000209 rRNA primary transcript http://purl.obolibrary.org/obo/SO_0000209 ribosomal RNA primary transcript http://purl.obolibrary.org/obo/SO_0000209 sequence http://purl.obolibrary.org/obo/SO_0000209 SO:0000209 http://purl.obolibrary.org/obo/SO_0000209 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000209 rRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000210 A primary transcript encoding a transfer RNA (SO:0000253). http://purl.obolibrary.org/obo/SO_0000210 tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000210 sequence http://purl.obolibrary.org/obo/SO_0000210 SO:0000210 http://purl.obolibrary.org/obo/SO_0000210 tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000211 A primary transcript encoding alanyl tRNA. http://purl.obolibrary.org/obo/SO_0000211 alanine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000211 sequence http://purl.obolibrary.org/obo/SO_0000211 SO:0000211 http://purl.obolibrary.org/obo/SO_0000211 alanine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000212 A primary transcript encoding arginyl tRNA (SO:0000255). http://purl.obolibrary.org/obo/SO_0000212 arginine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000212 sequence http://purl.obolibrary.org/obo/SO_0000212 SO:0000212 http://purl.obolibrary.org/obo/SO_0000212 arginine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000213 A primary transcript encoding asparaginyl tRNA (SO:0000256). http://purl.obolibrary.org/obo/SO_0000213 asparagine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000213 sequence http://purl.obolibrary.org/obo/SO_0000213 SO:0000213 http://purl.obolibrary.org/obo/SO_0000213 asparagine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000214 A primary transcript encoding aspartyl tRNA (SO:0000257). http://purl.obolibrary.org/obo/SO_0000214 aspartic acid tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000214 sequence http://purl.obolibrary.org/obo/SO_0000214 SO:0000214 http://purl.obolibrary.org/obo/SO_0000214 aspartic_acid_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000215 A primary transcript encoding cysteinyl tRNA (SO:0000258). http://purl.obolibrary.org/obo/SO_0000215 cysteine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000215 sequence http://purl.obolibrary.org/obo/SO_0000215 SO:0000215 http://purl.obolibrary.org/obo/SO_0000215 cysteine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000216 A primary transcript encoding glutaminyl tRNA (SO:0000260). http://purl.obolibrary.org/obo/SO_0000216 glutamic acid tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000216 sequence http://purl.obolibrary.org/obo/SO_0000216 SO:0000216 http://purl.obolibrary.org/obo/SO_0000216 glutamic_acid_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000217 A primary transcript encoding glutamyl tRNA (SO:0000260). http://purl.obolibrary.org/obo/SO_0000217 glutamine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000217 sequence http://purl.obolibrary.org/obo/SO_0000217 SO:0000217 http://purl.obolibrary.org/obo/SO_0000217 glutamine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000218 A primary transcript encoding glycyl tRNA (SO:0000263). http://purl.obolibrary.org/obo/SO_0000218 glycine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000218 sequence http://purl.obolibrary.org/obo/SO_0000218 SO:0000218 http://purl.obolibrary.org/obo/SO_0000218 glycine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000219 A primary transcript encoding histidyl tRNA (SO:0000262). http://purl.obolibrary.org/obo/SO_0000219 histidine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000219 sequence http://purl.obolibrary.org/obo/SO_0000219 SO:0000219 http://purl.obolibrary.org/obo/SO_0000219 histidine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000220 A primary transcript encoding isoleucyl tRNA (SO:0000263). http://purl.obolibrary.org/obo/SO_0000220 isoleucine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000220 sequence http://purl.obolibrary.org/obo/SO_0000220 SO:0000220 http://purl.obolibrary.org/obo/SO_0000220 isoleucine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000221 A primary transcript encoding leucyl tRNA (SO:0000264). http://purl.obolibrary.org/obo/SO_0000221 leucine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000221 sequence http://purl.obolibrary.org/obo/SO_0000221 SO:0000221 http://purl.obolibrary.org/obo/SO_0000221 leucine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000222 A primary transcript encoding lysyl tRNA (SO:0000265). http://purl.obolibrary.org/obo/SO_0000222 lysine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000222 sequence http://purl.obolibrary.org/obo/SO_0000222 SO:0000222 http://purl.obolibrary.org/obo/SO_0000222 lysine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000223 A primary transcript encoding methionyl tRNA (SO:0000266). http://purl.obolibrary.org/obo/SO_0000223 methionine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000223 sequence http://purl.obolibrary.org/obo/SO_0000223 SO:0000223 http://purl.obolibrary.org/obo/SO_0000223 methionine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000224 A primary transcript encoding phenylalanyl tRNA (SO:0000267). http://purl.obolibrary.org/obo/SO_0000224 phenylalanine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000224 sequence http://purl.obolibrary.org/obo/SO_0000224 SO:0000224 http://purl.obolibrary.org/obo/SO_0000224 phenylalanine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000225 A primary transcript encoding prolyl tRNA (SO:0000268). http://purl.obolibrary.org/obo/SO_0000225 proline tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000225 sequence http://purl.obolibrary.org/obo/SO_0000225 SO:0000225 http://purl.obolibrary.org/obo/SO_0000225 proline_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000226 A primary transcript encoding seryl tRNA (SO:000269). http://purl.obolibrary.org/obo/SO_0000226 serine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000226 sequence http://purl.obolibrary.org/obo/SO_0000226 SO:0000226 http://purl.obolibrary.org/obo/SO_0000226 serine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000227 A primary transcript encoding threonyl tRNA (SO:000270). http://purl.obolibrary.org/obo/SO_0000227 threonine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000227 sequence http://purl.obolibrary.org/obo/SO_0000227 SO:0000227 http://purl.obolibrary.org/obo/SO_0000227 threonine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000228 A primary transcript encoding tryptophanyl tRNA (SO:000271). http://purl.obolibrary.org/obo/SO_0000228 tryptophan tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000228 sequence http://purl.obolibrary.org/obo/SO_0000228 SO:0000228 http://purl.obolibrary.org/obo/SO_0000228 tryptophan_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000229 A primary transcript encoding tyrosyl tRNA (SO:000272). http://purl.obolibrary.org/obo/SO_0000229 tyrosine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000229 sequence http://purl.obolibrary.org/obo/SO_0000229 SO:0000229 http://purl.obolibrary.org/obo/SO_0000229 tyrosine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000230 A primary transcript encoding valyl tRNA (SO:000273). http://purl.obolibrary.org/obo/SO_0000230 valine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0000230 sequence http://purl.obolibrary.org/obo/SO_0000230 SO:0000230 http://purl.obolibrary.org/obo/SO_0000230 valine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000231 A primary transcript encoding a small nuclear RNA (SO:0000274). http://purl.obolibrary.org/obo/SO_0000231 snRNA primary transcript http://purl.obolibrary.org/obo/SO_0000231 sequence http://purl.obolibrary.org/obo/SO_0000231 SO:0000231 http://purl.obolibrary.org/obo/SO_0000231 snRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000232 A primary transcript encoding a small nucleolar mRNA (SO:0000275). http://purl.obolibrary.org/obo/SO_0000232 snoRNA primary transcript http://purl.obolibrary.org/obo/SO_0000232 sequence http://purl.obolibrary.org/obo/SO_0000232 SO:0000232 http://purl.obolibrary.org/obo/SO_0000232 snoRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000233 A transcript which has undergone the necessary modifications, if any, for its function. In eukaryotes this includes, for example, processing of introns, cleavage, base modification, and modifications to the 5' and/or the 3' ends, other than addition of bases. In bacteria functional mRNAs are usually not modified. wiki http://purl.obolibrary.org/obo/SO_0000233 http://en.wikipedia.org/wiki/Mature_transcript http://purl.obolibrary.org/obo/SO_0000233 mature transcript http://purl.obolibrary.org/obo/SO_0000233 sequence http://purl.obolibrary.org/obo/SO_0000233 SO:0000233 http://purl.obolibrary.org/obo/SO_0000233 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000233 A processed transcript cannot contain introns. http://purl.obolibrary.org/obo/SO_0000233 mature_transcript SO:ma http://purl.obolibrary.org/obo/SO_0000234 Messenger RNA is the intermediate molecule between DNA and protein. It includes UTR and coding sequences. It does not contain introns. wiki http://purl.obolibrary.org/obo/SO_0000234 http://en.wikipedia.org/wiki/MRNA http://purl.obolibrary.org/obo/SO_0000234 messenger RNA http://purl.obolibrary.org/obo/SO_0000234 sequence http://purl.obolibrary.org/obo/SO_0000234 SO:0000234 http://purl.obolibrary.org/obo/SO_0000234 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000234 An mRNA does not contain introns as it is a processed_transcript. The equivalent kind of primary_transcript is protein_coding_primary_transcript (SO:0000120) which may contain introns. This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000234 mRNA SO:ke http://purl.obolibrary.org/obo/SO_0000235 A region of a nucleotide molecule that binds a Transcription Factor or Transcription Factor complex [GO:0005667]. http://purl.obolibrary.org/obo/SO_0000235 TF binding site http://purl.obolibrary.org/obo/SO_0000235 transcription factor binding site http://purl.obolibrary.org/obo/SO_0000235 sequence http://purl.obolibrary.org/obo/SO_0000235 SO:0000235 http://purl.obolibrary.org/obo/SO_0000235 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000235 TF_binding_site SGD:rb SO:ma http://purl.obolibrary.org/obo/SO_0000236 The in-frame interval between the stop codons of a reading frame which when read as sequential triplets, has the potential of encoding a sequential string of amino acids. TER(NNN)nTER. http://purl.obolibrary.org/obo/SO_0000236 open reading frame http://purl.obolibrary.org/obo/SO_0000236 sequence http://purl.obolibrary.org/obo/SO_0000236 SO:0000236 http://purl.obolibrary.org/obo/SO_0000236 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000236 The definition was modified by Rama. ORF is defined by the sequence, whereas the CDS is defined according to whether a polypeptide is made. This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000236 ORF http://purl.obolibrary.org/obo/SO_0000237 transcript attribute http://purl.obolibrary.org/obo/SO_0000237 sequence http://purl.obolibrary.org/obo/SO_0000237 SO:0000237 http://purl.obolibrary.org/obo/SO_0000237 transcript_attribute http://www.genetics.org/cgi/reprint/156/4/1983.pdf http://purl.obolibrary.org/obo/SO_0000238 A transposable element with extensive secondary structure, characterized by large modular imperfect long inverted repeats. http://purl.obolibrary.org/obo/SO_0000238 foldback element http://purl.obolibrary.org/obo/SO_0000238 sequence http://purl.obolibrary.org/obo/SO_0000238 LVR element http://purl.obolibrary.org/obo/SO_0000238 long inverted repeat element http://purl.obolibrary.org/obo/SO_0000238 SO:0000238 http://purl.obolibrary.org/obo/SO_0000238 foldback_element SO:ke http://purl.obolibrary.org/obo/SO_0000239 The sequences extending on either side of a specific region. http://purl.obolibrary.org/obo/SO_0000239 flanking region http://purl.obolibrary.org/obo/SO_0000239 sequence http://purl.obolibrary.org/obo/SO_0000239 SO:0000239 http://purl.obolibrary.org/obo/SO_0000239 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000239 flanking_region http://purl.obolibrary.org/obo/SO_0000240 chromosome variation http://purl.obolibrary.org/obo/SO_0000240 sequence http://purl.obolibrary.org/obo/SO_0000240 SO:0000240 http://purl.obolibrary.org/obo/SO_0000240 chromosome_variation SO:cjm http://purl.obolibrary.org/obo/SO_0000241 A UTR bordered by the terminal and initial codons of two CDSs in a polycistronic transcript. Every UTR is either 5', 3' or internal. http://purl.obolibrary.org/obo/SO_0000241 internal UTR http://purl.obolibrary.org/obo/SO_0000241 sequence http://purl.obolibrary.org/obo/SO_0000241 SO:0000241 http://purl.obolibrary.org/obo/SO_0000241 internal_UTR SO:ke http://purl.obolibrary.org/obo/SO_0000242 The untranslated sequence separating the 'cistrons' of multicistronic mRNA. http://purl.obolibrary.org/obo/SO_0000242 untranslated region polycistronic mRNA http://purl.obolibrary.org/obo/SO_0000242 sequence http://purl.obolibrary.org/obo/SO_0000242 SO:0000242 http://purl.obolibrary.org/obo/SO_0000242 untranslated_region_polycistronic_mRNA SO:ke http://purl.obolibrary.org/obo/SO_0000243 Sequence element that recruits a ribosomal subunit to internal mRNA for translation initiation. wiki http://purl.obolibrary.org/obo/SO_0000243 http://en.wikipedia.org/wiki/Internal_ribosome_entry_site http://purl.obolibrary.org/obo/SO_0000243 IRES http://purl.obolibrary.org/obo/SO_0000243 internal ribosomal entry sequence http://purl.obolibrary.org/obo/SO_0000243 internal ribosomal entry site http://purl.obolibrary.org/obo/SO_0000243 internal ribosome entry site http://purl.obolibrary.org/obo/SO_0000243 sequence http://purl.obolibrary.org/obo/SO_0000243 internal ribosome entry sequence http://purl.obolibrary.org/obo/SO_0000243 SO:0000243 http://purl.obolibrary.org/obo/SO_0000243 internal_ribosome_entry_site http://purl.obolibrary.org/obo/SO_0000244 sequence http://purl.obolibrary.org/obo/SO_0000244 4-cutter_restriction_site http://purl.obolibrary.org/obo/SO_0000244 four-cutter_restriction_sit http://purl.obolibrary.org/obo/SO_0000244 SO:0000244 http://purl.obolibrary.org/obo/SO_0000244 four_cutter_restriction_site http://purl.obolibrary.org/obo/SO_0000244 true http://purl.obolibrary.org/obo/SO_0000245 sequence http://purl.obolibrary.org/obo/SO_0000245 SO:0000245 http://purl.obolibrary.org/obo/SO_0000245 mRNA_by_polyadenylation_status http://purl.obolibrary.org/obo/SO_0000245 true SO:ke http://purl.obolibrary.org/obo/SO_0000246 A attribute describing the addition of a poly A tail to the 3' end of a mRNA molecule. http://purl.obolibrary.org/obo/SO_0000246 sequence http://purl.obolibrary.org/obo/SO_0000246 SO:0000246 http://purl.obolibrary.org/obo/SO_0000246 polyadenylated http://purl.obolibrary.org/obo/SO_0000247 sequence http://purl.obolibrary.org/obo/SO_0000247 SO:0000247 http://purl.obolibrary.org/obo/SO_0000247 mRNA_not_polyadenylated http://purl.obolibrary.org/obo/SO_0000247 true http://purl.obolibrary.org/obo/SO_0000248 sequence length variation http://purl.obolibrary.org/obo/SO_0000248 sequence http://purl.obolibrary.org/obo/SO_0000248 SO:0000248 http://purl.obolibrary.org/obo/SO_0000248 sequence_length_variation http://purl.obolibrary.org/obo/SO_0000249 sequence http://purl.obolibrary.org/obo/SO_0000249 6-cutter_restriction_site http://purl.obolibrary.org/obo/SO_0000249 six-cutter_restriction_site http://purl.obolibrary.org/obo/SO_0000249 SO:0000249 http://purl.obolibrary.org/obo/SO_0000249 six_cutter_restriction_site http://purl.obolibrary.org/obo/SO_0000249 true SO:ke http://purl.obolibrary.org/obo/SO_0000250 A post_transcriptionally modified base. http://purl.obolibrary.org/obo/SO_0000250 modified RNA base feature http://purl.obolibrary.org/obo/SO_0000250 sequence http://purl.obolibrary.org/obo/SO_0000250 SO:0000250 http://purl.obolibrary.org/obo/SO_0000250 modified_RNA_base_feature http://purl.obolibrary.org/obo/SO_0000251 sequence http://purl.obolibrary.org/obo/SO_0000251 8-cutter_restriction_site http://purl.obolibrary.org/obo/SO_0000251 eight-cutter_restriction_site http://purl.obolibrary.org/obo/SO_0000251 SO:0000251 http://purl.obolibrary.org/obo/SO_0000251 eight_cutter_restriction_site http://purl.obolibrary.org/obo/SO_0000251 true ISBN:0198506732 http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000252 RNA that comprises part of a ribosome, and that can provide both structural scaffolding and catalytic activity. wiki http://purl.obolibrary.org/obo/SO_0000252 http://en.wikipedia.org/wiki/RRNA http://purl.obolibrary.org/obo/SO_0000252 ribosomal RNA http://purl.obolibrary.org/obo/SO_0000252 ribosomal ribonucleic acid http://purl.obolibrary.org/obo/SO_0000252 sequence http://purl.obolibrary.org/obo/SO_0000252 SO:0000252 http://purl.obolibrary.org/obo/SO_0000252 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000252 rRNA ISBN:0198506732 http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00005 http://purl.obolibrary.org/obo/SO_0000253 Transfer RNA (tRNA) molecules are approximately 80 nucleotides in length. Their secondary structure includes four short double-helical elements and three loops (D, anti-codon, and T loops). Further hydrogen bonds mediate the characteristic L-shaped molecular structure. Transfer RNAs have two regions of fundamental functional importance: the anti-codon, which is responsible for specific mRNA codon recognition, and the 3' end, to which the tRNA's corresponding amino acid is attached (by aminoacyl-tRNA synthetases). Transfer RNAs cope with the degeneracy of the genetic code in two manners: having more than one tRNA (with a specific anti-codon) for a particular amino acid; and 'wobble' base-pairing, i.e. permitting non-standard base-pairing at the 3rd anti-codon position. wiki http://purl.obolibrary.org/obo/SO_0000253 http://en.wikipedia.org/wiki/TRNA http://purl.obolibrary.org/obo/SO_0000253 sequence http://purl.obolibrary.org/obo/SO_0000253 transfer RNA http://purl.obolibrary.org/obo/SO_0000253 transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000253 SO:0000253 http://purl.obolibrary.org/obo/SO_0000253 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000253 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000253 tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000254 A tRNA sequence that has an alanine anticodon, and a 3' alanine binding region. http://purl.obolibrary.org/obo/SO_0000254 alanyl tRNA http://purl.obolibrary.org/obo/SO_0000254 alanyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000254 alanyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000254 sequence http://purl.obolibrary.org/obo/SO_0000254 SO:0000254 http://purl.obolibrary.org/obo/SO_0000254 alanyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000255 A primary transcript encoding a small ribosomal subunit RNA. http://purl.obolibrary.org/obo/SO_0000255 rRNA small subunit primary transcript http://purl.obolibrary.org/obo/SO_0000255 sequence http://purl.obolibrary.org/obo/SO_0000255 SO:0000255 http://purl.obolibrary.org/obo/SO_0000255 rRNA_small_subunit_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000256 A tRNA sequence that has an asparagine anticodon, and a 3' asparagine binding region. http://purl.obolibrary.org/obo/SO_0000256 asparaginyl tRNA http://purl.obolibrary.org/obo/SO_0000256 asparaginyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000256 asparaginyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000256 sequence http://purl.obolibrary.org/obo/SO_0000256 SO:0000256 http://purl.obolibrary.org/obo/SO_0000256 asparaginyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000257 A tRNA sequence that has an aspartic acid anticodon, and a 3' aspartic acid binding region. http://purl.obolibrary.org/obo/SO_0000257 aspartyl tRNA http://purl.obolibrary.org/obo/SO_0000257 aspartyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000257 aspartyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000257 sequence http://purl.obolibrary.org/obo/SO_0000257 SO:0000257 http://purl.obolibrary.org/obo/SO_0000257 aspartyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000258 A tRNA sequence that has a cysteine anticodon, and a 3' cysteine binding region. http://purl.obolibrary.org/obo/SO_0000258 cysteinyl tRNA http://purl.obolibrary.org/obo/SO_0000258 cysteinyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000258 cysteinyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000258 sequence http://purl.obolibrary.org/obo/SO_0000258 SO:0000258 http://purl.obolibrary.org/obo/SO_0000258 cysteinyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000259 A tRNA sequence that has a glutamine anticodon, and a 3' glutamine binding region. http://purl.obolibrary.org/obo/SO_0000259 glutaminyl tRNA http://purl.obolibrary.org/obo/SO_0000259 glutaminyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000259 glutaminyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000259 sequence http://purl.obolibrary.org/obo/SO_0000259 SO:0000259 http://purl.obolibrary.org/obo/SO_0000259 glutaminyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000260 A tRNA sequence that has a glutamic acid anticodon, and a 3' glutamic acid binding region. http://purl.obolibrary.org/obo/SO_0000260 glutamyl tRNA http://purl.obolibrary.org/obo/SO_0000260 glutamyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000260 sequence http://purl.obolibrary.org/obo/SO_0000260 glutamyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000260 SO:0000260 http://purl.obolibrary.org/obo/SO_0000260 glutamyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000261 A tRNA sequence that has a glycine anticodon, and a 3' glycine binding region. http://purl.obolibrary.org/obo/SO_0000261 glycyl tRNA http://purl.obolibrary.org/obo/SO_0000261 sequence http://purl.obolibrary.org/obo/SO_0000261 glycyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000261 glycyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000261 SO:0000261 http://purl.obolibrary.org/obo/SO_0000261 glycyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000262 A tRNA sequence that has a histidine anticodon, and a 3' histidine binding region. http://purl.obolibrary.org/obo/SO_0000262 histidyl tRNA http://purl.obolibrary.org/obo/SO_0000262 histidyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000262 histidyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000262 sequence http://purl.obolibrary.org/obo/SO_0000262 SO:0000262 http://purl.obolibrary.org/obo/SO_0000262 histidyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000263 A tRNA sequence that has an isoleucine anticodon, and a 3' isoleucine binding region. http://purl.obolibrary.org/obo/SO_0000263 isoleucyl tRNA http://purl.obolibrary.org/obo/SO_0000263 isoleucyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000263 isoleucyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000263 sequence http://purl.obolibrary.org/obo/SO_0000263 SO:0000263 http://purl.obolibrary.org/obo/SO_0000263 isoleucyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000264 A tRNA sequence that has a leucine anticodon, and a 3' leucine binding region. http://purl.obolibrary.org/obo/SO_0000264 leucyl tRNA http://purl.obolibrary.org/obo/SO_0000264 leucyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000264 leucyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000264 sequence http://purl.obolibrary.org/obo/SO_0000264 SO:0000264 http://purl.obolibrary.org/obo/SO_0000264 leucyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000265 A tRNA sequence that has a lysine anticodon, and a 3' lysine binding region. http://purl.obolibrary.org/obo/SO_0000265 lysyl tRNA http://purl.obolibrary.org/obo/SO_0000265 lysyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000265 lysyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000265 sequence http://purl.obolibrary.org/obo/SO_0000265 SO:0000265 http://purl.obolibrary.org/obo/SO_0000265 lysyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000266 A tRNA sequence that has a methionine anticodon, and a 3' methionine binding region. http://purl.obolibrary.org/obo/SO_0000266 methionyl tRNA http://purl.obolibrary.org/obo/SO_0000266 methionyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000266 methionyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000266 sequence http://purl.obolibrary.org/obo/SO_0000266 SO:0000266 http://purl.obolibrary.org/obo/SO_0000266 methionyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000267 A tRNA sequence that has a phenylalanine anticodon, and a 3' phenylalanine binding region. http://purl.obolibrary.org/obo/SO_0000267 phenylalanyl tRNA http://purl.obolibrary.org/obo/SO_0000267 phenylalanyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000267 phenylalanyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000267 sequence http://purl.obolibrary.org/obo/SO_0000267 SO:0000267 http://purl.obolibrary.org/obo/SO_0000267 phenylalanyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000268 A tRNA sequence that has a proline anticodon, and a 3' proline binding region. http://purl.obolibrary.org/obo/SO_0000268 prolyl tRNA http://purl.obolibrary.org/obo/SO_0000268 prolyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000268 prolyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000268 sequence http://purl.obolibrary.org/obo/SO_0000268 SO:0000268 http://purl.obolibrary.org/obo/SO_0000268 prolyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000269 A tRNA sequence that has a serine anticodon, and a 3' serine binding region. http://purl.obolibrary.org/obo/SO_0000269 seryl tRNA http://purl.obolibrary.org/obo/SO_0000269 seryl-transfer RNA http://purl.obolibrary.org/obo/SO_0000269 sequence http://purl.obolibrary.org/obo/SO_0000269 seryl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000269 SO:0000269 http://purl.obolibrary.org/obo/SO_0000269 seryl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000270 A tRNA sequence that has a threonine anticodon, and a 3' threonine binding region. http://purl.obolibrary.org/obo/SO_0000270 threonyl tRNA http://purl.obolibrary.org/obo/SO_0000270 threonyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000270 sequence http://purl.obolibrary.org/obo/SO_0000270 threonyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000270 SO:0000270 http://purl.obolibrary.org/obo/SO_0000270 threonyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000271 A tRNA sequence that has a tryptophan anticodon, and a 3' tryptophan binding region. http://purl.obolibrary.org/obo/SO_0000271 tryptophanyl tRNA http://purl.obolibrary.org/obo/SO_0000271 tryptophanyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000271 tryptophanyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000271 sequence http://purl.obolibrary.org/obo/SO_0000271 SO:0000271 http://purl.obolibrary.org/obo/SO_0000271 tryptophanyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000272 A tRNA sequence that has a tyrosine anticodon, and a 3' tyrosine binding region. http://purl.obolibrary.org/obo/SO_0000272 tyrosyl tRNA http://purl.obolibrary.org/obo/SO_0000272 tyrosyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000272 sequence http://purl.obolibrary.org/obo/SO_0000272 tyrosyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000272 SO:0000272 http://purl.obolibrary.org/obo/SO_0000272 tyrosyl_tRNA SO:ke http://purl.obolibrary.org/obo/SO_0000273 A tRNA sequence that has a valine anticodon, and a 3' valine binding region. http://purl.obolibrary.org/obo/SO_0000273 valyl tRNA http://purl.obolibrary.org/obo/SO_0000273 valyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000273 sequence http://purl.obolibrary.org/obo/SO_0000273 valyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000273 SO:0000273 http://purl.obolibrary.org/obo/SO_0000273 valyl_tRNA PMID:11733745 WB:ems http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000274 A small nuclear RNA molecule involved in pre-mRNA splicing and processing. wiki http://purl.obolibrary.org/obo/SO_0000274 http://en.wikipedia.org/wiki/SnRNA http://purl.obolibrary.org/obo/SO_0000274 small nuclear RNA http://purl.obolibrary.org/obo/SO_0000274 sequence http://purl.obolibrary.org/obo/SO_0000274 SO:0000274 http://purl.obolibrary.org/obo/SO_0000274 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000274 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000274 snRNA GOC:kgc http://purl.obolibrary.org/obo/SO_0000275 A snoRNA (small nucleolar RNA) is any one of a class of small RNAs that are associated with the eukaryotic nucleus as components of small nucleolar ribonucleoproteins. They participate in the processing or modifications of many RNAs, mostly ribosomal RNAs (rRNAs) though snoRNAs are also known to target other classes of RNA, including spliceosomal RNAs, tRNAs, and mRNAs via a stretch of sequence that is complementary to a sequence in the targeted RNA. wiki http://purl.obolibrary.org/obo/SO_0000275 http://en.wikipedia.org/wiki/SnoRNA http://purl.obolibrary.org/obo/SO_0000275 small nucleolar RNA http://purl.obolibrary.org/obo/SO_0000275 sequence http://purl.obolibrary.org/obo/SO_0000275 SO:0000275 http://purl.obolibrary.org/obo/SO_0000275 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000275 snoRNA PMID:11081512 PMID:12592000 http://purl.obolibrary.org/obo/SO_0000276 Small, ~22-nt, RNA molecule that is the endogenous transcript of a miRNA gene (or the product of other non coding RNA genes. Micro RNAs are produced from precursor molecules (SO:0000647) that can form local hairpin structures, which ordinarily are processed (usually via the Dicer pathway) such that a single miRNA molecule accumulates from one arm of a hairpin precursor molecule. Micro RNAs may trigger the cleavage of their target molecules or act as translational repressors. http://purl.obolibrary.org/obo/SO_0000276 SO:0000649 wiki http://purl.obolibrary.org/obo/SO_0000276 http://en.wikipedia.org/wiki/MiRNA wiki http://purl.obolibrary.org/obo/SO_0000276 http://en.wikipedia.org/wiki/StRNA http://purl.obolibrary.org/obo/SO_0000276 micro RNA http://purl.obolibrary.org/obo/SO_0000276 microRNA http://purl.obolibrary.org/obo/SO_0000276 small temporal RNA http://purl.obolibrary.org/obo/SO_0000276 stRNA http://purl.obolibrary.org/obo/SO_0000276 sequence http://purl.obolibrary.org/obo/SO_0000276 SO:0000276 http://purl.obolibrary.org/obo/SO_0000276 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000276 miRNA SO:ke http://purl.obolibrary.org/obo/SO_0000277 An attribute describing a sequence that is bound by another molecule. http://purl.obolibrary.org/obo/SO_0000277 bound by factor http://purl.obolibrary.org/obo/SO_0000277 sequence http://purl.obolibrary.org/obo/SO_0000277 SO:0000277 http://purl.obolibrary.org/obo/SO_0000277 Formerly called transcript_by_bound_factor. http://purl.obolibrary.org/obo/SO_0000277 bound_by_factor SO:xp http://purl.obolibrary.org/obo/SO_0000278 A transcript that is bound by a nucleic acid. http://purl.obolibrary.org/obo/SO_0000278 transcript bound by nucleic acid http://purl.obolibrary.org/obo/SO_0000278 sequence http://purl.obolibrary.org/obo/SO_0000278 SO:0000278 http://purl.obolibrary.org/obo/SO_0000278 Formerly called transcript_by_bound_nucleic_acid. http://purl.obolibrary.org/obo/SO_0000278 transcript_bound_by_nucleic_acid SO:xp http://purl.obolibrary.org/obo/SO_0000279 A transcript that is bound by a protein. http://purl.obolibrary.org/obo/SO_0000279 transcript bound by protein http://purl.obolibrary.org/obo/SO_0000279 sequence http://purl.obolibrary.org/obo/SO_0000279 SO:0000279 http://purl.obolibrary.org/obo/SO_0000279 Formerly called transcript_by_bound_protein. http://purl.obolibrary.org/obo/SO_0000279 transcript_bound_by_protein SO:xp http://purl.obolibrary.org/obo/SO_0000280 A gene that is engineered. http://purl.obolibrary.org/obo/SO_0000280 engineered gene http://purl.obolibrary.org/obo/SO_0000280 sequence http://purl.obolibrary.org/obo/SO_0000280 SO:0000280 http://purl.obolibrary.org/obo/SO_0000280 engineered_gene SO:xp http://purl.obolibrary.org/obo/SO_0000281 A gene that is engineered and foreign. http://purl.obolibrary.org/obo/SO_0000281 engineered foreign gene http://purl.obolibrary.org/obo/SO_0000281 sequence http://purl.obolibrary.org/obo/SO_0000281 SO:0000281 http://purl.obolibrary.org/obo/SO_0000281 engineered_foreign_gene SO:xp http://purl.obolibrary.org/obo/SO_0000282 An mRNA with a minus 1 frameshift. http://purl.obolibrary.org/obo/SO_0000282 mRNA with minus 1 frameshift http://purl.obolibrary.org/obo/SO_0000282 sequence http://purl.obolibrary.org/obo/SO_0000282 SO:0000282 http://purl.obolibrary.org/obo/SO_0000282 mRNA_with_minus_1_frameshift SO:xp http://purl.obolibrary.org/obo/SO_0000283 A transposable_element that is engineered and foreign. http://purl.obolibrary.org/obo/SO_0000283 engineered foreign transposable element gene http://purl.obolibrary.org/obo/SO_0000283 sequence http://purl.obolibrary.org/obo/SO_0000283 SO:0000283 http://purl.obolibrary.org/obo/SO_0000283 engineered_foreign_transposable_element_gene http://www.promega.com http://purl.obolibrary.org/obo/SO_0000284 The recognition site is bipartite and interrupted. http://purl.obolibrary.org/obo/SO_0000284 sequence http://purl.obolibrary.org/obo/SO_0000284 SO:0000284 http://purl.obolibrary.org/obo/SO_0000284 type_I_enzyme_restriction_site http://purl.obolibrary.org/obo/SO_0000284 true SO:xp http://purl.obolibrary.org/obo/SO_0000285 A gene that is foreign. http://purl.obolibrary.org/obo/SO_0000285 foreign gene http://purl.obolibrary.org/obo/SO_0000285 sequence http://purl.obolibrary.org/obo/SO_0000285 SO:0000285 http://purl.obolibrary.org/obo/SO_0000285 foreign_gene http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000286 A sequence directly repeated at both ends of a defined sequence, of the sort typically found in retroviruses. wiki http://purl.obolibrary.org/obo/SO_0000286 http://en.wikipedia.org/wiki/Long_terminal_repeat http://purl.obolibrary.org/obo/SO_0000286 LTR http://purl.obolibrary.org/obo/SO_0000286 long terminal repeat http://purl.obolibrary.org/obo/SO_0000286 sequence http://purl.obolibrary.org/obo/SO_0000286 direct terminal repeat http://purl.obolibrary.org/obo/SO_0000286 SO:0000286 http://purl.obolibrary.org/obo/SO_0000286 long_terminal_repeat SO:xp http://purl.obolibrary.org/obo/SO_0000287 A gene that is a fusion. wiki http://purl.obolibrary.org/obo/SO_0000287 http://en.wikipedia.org/wiki/Fusion_gene http://purl.obolibrary.org/obo/SO_0000287 fusion gene http://purl.obolibrary.org/obo/SO_0000287 sequence http://purl.obolibrary.org/obo/SO_0000287 SO:0000287 http://purl.obolibrary.org/obo/SO_0000287 fusion_gene SO:xp http://purl.obolibrary.org/obo/SO_0000288 A fusion gene that is engineered. http://purl.obolibrary.org/obo/SO_0000288 engineered fusion gene http://purl.obolibrary.org/obo/SO_0000288 sequence http://purl.obolibrary.org/obo/SO_0000288 SO:0000288 http://purl.obolibrary.org/obo/SO_0000288 engineered_fusion_gene NCBI:th http://www.informatics.jax.org/silver/glossary.shtml http://purl.obolibrary.org/obo/SO_0000289 A repeat_region containing repeat_units of 2 to 10 bp repeated in tandem. wiki http://purl.obolibrary.org/obo/SO_0000289 http://en.wikipedia.org/wiki/Microsatellite http://purl.obolibrary.org/obo/SO_0000289 VNTR http://purl.obolibrary.org/obo/SO_0000289 microsatellite locus http://purl.obolibrary.org/obo/SO_0000289 microsatellite marker http://purl.obolibrary.org/obo/SO_0000289 sequence http://purl.obolibrary.org/obo/SO_0000289 SO:0000289 http://purl.obolibrary.org/obo/SO_0000289 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000289 microsatellite http://purl.obolibrary.org/obo/SO_0000290 dinucleotide repeat microsatellite http://purl.obolibrary.org/obo/SO_0000290 dinucleotide repeat microsatellite feature http://purl.obolibrary.org/obo/SO_0000290 dinucleotide repeat microsatellite locus http://purl.obolibrary.org/obo/SO_0000290 dinucleotide repeat microsatellite marker http://purl.obolibrary.org/obo/SO_0000290 sequence http://purl.obolibrary.org/obo/SO_0000290 SO:0000290 http://purl.obolibrary.org/obo/SO_0000290 dinucleotide_repeat_microsatellite_feature http://purl.obolibrary.org/obo/SO_0000291 rinucleotide repeat microsatellite http://purl.obolibrary.org/obo/SO_0000291 trinucleotide repeat microsatellite feature http://purl.obolibrary.org/obo/SO_0000291 trinucleotide repeat microsatellite locus http://purl.obolibrary.org/obo/SO_0000291 sequence http://purl.obolibrary.org/obo/SO_0000291 dinucleotide repeat microsatellite marker http://purl.obolibrary.org/obo/SO_0000291 SO:0000291 http://purl.obolibrary.org/obo/SO_0000291 trinucleotide_repeat_microsatellite_feature http://purl.obolibrary.org/obo/SO_0000292 sequence http://purl.obolibrary.org/obo/SO_0000292 SO:0000292 http://purl.obolibrary.org/obo/SO_0000292 repetitive_element http://purl.obolibrary.org/obo/SO_0000292 true SO:xp http://purl.obolibrary.org/obo/SO_0000293 A repetitive element that is engineered and foreign. http://purl.obolibrary.org/obo/SO_0000293 engineered foreign repetitive element http://purl.obolibrary.org/obo/SO_0000293 sequence http://purl.obolibrary.org/obo/SO_0000293 SO:0000293 http://purl.obolibrary.org/obo/SO_0000293 engineered_foreign_repetitive_element SO:ke http://purl.obolibrary.org/obo/SO_0000294 The sequence is complementarily repeated on the opposite strand. It is a palindrome, and it may, or may not be hyphenated. Examples: GCTGATCAGC, or GCTGA-----TCAGC. wiki http://purl.obolibrary.org/obo/SO_0000294 http://en.wikipedia.org/wiki/Inverted_repeat http://purl.obolibrary.org/obo/SO_0000294 inverted repeat http://purl.obolibrary.org/obo/SO_0000294 inverted repeat sequence http://purl.obolibrary.org/obo/SO_0000294 sequence http://purl.obolibrary.org/obo/SO_0000294 SO:0000294 http://purl.obolibrary.org/obo/SO_0000294 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000294 inverted_repeat PMID:9428511 http://purl.obolibrary.org/obo/SO_0000295 A type of spliceosomal intron spliced by the U12 spliceosome, that includes U11, U12, U4atac/U6atac and U5 snRNAs. http://purl.obolibrary.org/obo/SO_0000295 U12 intron http://purl.obolibrary.org/obo/SO_0000295 U12-dependent intron http://purl.obolibrary.org/obo/SO_0000295 sequence http://purl.obolibrary.org/obo/SO_0000295 SO:0000295 http://purl.obolibrary.org/obo/SO_0000295 May have either GT-AC or AT-AC 5' and 3' boundaries. http://purl.obolibrary.org/obo/SO_0000295 U12_intron http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000296 The origin of replication; starting site for duplication of a nucleic acid molecule to give two identical copies. wiki http://purl.obolibrary.org/obo/SO_0000296 http://en.wikipedia.org/wiki/Origin_of_replication http://purl.obolibrary.org/obo/SO_0000296 ori http://purl.obolibrary.org/obo/SO_0000296 origin of replication http://purl.obolibrary.org/obo/SO_0000296 sequence http://purl.obolibrary.org/obo/SO_0000296 SO:0000296 http://purl.obolibrary.org/obo/SO_0000296 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000296 origin_of_replication http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000297 Displacement loop; a region within mitochondrial DNA in which a short stretch of RNA is paired with one strand of DNA, displacing the original partner DNA strand in this region; also used to describe the displacement of a region of one strand of duplex DNA by a single stranded invader in the reaction catalyzed by RecA protein. wiki http://purl.obolibrary.org/obo/SO_0000297 http://en.wikipedia.org/wiki/D_loop http://purl.obolibrary.org/obo/SO_0000297 D-loop http://purl.obolibrary.org/obo/SO_0000297 sequence http://purl.obolibrary.org/obo/SO_0000297 displacement loop http://purl.obolibrary.org/obo/SO_0000297 SO:0000297 http://purl.obolibrary.org/obo/SO_0000297 D_loop http://purl.obolibrary.org/obo/SO_0000298 recombination feature http://purl.obolibrary.org/obo/SO_0000298 sequence http://purl.obolibrary.org/obo/SO_0000298 SO:0000298 http://purl.obolibrary.org/obo/SO_0000298 recombination_feature http://purl.obolibrary.org/obo/SO_0000299 specific recombination site http://purl.obolibrary.org/obo/SO_0000299 sequence http://purl.obolibrary.org/obo/SO_0000299 SO:0000299 http://purl.obolibrary.org/obo/SO_0000299 specific_recombination_site http://purl.obolibrary.org/obo/SO_0000300 recombination feature of rearranged gene http://purl.obolibrary.org/obo/SO_0000300 sequence http://purl.obolibrary.org/obo/SO_0000300 SO:0000300 http://purl.obolibrary.org/obo/SO_0000300 recombination_feature_of_rearranged_gene http://purl.obolibrary.org/obo/SO_0000301 vertebrate immune system gene recombination feature http://purl.obolibrary.org/obo/SO_0000301 sequence http://purl.obolibrary.org/obo/SO_0000301 SO:0000301 http://purl.obolibrary.org/obo/SO_0000301 vertebrate_immune_system_gene_recombination_feature http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000302 Recombination signal including J-heptamer, J-spacer and J-nonamer in 5' of J-region of a J-gene or J-sequence. http://purl.obolibrary.org/obo/SO_0000302 J gene recombination feature http://purl.obolibrary.org/obo/SO_0000302 J-RS http://purl.obolibrary.org/obo/SO_0000302 sequence http://purl.obolibrary.org/obo/SO_0000302 SO:0000302 http://purl.obolibrary.org/obo/SO_0000302 J_gene_recombination_feature SO:ke http://purl.obolibrary.org/obo/SO_0000303 Part of the primary transcript that is clipped off during processing. http://purl.obolibrary.org/obo/SO_0000303 sequence http://purl.obolibrary.org/obo/SO_0000303 SO:0000303 http://purl.obolibrary.org/obo/SO_0000303 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000303 clip http://www.promega.com http://purl.obolibrary.org/obo/SO_0000304 The recognition site is either palindromic, partially palindromic or an interrupted palindrome. Cleavage occurs within the recognition site. http://purl.obolibrary.org/obo/SO_0000304 sequence http://purl.obolibrary.org/obo/SO_0000304 SO:0000304 http://purl.obolibrary.org/obo/SO_0000304 type_II_enzyme_restriction_site http://purl.obolibrary.org/obo/SO_0000304 true http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000305 A modified nucleotide, i.e. a nucleotide other than A, T, C. G. http://purl.obolibrary.org/obo/SO_0000305 modified base site http://purl.obolibrary.org/obo/SO_0000305 sequence http://purl.obolibrary.org/obo/SO_0000305 SO:0000305 http://purl.obolibrary.org/obo/SO_0000305 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000305 Modified base:<modified_base>. http://purl.obolibrary.org/obo/SO_0000305 modified_DNA_base SO:ke http://purl.obolibrary.org/obo/SO_0000306 A nucleotide modified by methylation. http://purl.obolibrary.org/obo/SO_0000306 methylated base feature http://purl.obolibrary.org/obo/SO_0000306 sequence http://purl.obolibrary.org/obo/SO_0000306 SO:0000306 http://purl.obolibrary.org/obo/SO_0000306 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000306 methylated_DNA_base_feature SO:rd http://purl.obolibrary.org/obo/SO_0000307 Regions of a few hundred to a few thousand bases in vertebrate genomes that are relatively GC and CpG rich; they are typically unmethylated and often found near the 5' ends of genes. wiki http://purl.obolibrary.org/obo/SO_0000307 http://en.wikipedia.org/wiki/CpG_island http://purl.obolibrary.org/obo/SO_0000307 CG island http://purl.obolibrary.org/obo/SO_0000307 CpG island http://purl.obolibrary.org/obo/SO_0000307 sequence http://purl.obolibrary.org/obo/SO_0000307 SO:0000307 http://purl.obolibrary.org/obo/SO_0000307 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000307 CpG_island http://purl.obolibrary.org/obo/SO_0000308 sequence http://purl.obolibrary.org/obo/SO_0000308 SO:0000308 http://purl.obolibrary.org/obo/SO_0000308 sequence_feature_locating_method http://purl.obolibrary.org/obo/SO_0000308 true http://purl.obolibrary.org/obo/SO_0000309 sequence http://purl.obolibrary.org/obo/SO_0000309 SO:0000309 http://purl.obolibrary.org/obo/SO_0000309 computed_feature http://purl.obolibrary.org/obo/SO_0000309 true http://purl.obolibrary.org/obo/SO_0000310 sequence http://purl.obolibrary.org/obo/SO_0000310 SO:0000310 http://purl.obolibrary.org/obo/SO_0000310 predicted_ab_initio_computation http://purl.obolibrary.org/obo/SO_0000310 true SO:ma http://purl.obolibrary.org/obo/SO_0000311 . http://purl.obolibrary.org/obo/SO_0000311 sequence http://purl.obolibrary.org/obo/SO_0000311 SO:0000311 http://purl.obolibrary.org/obo/SO_0000311 similar to:<sequence_id> http://purl.obolibrary.org/obo/SO_0000311 computed_feature_by_similarity http://purl.obolibrary.org/obo/SO_0000311 true SO:ke http://purl.obolibrary.org/obo/SO_0000312 Attribute to describe a feature that has been experimentally verified. http://purl.obolibrary.org/obo/SO_0000312 experimentally determined http://purl.obolibrary.org/obo/SO_0000312 sequence http://purl.obolibrary.org/obo/SO_0000312 SO:0000312 http://purl.obolibrary.org/obo/SO_0000312 experimentally_determined http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000313 A double-helical region of nucleic acid formed by base-pairing between adjacent (inverted) complementary sequences. http://purl.obolibrary.org/obo/SO_0000313 SO:0000019 wiki http://purl.obolibrary.org/obo/SO_0000313 http://en.wikipedia.org/wiki/Stem_loop http://purl.obolibrary.org/obo/SO_0000313 RNA_hairpin_loop http://purl.obolibrary.org/obo/SO_0000313 stem loop http://purl.obolibrary.org/obo/SO_0000313 stem-loop http://purl.obolibrary.org/obo/SO_0000313 sequence http://purl.obolibrary.org/obo/SO_0000313 SO:0000313 http://purl.obolibrary.org/obo/SO_0000313 stem_loop SO:ke http://purl.obolibrary.org/obo/SO_0000314 A repeat where the same sequence is repeated in the same direction. Example: GCTGA-followed by-GCTGA. wiki http://purl.obolibrary.org/obo/SO_0000314 http://en.wikipedia.org/wiki/Direct_repeat http://purl.obolibrary.org/obo/SO_0000314 direct repeat http://purl.obolibrary.org/obo/SO_0000314 sequence http://purl.obolibrary.org/obo/SO_0000314 SO:0000314 http://purl.obolibrary.org/obo/SO_0000314 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000314 direct_repeat SO:ke http://purl.obolibrary.org/obo/SO_0000315 The first base where RNA polymerase begins to synthesize the RNA transcript. http://purl.obolibrary.org/obo/SO_0000315 transcription start site http://purl.obolibrary.org/obo/SO_0000315 transcription_start_site http://purl.obolibrary.org/obo/SO_0000315 sequence http://purl.obolibrary.org/obo/SO_0000315 SO:0000315 http://purl.obolibrary.org/obo/SO_0000315 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000315 TSS SO:ma http://purl.obolibrary.org/obo/SO_0000316 A contiguous sequence which begins with, and includes, a start codon and ends with, and includes, a stop codon. http://purl.obolibrary.org/obo/SO_0000316 coding sequence http://purl.obolibrary.org/obo/SO_0000316 coding_sequence http://purl.obolibrary.org/obo/SO_0000316 sequence http://purl.obolibrary.org/obo/SO_0000316 SO:0000316 http://purl.obolibrary.org/obo/SO_0000316 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000316 CDS http://seqcore.brcf.med.umich.edu/doc/educ/dnapr/mbglossary/mbgloss.html http://purl.obolibrary.org/obo/SO_0000317 Complementary DNA; A piece of DNA copied from an mRNA and spliced into a vector for propagation in a suitable host. http://purl.obolibrary.org/obo/SO_0000317 cDNA clone http://purl.obolibrary.org/obo/SO_0000317 sequence http://purl.obolibrary.org/obo/SO_0000317 SO:0000317 http://purl.obolibrary.org/obo/SO_0000317 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000317 cDNA_clone SO:ke http://purl.obolibrary.org/obo/SO_0000318 First codon to be translated by a ribosome. wiki http://purl.obolibrary.org/obo/SO_0000318 http://en.wikipedia.org/wiki/Start_codon http://purl.obolibrary.org/obo/SO_0000318 initiation codon http://purl.obolibrary.org/obo/SO_0000318 start codon http://purl.obolibrary.org/obo/SO_0000318 sequence http://purl.obolibrary.org/obo/SO_0000318 SO:0000318 http://purl.obolibrary.org/obo/SO_0000318 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000318 start_codon SO:ke http://purl.obolibrary.org/obo/SO_0000319 In mRNA, a set of three nucleotides that indicates the end of information for protein synthesis. wiki http://purl.obolibrary.org/obo/SO_0000319 http://en.wikipedia.org/wiki/Stop_codon http://purl.obolibrary.org/obo/SO_0000319 stop codon http://purl.obolibrary.org/obo/SO_0000319 sequence http://purl.obolibrary.org/obo/SO_0000319 SO:0000319 http://purl.obolibrary.org/obo/SO_0000319 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000319 stop_codon SO:ke http://purl.obolibrary.org/obo/SO_0000320 Sequences within the intron that modulate splice site selection for some introns. http://purl.obolibrary.org/obo/SO_0000320 intronic splice enhancer http://purl.obolibrary.org/obo/SO_0000320 sequence http://purl.obolibrary.org/obo/SO_0000320 SO:0000320 http://purl.obolibrary.org/obo/SO_0000320 intronic_splice_enhancer SO:ke http://purl.obolibrary.org/obo/SO_0000321 An mRNA with a plus 1 frameshift. http://purl.obolibrary.org/obo/SO_0000321 mRNA with plus 1 frameshift http://purl.obolibrary.org/obo/SO_0000321 sequence http://purl.obolibrary.org/obo/SO_0000321 SO:0000321 http://purl.obolibrary.org/obo/SO_0000321 mRNA_with_plus_1_frameshift http://purl.obolibrary.org/obo/SO_0000322 nuclease hypersensitive site http://purl.obolibrary.org/obo/SO_0000322 sequence http://purl.obolibrary.org/obo/SO_0000322 SO:0000322 http://purl.obolibrary.org/obo/SO_0000322 nuclease_hypersensitive_site SO:ke http://purl.obolibrary.org/obo/SO_0000323 The first base to be translated into protein. http://purl.obolibrary.org/obo/SO_0000323 coding start http://purl.obolibrary.org/obo/SO_0000323 translation initiation site http://purl.obolibrary.org/obo/SO_0000323 sequence http://purl.obolibrary.org/obo/SO_0000323 translation start http://purl.obolibrary.org/obo/SO_0000323 SO:0000323 http://purl.obolibrary.org/obo/SO_0000323 coding_start SO:ke http://purl.obolibrary.org/obo/SO_0000324 A nucleotide sequence that may be used to identify a larger sequence. http://purl.obolibrary.org/obo/SO_0000324 sequence http://purl.obolibrary.org/obo/SO_0000324 SO:0000324 http://purl.obolibrary.org/obo/SO_0000324 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000324 tag SO:ke http://purl.obolibrary.org/obo/SO_0000325 A primary transcript encoding a large ribosomal subunit RNA. http://purl.obolibrary.org/obo/SO_0000325 35S rRNA primary transcript http://purl.obolibrary.org/obo/SO_0000325 rRNA large subunit primary transcript http://purl.obolibrary.org/obo/SO_0000325 sequence http://purl.obolibrary.org/obo/SO_0000325 SO:0000325 http://purl.obolibrary.org/obo/SO_0000325 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000325 rRNA_large_subunit_primary_transcript http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=7570003&dopt=Abstract http://purl.obolibrary.org/obo/SO_0000326 A short diagnostic sequence tag, serial analysis of gene expression (SAGE), that allows the quantitative and simultaneous analysis of a large number of transcripts. http://purl.obolibrary.org/obo/SO_0000326 SAGE tag http://purl.obolibrary.org/obo/SO_0000326 sequence http://purl.obolibrary.org/obo/SO_0000326 SO:0000326 http://purl.obolibrary.org/obo/SO_0000326 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000326 SAGE_tag SO:ke http://purl.obolibrary.org/obo/SO_0000327 The last base to be translated into protein. It does not include the stop codon. http://purl.obolibrary.org/obo/SO_0000327 coding end http://purl.obolibrary.org/obo/SO_0000327 translation termination site http://purl.obolibrary.org/obo/SO_0000327 translation_end http://purl.obolibrary.org/obo/SO_0000327 sequence http://purl.obolibrary.org/obo/SO_0000327 SO:0000327 http://purl.obolibrary.org/obo/SO_0000327 coding_end http://purl.obolibrary.org/obo/SO_0000328 microarray oligo http://purl.obolibrary.org/obo/SO_0000328 microarray oligonucleotide http://purl.obolibrary.org/obo/SO_0000328 sequence http://purl.obolibrary.org/obo/SO_0000328 SO:0000328 http://purl.obolibrary.org/obo/SO_0000328 microarray_oligo SO:xp http://purl.obolibrary.org/obo/SO_0000329 An mRNA with a plus 2 frameshift. http://purl.obolibrary.org/obo/SO_0000329 mRNA with plus 2 frameshift http://purl.obolibrary.org/obo/SO_0000329 sequence http://purl.obolibrary.org/obo/SO_0000329 SO:0000329 http://purl.obolibrary.org/obo/SO_0000329 mRNA_with_plus_2_frameshift SO:ke http://purl.obolibrary.org/obo/SO_0000330 Region of sequence similarity by descent from a common ancestor. wiki http://purl.obolibrary.org/obo/SO_0000330 http://en.wikipedia.org/wiki/Conserved_region http://purl.obolibrary.org/obo/SO_0000330 conserved region http://purl.obolibrary.org/obo/SO_0000330 sequence http://purl.obolibrary.org/obo/SO_0000330 SO:0000330 http://purl.obolibrary.org/obo/SO_0000330 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000330 conserved_region http://www.biospace.com http://purl.obolibrary.org/obo/SO_0000331 Short (typically a few hundred base pairs) DNA sequence that has a single occurrence in a genome and whose location and base sequence are known. http://purl.obolibrary.org/obo/SO_0000331 sequence tag site http://purl.obolibrary.org/obo/SO_0000331 sequence http://purl.obolibrary.org/obo/SO_0000331 SO:0000331 http://purl.obolibrary.org/obo/SO_0000331 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000331 STS SO:ke http://purl.obolibrary.org/obo/SO_0000332 Coding region of sequence similarity by descent from a common ancestor. http://purl.obolibrary.org/obo/SO_0000332 coding conserved region http://purl.obolibrary.org/obo/SO_0000332 sequence http://purl.obolibrary.org/obo/SO_0000332 SO:0000332 http://purl.obolibrary.org/obo/SO_0000332 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000332 coding_conserved_region SO:ke http://purl.obolibrary.org/obo/SO_0000333 The boundary between two exons in a processed transcript. http://purl.obolibrary.org/obo/SO_0000333 exon junction http://purl.obolibrary.org/obo/SO_0000333 sequence http://purl.obolibrary.org/obo/SO_0000333 SO:0000333 http://purl.obolibrary.org/obo/SO_0000333 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000333 exon_junction SO:ke http://purl.obolibrary.org/obo/SO_0000334 Non-coding region of sequence similarity by descent from a common ancestor. http://purl.obolibrary.org/obo/SO_0000334 nc conserved region http://purl.obolibrary.org/obo/SO_0000334 noncoding conserved region http://purl.obolibrary.org/obo/SO_0000334 sequence http://purl.obolibrary.org/obo/SO_0000334 SO:0000334 http://purl.obolibrary.org/obo/SO_0000334 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000334 nc_conserved_region SO:ke http://purl.obolibrary.org/obo/SO_0000335 A mRNA with a minus 2 frameshift. http://purl.obolibrary.org/obo/SO_0000335 mRNA with minus 2 frameshift http://purl.obolibrary.org/obo/SO_0000335 sequence http://purl.obolibrary.org/obo/SO_0000335 SO:0000335 http://purl.obolibrary.org/obo/SO_0000335 mRNA_with_minus_2_frameshift http://www.ucl.ac.uk/~ucbhjow/b241/glossary.html http://purl.obolibrary.org/obo/SO_0000336 A sequence that closely resembles a known functional gene, at another locus within a genome, that is non-functional as a consequence of (usually several) mutations that prevent either its transcription or translation (or both). In general, pseudogenes result from either reverse transcription of a transcript of their "normal" paralog (SO:0000043) (in which case the pseudogene typically lacks introns and includes a poly(A) tail) or from recombination (SO:0000044) (in which case the pseudogene is typically a tandem duplication of its "normal" paralog). wiki http://purl.obolibrary.org/obo/SO_0000336 http://en.wikipedia.org/wiki/Pseudogene http://purl.obolibrary.org/obo/SO_0000336 sequence http://purl.obolibrary.org/obo/SO_0000336 SO:0000336 http://purl.obolibrary.org/obo/SO_0000336 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000336 pseudogene SO:rd http://purl.obolibrary.org/obo/SO_0000337 A double stranded RNA duplex, at least 20bp long, used experimentally to inhibit gene function by RNA interference. http://purl.obolibrary.org/obo/SO_0000337 RNAi reagent http://purl.obolibrary.org/obo/SO_0000337 sequence http://purl.obolibrary.org/obo/SO_0000337 SO:0000337 http://purl.obolibrary.org/obo/SO_0000337 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000337 RNAi_reagent http://www.pnas.org/cgi/content/full/97/18/10083 http://purl.obolibrary.org/obo/SO_0000338 A highly repetitive and short (100-500 base pair) transposable element with terminal inverted repeats (TIR) and target site duplication (TSD). MITEs do not encode proteins. http://purl.obolibrary.org/obo/SO_0000338 miniature inverted repeat transposable element http://purl.obolibrary.org/obo/SO_0000338 sequence http://purl.obolibrary.org/obo/SO_0000338 SO:0000338 http://purl.obolibrary.org/obo/SO_0000338 MITE SO:rd http://purl.obolibrary.org/obo/SO_0000339 A region in a genome which promotes recombination. wiki http://purl.obolibrary.org/obo/SO_0000339 http://en.wikipedia.org/wiki/Recombination_hotspot http://purl.obolibrary.org/obo/SO_0000339 recombination hotspot http://purl.obolibrary.org/obo/SO_0000339 sequence http://purl.obolibrary.org/obo/SO_0000339 SO:0000339 http://purl.obolibrary.org/obo/SO_0000339 recombination_hotspot SO:ma http://purl.obolibrary.org/obo/SO_0000340 Structural unit composed of a nucleic acid molecule which controls its own replication through the interaction of specific proteins at one or more origins of replication. wiki http://purl.obolibrary.org/obo/SO_0000340 http://en.wikipedia.org/wiki/Chromosome http://purl.obolibrary.org/obo/SO_0000340 sequence http://purl.obolibrary.org/obo/SO_0000340 SO:0000340 http://purl.obolibrary.org/obo/SO_0000340 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000340 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000340 chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000341 A cytologically distinguishable feature of a chromosome, often made visible by staining, and usually alternating light and dark. wiki http://purl.obolibrary.org/obo/SO_0000341 http://en.wikipedia.org/wiki/Cytological_band http://purl.obolibrary.org/obo/SO_0000341 chromosome band http://purl.obolibrary.org/obo/SO_0000341 cytoband http://purl.obolibrary.org/obo/SO_0000341 cytological band http://purl.obolibrary.org/obo/SO_0000341 sequence http://purl.obolibrary.org/obo/SO_0000341 SO:0000341 http://purl.obolibrary.org/obo/SO_0000341 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000341 chromosome_band http://purl.obolibrary.org/obo/SO_0000342 site specific recombination target region http://purl.obolibrary.org/obo/SO_0000342 sequence http://purl.obolibrary.org/obo/SO_0000342 SO:0000342 http://purl.obolibrary.org/obo/SO_0000342 site_specific_recombination_target_region SO:ke http://purl.obolibrary.org/obo/SO_0000343 A region of sequence, aligned to another sequence with some statistical significance, using an algorithm such as BLAST or SIM4. http://purl.obolibrary.org/obo/SO_0000343 sequence http://purl.obolibrary.org/obo/SO_0000343 SO:0000343 http://purl.obolibrary.org/obo/SO_0000343 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000343 match SO:ke http://purl.obolibrary.org/obo/SO_0000344 Region of a transcript that regulates splicing. http://purl.obolibrary.org/obo/SO_0000344 splice enhancer http://purl.obolibrary.org/obo/SO_0000344 sequence http://purl.obolibrary.org/obo/SO_0000344 SO:0000344 http://purl.obolibrary.org/obo/SO_0000344 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000344 splice_enhancer SO:ke http://purl.obolibrary.org/obo/SO_0000345 A tag produced from a single sequencing read from a cDNA clone or PCR product; typically a few hundred base pairs long. http://purl.obolibrary.org/obo/SO_0000345 expressed sequence tag http://purl.obolibrary.org/obo/SO_0000345 sequence http://purl.obolibrary.org/obo/SO_0000345 SO:0000345 http://purl.obolibrary.org/obo/SO_0000345 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000345 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000345 EST http://purl.obolibrary.org/obo/SO_0000346 loxP site http://purl.obolibrary.org/obo/SO_0000346 sequence http://purl.obolibrary.org/obo/SO_0000346 Cre-recombination target region http://purl.obolibrary.org/obo/SO_0000346 SO:0000346 http://purl.obolibrary.org/obo/SO_0000346 loxP_site SO:ke http://purl.obolibrary.org/obo/SO_0000347 A match against a nucleotide sequence. http://purl.obolibrary.org/obo/SO_0000347 nucleotide match http://purl.obolibrary.org/obo/SO_0000347 sequence http://purl.obolibrary.org/obo/SO_0000347 SO:0000347 http://purl.obolibrary.org/obo/SO_0000347 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000347 nucleotide_match CHEBI:33696 RSC:cb http://purl.obolibrary.org/obo/SO_0000348 An attribute describing a sequence consisting of nucleobases bound to repeating units. The forms found in nature are deoxyribonucleic acid (DNA), where the repeating units are 2-deoxy-D-ribose rings connected to a phosphate backbone, and ribonucleic acid (RNA), where the repeating units are D-ribose rings connected to a phosphate backbone. wiki http://purl.obolibrary.org/obo/SO_0000348 http://en.wikipedia.org/wiki/Nucleic_acid http://purl.obolibrary.org/obo/SO_0000348 nucleic acid http://purl.obolibrary.org/obo/SO_0000348 sequence http://purl.obolibrary.org/obo/SO_0000348 SO:0000348 http://purl.obolibrary.org/obo/SO_0000348 nucleic_acid SO:ke http://purl.obolibrary.org/obo/SO_0000349 A match against a protein sequence. http://purl.obolibrary.org/obo/SO_0000349 protein match http://purl.obolibrary.org/obo/SO_0000349 sequence http://purl.obolibrary.org/obo/SO_0000349 SO:0000349 http://purl.obolibrary.org/obo/SO_0000349 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000349 protein_match SO:ma http://purl.obolibrary.org/obo/SO_0000350 An inversion site found on the Saccharomyces cerevisiae 2 micron plasmid. http://purl.obolibrary.org/obo/SO_0000350 FLP recombination target region http://purl.obolibrary.org/obo/SO_0000350 FRT site http://purl.obolibrary.org/obo/SO_0000350 sequence http://purl.obolibrary.org/obo/SO_0000350 SO:0000350 http://purl.obolibrary.org/obo/SO_0000350 FRT_site SO:ma http://purl.obolibrary.org/obo/SO_0000351 An attribute to decide a sequence of nucleotides, nucleotide analogs, or amino acids that has been designed by an experimenter and which may, or may not, correspond with any natural sequence. http://purl.obolibrary.org/obo/SO_0000351 synthetic sequence http://purl.obolibrary.org/obo/SO_0000351 sequence http://purl.obolibrary.org/obo/SO_0000351 SO:0000351 http://purl.obolibrary.org/obo/SO_0000351 synthetic_sequence RSC:cb http://purl.obolibrary.org/obo/SO_0000352 An attribute describing a sequence consisting of nucleobases bound to a repeating unit made of a 2-deoxy-D-ribose ring connected to a phosphate backbone. http://purl.obolibrary.org/obo/SO_0000352 sequence http://purl.obolibrary.org/obo/SO_0000352 SO:0000352 http://purl.obolibrary.org/obo/SO_0000352 DNA SO:ma http://purl.obolibrary.org/obo/SO_0000353 A sequence of nucleotides that has been algorithmically derived from an alignment of two or more different sequences. wiki http://purl.obolibrary.org/obo/SO_0000353 http://en.wikipedia.org/wiki/Sequence_assembly http://purl.obolibrary.org/obo/SO_0000353 sequence assembly http://purl.obolibrary.org/obo/SO_0000353 sequence http://purl.obolibrary.org/obo/SO_0000353 SO:0000353 http://purl.obolibrary.org/obo/SO_0000353 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000353 sequence_assembly SO:ke http://purl.obolibrary.org/obo/SO_0000354 A region of intronic nucleotide sequence targeted by a nuclease enzyme. http://purl.obolibrary.org/obo/SO_0000354 group 1 intron homing endonuclease target region http://purl.obolibrary.org/obo/SO_0000354 sequence http://purl.obolibrary.org/obo/SO_0000354 SO:0000354 http://purl.obolibrary.org/obo/SO_0000354 group_1_intron_homing_endonuclease_target_region SO:ma http://purl.obolibrary.org/obo/SO_0000355 A region of the genome which is co-inherited as the result of the lack of historic recombination within it. http://purl.obolibrary.org/obo/SO_0000355 haplotype block http://purl.obolibrary.org/obo/SO_0000355 sequence http://purl.obolibrary.org/obo/SO_0000355 SO:0000355 http://purl.obolibrary.org/obo/SO_0000355 haplotype_block RSC:cb http://purl.obolibrary.org/obo/SO_0000356 An attribute describing a sequence consisting of nucleobases bound to a repeating unit made of a D-ribose ring connected to a phosphate backbone. http://purl.obolibrary.org/obo/SO_0000356 sequence http://purl.obolibrary.org/obo/SO_0000356 SO:0000356 http://purl.obolibrary.org/obo/SO_0000356 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000356 RNA SO:ke http://purl.obolibrary.org/obo/SO_0000357 An attribute describing a region that is bounded either side by a particular kind of region. http://purl.obolibrary.org/obo/SO_0000357 sequence http://purl.obolibrary.org/obo/SO_0000357 SO:0000357 http://purl.obolibrary.org/obo/SO_0000357 flanked SO:ke http://purl.obolibrary.org/obo/SO_0000359 An attribute describing sequence that is flanked by Lox-P sites. wiki http://purl.obolibrary.org/obo/SO_0000359 http://en.wikipedia.org/wiki/Floxed http://purl.obolibrary.org/obo/SO_0000359 sequence http://purl.obolibrary.org/obo/SO_0000359 SO:0000359 http://purl.obolibrary.org/obo/SO_0000359 floxed SO:ke http://www.everythingbio.com/glos/definition.php?word=codon http://purl.obolibrary.org/obo/SO_0000360 A set of (usually) three nucleotide bases in a DNA or RNA sequence, which together code for a unique amino acid or the termination of translation and are contained within the CDS. wiki http://purl.obolibrary.org/obo/SO_0000360 http://en.wikipedia.org/wiki/Codon http://purl.obolibrary.org/obo/SO_0000360 sequence http://purl.obolibrary.org/obo/SO_0000360 SO:0000360 http://purl.obolibrary.org/obo/SO_0000360 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000360 codon SO:ke http://purl.obolibrary.org/obo/SO_0000361 An attribute to describe sequence that is flanked by the FLP recombinase recognition site, FRT. http://purl.obolibrary.org/obo/SO_0000361 FRT flanked http://purl.obolibrary.org/obo/SO_0000361 sequence http://purl.obolibrary.org/obo/SO_0000361 SO:0000361 http://purl.obolibrary.org/obo/SO_0000361 FRT_flanked SO:ma http://purl.obolibrary.org/obo/SO_0000362 A cDNA clone constructed from more than one mRNA. Usually an experimental artifact. http://purl.obolibrary.org/obo/SO_0000362 invalidated by chimeric cDNA http://purl.obolibrary.org/obo/SO_0000362 sequence http://purl.obolibrary.org/obo/SO_0000362 SO:0000362 http://purl.obolibrary.org/obo/SO_0000362 invalidated_by_chimeric_cDNA SO:xp http://purl.obolibrary.org/obo/SO_0000363 A transgene that is floxed. http://purl.obolibrary.org/obo/SO_0000363 floxed gene http://purl.obolibrary.org/obo/SO_0000363 sequence http://purl.obolibrary.org/obo/SO_0000363 SO:0000363 http://purl.obolibrary.org/obo/SO_0000363 floxed_gene SO:ke http://purl.obolibrary.org/obo/SO_0000364 The region of sequence surrounding a transposable element. http://purl.obolibrary.org/obo/SO_0000364 transposable element flanking region http://purl.obolibrary.org/obo/SO_0000364 sequence http://purl.obolibrary.org/obo/SO_0000364 SO:0000364 http://purl.obolibrary.org/obo/SO_0000364 transposable_element_flanking_region SO:as http://purl.obolibrary.org/obo/SO_0000365 A region encoding an integrase which acts at a site adjacent to it (attI_site) to insert DNA which must include but is not limited to an attC_site. wiki http://purl.obolibrary.org/obo/SO_0000365 http://en.wikipedia.org/wiki/Integron http://purl.obolibrary.org/obo/SO_0000365 sequence http://purl.obolibrary.org/obo/SO_0000365 SO:0000365 http://purl.obolibrary.org/obo/SO_0000365 integron SO:ke http://purl.obolibrary.org/obo/SO_0000366 The junction where an insertion occurred. http://purl.obolibrary.org/obo/SO_0000366 insertion site http://purl.obolibrary.org/obo/SO_0000366 sequence http://purl.obolibrary.org/obo/SO_0000366 SO:0000366 http://purl.obolibrary.org/obo/SO_0000366 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000366 insertion_site SO:as http://purl.obolibrary.org/obo/SO_0000367 A region within an integron, adjacent to an integrase, at which site specific recombination involving an attC_site takes place. http://purl.obolibrary.org/obo/SO_0000367 attI site http://purl.obolibrary.org/obo/SO_0000367 sequence http://purl.obolibrary.org/obo/SO_0000367 SO:0000367 http://purl.obolibrary.org/obo/SO_0000367 attI_site SO:ke http://purl.obolibrary.org/obo/SO_0000368 The junction in a genome where a transposable_element has inserted. http://purl.obolibrary.org/obo/SO_0000368 transposable element insertion site http://purl.obolibrary.org/obo/SO_0000368 sequence http://purl.obolibrary.org/obo/SO_0000368 SO:0000368 http://purl.obolibrary.org/obo/SO_0000368 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000368 transposable_element_insertion_site http://purl.obolibrary.org/obo/SO_0000369 sequence http://purl.obolibrary.org/obo/SO_0000369 SO:0000369 http://purl.obolibrary.org/obo/SO_0000369 integrase_coding_region http://purl.obolibrary.org/obo/SO_0000369 true SO:ma http://purl.obolibrary.org/obo/SO_0000370 A non-coding RNA, usually with a specific secondary structure, that acts to regulate gene expression. http://purl.obolibrary.org/obo/SO_0000370 small regulatory ncRNA http://purl.obolibrary.org/obo/SO_0000370 sequence http://purl.obolibrary.org/obo/SO_0000370 SO:0000370 http://purl.obolibrary.org/obo/SO_0000370 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000370 small_regulatory_ncRNA http://www.sci.sdsu.edu/~smaloy/Glossary/C.html http://purl.obolibrary.org/obo/SO_0000371 A transposon that encodes function required for conjugation. http://purl.obolibrary.org/obo/SO_0000371 conjugative transposon http://purl.obolibrary.org/obo/SO_0000371 sequence http://purl.obolibrary.org/obo/SO_0000371 SO:0000371 http://purl.obolibrary.org/obo/SO_0000371 conjugative_transposon RSC:cb http://purl.obolibrary.org/obo/SO_0000372 An RNA sequence that has catalytic activity with or without an associated ribonucleoprotein. http://purl.obolibrary.org/obo/SO_0000372 enzymatic RNA http://purl.obolibrary.org/obo/SO_0000372 sequence http://purl.obolibrary.org/obo/SO_0000372 SO:0000372 http://purl.obolibrary.org/obo/SO_0000372 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000372 This was moved to be a child of transcript (SO:0000673) because some enzymatic RNA regions are part of primary transcripts and some are part of processed transcripts. http://purl.obolibrary.org/obo/SO_0000372 enzymatic_RNA SO:xp http://purl.obolibrary.org/obo/SO_0000373 A recombinationally rearranged gene by inversion. http://purl.obolibrary.org/obo/SO_0000373 recombinationally inverted gene http://purl.obolibrary.org/obo/SO_0000373 sequence http://purl.obolibrary.org/obo/SO_0000373 SO:0000373 http://purl.obolibrary.org/obo/SO_0000373 recombinationally_inverted_gene SO:ma http://purl.obolibrary.org/obo/SO_0000374 An RNA with catalytic activity. wiki http://purl.obolibrary.org/obo/SO_0000374 http://en.wikipedia.org/wiki/Ribozyme http://purl.obolibrary.org/obo/SO_0000374 sequence http://purl.obolibrary.org/obo/SO_0000374 SO:0000374 http://purl.obolibrary.org/obo/SO_0000374 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000374 ribozyme http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00002 http://purl.obolibrary.org/obo/SO_0000375 5_8S ribosomal RNA (5. 8S rRNA) is a component of the large subunit of the eukaryotic ribosome. It is transcribed by RNA polymerase I as part of the 45S precursor that also contains 18S and 28S rRNA. Functionally, it is thought that 5.8S rRNA may be involved in ribosome translocation. It is also known to form covalent linkage to the p53 tumour suppressor protein. 5_8S rRNA is also found in archaea. wiki http://purl.obolibrary.org/obo/SO_0000375 http://en.wikipedia.org/wiki/5.8S_ribosomal_RNA http://purl.obolibrary.org/obo/SO_0000375 5.8S LSU rRNA http://purl.obolibrary.org/obo/SO_0000375 5.8S rRNA http://purl.obolibrary.org/obo/SO_0000375 5.8S ribosomal RNA http://purl.obolibrary.org/obo/SO_0000375 rRNA 5 8S http://purl.obolibrary.org/obo/SO_0000375 sequence http://purl.obolibrary.org/obo/SO_0000375 SO:0000375 http://purl.obolibrary.org/obo/SO_0000375 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000375 rRNA_5_8S http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00013 http://purl.obolibrary.org/obo/SO_0000376 A small (184-nt in E. coli) RNA that forms a hairpin type structure. 6S RNA associates with RNA polymerase in a highly specific manner. 6S RNA represses expression from a sigma70-dependent promoter during stationary phase. wiki http://purl.obolibrary.org/obo/SO_0000376 http://en.wikipedia.org/wiki/6S_RNA http://purl.obolibrary.org/obo/SO_0000376 6S RNA http://purl.obolibrary.org/obo/SO_0000376 RNA 6S http://purl.obolibrary.org/obo/SO_0000376 sequence http://purl.obolibrary.org/obo/SO_0000376 SO:0000376 http://purl.obolibrary.org/obo/SO_0000376 RNA_6S http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00018 http://purl.obolibrary.org/obo/SO_0000377 An enterobacterial RNA that binds the CsrA protein. The CsrB RNAs contain a conserved motif CAGGXXG that is found in up to 18 copies and has been suggested to bind CsrA. The Csr regulatory system has a strong negative regulatory effect on glycogen biosynthesis, glyconeogenesis and glycogen catabolism and a positive regulatory effect on glycolysis. In other bacteria such as Erwinia caratovara the RsmA protein has been shown to regulate the production of virulence determinants, such extracellular enzymes. RsmA binds to RsmB regulatory RNA which is also a member of this family. http://purl.obolibrary.org/obo/SO_0000377 CsrB RsmB RNA http://purl.obolibrary.org/obo/SO_0000377 CsrB-RsmB RNA http://purl.obolibrary.org/obo/SO_0000377 sequence http://purl.obolibrary.org/obo/SO_0000377 SO:0000377 http://purl.obolibrary.org/obo/SO_0000377 CsrB_RsmB_RNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00014 http://purl.obolibrary.org/obo/SO_0000378 DsrA RNA regulates both transcription, by overcoming transcriptional silencing by the nucleoid-associated H-NS protein, and translation, by promoting efficient translation of the stress sigma factor, RpoS. These two activities of DsrA can be separated by mutation: the first of three stem-loops of the 85 nucleotide RNA is necessary for RpoS translation but not for anti-H-NS action, while the second stem-loop is essential for antisilencing and less critical for RpoS translation. The third stem-loop, which behaves as a transcription terminator, can be substituted by the trp transcription terminator without loss of either DsrA function. The sequence of the first stem-loop of DsrA is complementary with the upstream leader portion of RpoS messenger RNA, suggesting that pairing of DsrA with the RpoS message might be important for translational regulation. wiki http://purl.obolibrary.org/obo/SO_0000378 http://en.wikipedia.org/wiki/DsrA_RNA http://purl.obolibrary.org/obo/SO_0000378 DsrA RNA http://purl.obolibrary.org/obo/SO_0000378 sequence http://purl.obolibrary.org/obo/SO_0000378 SO:0000378 http://purl.obolibrary.org/obo/SO_0000378 DsrA_RNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00022 http://purl.obolibrary.org/obo/SO_0000379 A small untranslated RNA involved in expression of the dipeptide and oligopeptide transport systems in Escherichia coli. wiki http://purl.obolibrary.org/obo/SO_0000379 http://en.wikipedia.org/wiki/GcvB_RNA http://purl.obolibrary.org/obo/SO_0000379 GcvB RNA http://purl.obolibrary.org/obo/SO_0000379 sequence http://purl.obolibrary.org/obo/SO_0000379 SO:0000379 http://purl.obolibrary.org/obo/SO_0000379 GcvB_RNA PMID:2436805 http://purl.obolibrary.org/obo/SO_0000380 A small catalytic RNA motif that catalyzes self-cleavage reaction. Its name comes from its secondary structure which resembles a carpenter's hammer. The hammerhead ribozyme is involved in the replication of some viroid and some satellite RNAs. wiki http://purl.obolibrary.org/obo/SO_0000380 http://en.wikipedia.org/wiki/Hammerhead_ribozyme http://purl.obolibrary.org/obo/SO_0000380 hammerhead ribozyme http://purl.obolibrary.org/obo/SO_0000380 sequence http://purl.obolibrary.org/obo/SO_0000380 SO:0000380 http://purl.obolibrary.org/obo/SO_0000380 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000380 hammerhead_ribozyme http://purl.obolibrary.org/obo/SO_0000381 group IIA intron http://purl.obolibrary.org/obo/SO_0000381 sequence http://purl.obolibrary.org/obo/SO_0000381 SO:0000381 http://purl.obolibrary.org/obo/SO_0000381 group_IIA_intron http://purl.obolibrary.org/obo/SO_0000382 group IIB intron http://purl.obolibrary.org/obo/SO_0000382 sequence http://purl.obolibrary.org/obo/SO_0000382 SO:0000382 http://purl.obolibrary.org/obo/SO_0000382 group_IIB_intron http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00033 http://purl.obolibrary.org/obo/SO_0000383 A non-translated 93 nt antisense RNA that binds its target ompF mRNA and regulates ompF expression by inhibiting translation and inducing degradation of the message. wiki http://purl.obolibrary.org/obo/SO_0000383 http://en.wikipedia.org/wiki/MicF_RNA http://purl.obolibrary.org/obo/SO_0000383 MicF RNA http://purl.obolibrary.org/obo/SO_0000383 sequence http://purl.obolibrary.org/obo/SO_0000383 SO:0000383 http://purl.obolibrary.org/obo/SO_0000383 MicF_RNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00035 http://purl.obolibrary.org/obo/SO_0000384 A small untranslated RNA which is induced in response to oxidative stress in Escherichia coli. Acts as a global regulator to activate or repress the expression of as many as 40 genes, including the fhlA-encoded transcriptional activator and the rpoS-encoded sigma(s) subunit of RNA polymerase. OxyS is bound by the Hfq protein, that increases the OxyS RNA interaction with its target messages. wiki http://purl.obolibrary.org/obo/SO_0000384 http://en.wikipedia.org/wiki/OxyS_RNA http://purl.obolibrary.org/obo/SO_0000384 OxyS RNA http://purl.obolibrary.org/obo/SO_0000384 sequence http://purl.obolibrary.org/obo/SO_0000384 SO:0000384 http://purl.obolibrary.org/obo/SO_0000384 OxyS_RNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00030 http://purl.obolibrary.org/obo/SO_0000385 The RNA molecule essential for the catalytic activity of RNase MRP, an enzymatically active ribonucleoprotein with two distinct roles in eukaryotes. In mitochondria it plays a direct role in the initiation of mitochondrial DNA replication. In the nucleus it is involved in precursor rRNA processing, where it cleaves the internal transcribed spacer 1 between 18S and 5.8S rRNAs. http://purl.obolibrary.org/obo/SO_0000385 RNase MRP RNA http://purl.obolibrary.org/obo/SO_0000385 sequence http://purl.obolibrary.org/obo/SO_0000385 SO:0000385 http://purl.obolibrary.org/obo/SO_0000385 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000385 RNase_MRP_RNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00010 http://purl.obolibrary.org/obo/SO_0000386 The RNA component of Ribonuclease P (RNase P), a ubiquitous endoribonuclease, found in archaea, bacteria and eukarya as well as chloroplasts and mitochondria. Its best characterized activity is the generation of mature 5 prime ends of tRNAs by cleaving the 5 prime leader elements of precursor-tRNAs. Cellular RNase Ps are ribonucleoproteins. RNA from bacterial RNase Ps retains its catalytic activity in the absence of the protein subunit, i.e. it is a ribozyme. Isolated eukaryotic and archaeal RNase P RNA has not been shown to retain its catalytic function, but is still essential for the catalytic activity of the holoenzyme. Although the archaeal and eukaryotic holoenzymes have a much greater protein content than the bacterial ones, the RNA cores from all the three lineages are homologous. Helices corresponding to P1, P2, P3, P4, and P10/11 are common to all cellular RNase P RNAs. Yet, there is considerable sequence variation, particularly among the eukaryotic RNAs. http://purl.obolibrary.org/obo/SO_0000386 RNase P RNA http://purl.obolibrary.org/obo/SO_0000386 sequence http://purl.obolibrary.org/obo/SO_0000386 SO:0000386 http://purl.obolibrary.org/obo/SO_0000386 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000386 RNase_P_RNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00034 http://purl.obolibrary.org/obo/SO_0000387 Translational regulation of the stationary phase sigma factor RpoS is mediated by the formation of a double-stranded RNA stem-loop structure in the upstream region of the rpoS messenger RNA, occluding the translation initiation site. Clones carrying rprA (RpoS regulator RNA) increased the translation of RpoS. The rprA gene encodes a 106 nucleotide regulatory RNA. As with DsrA Rfam:RF00014, RprA is predicted to form three stem-loops. Thus, at least two small RNAs, DsrA and RprA, participate in the positive regulation of RpoS translation. Unlike DsrA, RprA does not have an extensive region of complementarity to the RpoS leader, leaving its mechanism of action unclear. RprA is non-essential. wiki http://purl.obolibrary.org/obo/SO_0000387 http://en.wikipedia.org/wiki/RprA_RNA http://purl.obolibrary.org/obo/SO_0000387 RprA RNA http://purl.obolibrary.org/obo/SO_0000387 sequence http://purl.obolibrary.org/obo/SO_0000387 SO:0000387 http://purl.obolibrary.org/obo/SO_0000387 RprA_RNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00036 http://purl.obolibrary.org/obo/SO_0000388 The Rev response element (RRE) is encoded within the HIV-env gene. Rev is an essential regulatory protein of HIV that binds an internal loop of the RRE leading, encouraging further Rev-RRE binding. This RNP complex is critical for mRNA export and hence for expression of the HIV structural proteins. http://purl.obolibrary.org/obo/SO_0000388 RRE RNA http://purl.obolibrary.org/obo/SO_0000388 sequence http://purl.obolibrary.org/obo/SO_0000388 SO:0000388 http://purl.obolibrary.org/obo/SO_0000388 RRE_RNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00021 http://purl.obolibrary.org/obo/SO_0000389 A 109-nucleotide RNA of E. coli that seems to have a regulatory role on the galactose operon. Changes in Spot 42 levels are implicated in affecting DNA polymerase I levels. wiki http://purl.obolibrary.org/obo/SO_0000389 http://en.wikipedia.org/wiki/Spot_42_RNA http://purl.obolibrary.org/obo/SO_0000389 spot-42 RNA http://purl.obolibrary.org/obo/SO_0000389 sequence http://purl.obolibrary.org/obo/SO_0000389 SO:0000389 http://purl.obolibrary.org/obo/SO_0000389 spot_42_RNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00025 http://purl.obolibrary.org/obo/SO_0000390 The RNA component of telomerase, a reverse transcriptase that synthesizes telomeric DNA. wiki http://purl.obolibrary.org/obo/SO_0000390 http://en.wikipedia.org/wiki/Telomerase_RNA http://purl.obolibrary.org/obo/SO_0000390 telomerase RNA http://purl.obolibrary.org/obo/SO_0000390 sequence http://purl.obolibrary.org/obo/SO_0000390 SO:0000390 http://purl.obolibrary.org/obo/SO_0000390 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000390 telomerase_RNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00003 http://purl.obolibrary.org/obo/SO_0000391 U1 is a small nuclear RNA (snRNA) component of the spliceosome (involved in pre-mRNA splicing). Its 5' end forms complementary base pairs with the 5' splice junction, thus defining the 5' donor site of an intron. There are significant differences in sequence and secondary structure between metazoan and yeast U1 snRNAs, the latter being much longer (568 nucleotides as compared to 164 nucleotides in human). Nevertheless, secondary structure predictions suggest that all U1 snRNAs share a 'common core' consisting of helices I, II, the proximal region of III, and IV. wiki http://purl.obolibrary.org/obo/SO_0000391 http://en.wikipedia.org/wiki/U1_snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000391 U1 small nuclear RNA http://purl.obolibrary.org/obo/SO_0000391 U1 snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000391 small nuclear RNA U1 RSC:cb http://purl.obolibrary.org/obo/SO_0000391 snRNA U1 http://purl.obolibrary.org/obo/SO_0000391 sequence http://purl.obolibrary.org/obo/SO_0000391 SO:0000391 http://purl.obolibrary.org/obo/SO_0000391 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000391 U1_snRNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00004 http://purl.obolibrary.org/obo/SO_0000392 U2 is a small nuclear RNA (snRNA) component of the spliceosome (involved in pre-mRNA splicing). Complementary binding between U2 snRNA (in an area lying towards the 5' end but 3' to hairpin I) and the branchpoint sequence (BPS) of the intron results in the bulging out of an unpaired adenine, on the BPS, which initiates a nucleophilic attack at the intronic 5' splice site, thus starting the first of two transesterification reactions that mediate splicing. wiki http://purl.obolibrary.org/obo/SO_0000392 http://en.wikipedia.org/wiki/U2_snRNA RSC:CB http://purl.obolibrary.org/obo/SO_0000392 U2 small nuclear RNA http://purl.obolibrary.org/obo/SO_0000392 U2 snRNA RSC:CB http://purl.obolibrary.org/obo/SO_0000392 small nuclear RNA U2 RSC:CB http://purl.obolibrary.org/obo/SO_0000392 snRNA U2 http://purl.obolibrary.org/obo/SO_0000392 sequence http://purl.obolibrary.org/obo/SO_0000392 SO:0000392 http://purl.obolibrary.org/obo/SO_0000392 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000392 U2_snRNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00015 http://purl.obolibrary.org/obo/SO_0000393 U4 small nuclear RNA (U4 snRNA) is a component of the major U2-dependent spliceosome. It forms a duplex with U6, and with each splicing round, it is displaced from U6 (and the spliceosome) in an ATP-dependent manner, allowing U6 to refold and create the active site for splicing catalysis. A recycling process involving protein Prp24 re-anneals U4 and U6. wiki http://purl.obolibrary.org/obo/SO_0000393 http://en.wikipedia.org/wiki/U4_snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000393 U4 small nuclear RNA http://purl.obolibrary.org/obo/SO_0000393 U4 snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000393 small nuclear RNA U4 RSC:cb http://purl.obolibrary.org/obo/SO_0000393 snRNA U4 http://purl.obolibrary.org/obo/SO_0000393 sequence http://purl.obolibrary.org/obo/SO_0000393 SO:0000393 http://purl.obolibrary.org/obo/SO_0000393 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000393 U4_snRNA PMID:=12409455 http://purl.obolibrary.org/obo/SO_0000394 An snRNA required for the splicing of the minor U12-dependent class of eukaryotic nuclear introns. It forms a base paired complex with U6atac_snRNA (SO:0000397). RSC:cb http://purl.obolibrary.org/obo/SO_0000394 U4atac small nuclear RNA http://purl.obolibrary.org/obo/SO_0000394 U4atac snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000394 small nuclear RNA U4atac RSC:cb http://purl.obolibrary.org/obo/SO_0000394 snRNA U4atac http://purl.obolibrary.org/obo/SO_0000394 sequence http://purl.obolibrary.org/obo/SO_0000394 SO:0000394 http://purl.obolibrary.org/obo/SO_0000394 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000394 U4atac_snRNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00020 http://purl.obolibrary.org/obo/SO_0000395 U5 RNA is a component of both types of known spliceosome. The precise function of this molecule is unknown, though it is known that the 5' loop is required for splice site selection and p220 binding, and that both the 3' stem-loop and the Sm site are important for Sm protein binding and cap methylation. wiki http://purl.obolibrary.org/obo/SO_0000395 http://en.wikipedia.org/wiki/U5_snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000395 U5 small nuclear RNA http://purl.obolibrary.org/obo/SO_0000395 U5 snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000395 small nuclear RNA U5 RSC:cb http://purl.obolibrary.org/obo/SO_0000395 snRNA U5 http://purl.obolibrary.org/obo/SO_0000395 sequence http://purl.obolibrary.org/obo/SO_0000395 SO:0000395 http://purl.obolibrary.org/obo/SO_0000395 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000395 U5_snRNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00015 http://purl.obolibrary.org/obo/SO_0000396 U6 snRNA is a component of the spliceosome which is involved in splicing pre-mRNA. The putative secondary structure consensus base pairing is confined to a short 5' stem loop, but U6 snRNA is thought to form extensive base-pair interactions with U4 snRNA. wiki http://purl.obolibrary.org/obo/SO_0000396 http://en.wikipedia.org/wiki/U6_snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000396 U6 small nuclear RNA http://purl.obolibrary.org/obo/SO_0000396 U6 snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000396 small nuclear RNA U6 RSC:cb http://purl.obolibrary.org/obo/SO_0000396 snRNA U6 http://purl.obolibrary.org/obo/SO_0000396 sequence http://purl.obolibrary.org/obo/SO_0000396 SO:0000396 http://purl.obolibrary.org/obo/SO_0000396 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000396 U6_snRNA http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=retrieve&db=pubmed&list_uids=12409455&dopt=Abstract http://purl.obolibrary.org/obo/SO_0000397 U6atac_snRNA is an snRNA required for the splicing of the minor U12-dependent class of eukaryotic nuclear introns. It forms a base paired complex with U4atac_snRNA (SO:0000394). RSC:cb http://purl.obolibrary.org/obo/SO_0000397 U6atac small nuclear RNA RSC:cb http://purl.obolibrary.org/obo/SO_0000397 U6atac snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000397 snRNA U6atac http://purl.obolibrary.org/obo/SO_0000397 sequence http://purl.obolibrary.org/obo/SO_0000397 SO:0000397 http://purl.obolibrary.org/obo/SO_0000397 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000397 U6atac_snRNA PMID:9622129 http://purl.obolibrary.org/obo/SO_0000398 U11 snRNA plays a role in splicing of the minor U12-dependent class of eukaryotic nuclear introns, similar to U1 snRNA in the major class spliceosome it base pairs to the conserved 5' splice site sequence. wiki http://purl.obolibrary.org/obo/SO_0000398 http://en.wikipedia.org/wiki/U11_snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000398 U11 small nuclear RNA http://purl.obolibrary.org/obo/SO_0000398 U11 snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000398 small nuclear RNA U11 RSC:cb http://purl.obolibrary.org/obo/SO_0000398 snRNA U11 http://purl.obolibrary.org/obo/SO_0000398 sequence http://purl.obolibrary.org/obo/SO_0000398 SO:0000398 http://purl.obolibrary.org/obo/SO_0000398 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000398 U11_snRNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00007 http://purl.obolibrary.org/obo/SO_0000399 The U12 small nuclear (snRNA), together with U4atac/U6atac, U5, and U11 snRNAs and associated proteins, forms a spliceosome that cleaves a divergent class of low-abundance pre-mRNA introns. wiki http://purl.obolibrary.org/obo/SO_0000399 http://en.wikipedia.org/wiki/U12_snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000399 U12 small nuclear RNA http://purl.obolibrary.org/obo/SO_0000399 U12 snRNA RSC:cb http://purl.obolibrary.org/obo/SO_0000399 small nuclear RNA U12 RSC:cb http://purl.obolibrary.org/obo/SO_0000399 snRNA U12 http://purl.obolibrary.org/obo/SO_0000399 sequence http://purl.obolibrary.org/obo/SO_0000399 SO:0000399 http://purl.obolibrary.org/obo/SO_0000399 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000399 U12_snRNA SO:ke http://purl.obolibrary.org/obo/SO_0000400 An attribute describes a quality of sequence. http://purl.obolibrary.org/obo/SO_0000400 sequence attribute http://purl.obolibrary.org/obo/SO_0000400 sequence http://purl.obolibrary.org/obo/SO_0000400 SO:0000400 http://purl.obolibrary.org/obo/SO_0000400 sequence_attribute http://purl.obolibrary.org/obo/SO_0000401 gene attribute http://purl.obolibrary.org/obo/SO_0000401 sequence http://purl.obolibrary.org/obo/SO_0000401 SO:0000401 http://purl.obolibrary.org/obo/SO_0000401 gene_attribute http://purl.obolibrary.org/obo/SO_0000402 sequence http://purl.obolibrary.org/obo/SO_0000402 SO:0000402 http://purl.obolibrary.org/obo/SO_0000402 enhancer_attribute http://purl.obolibrary.org/obo/SO_0000402 true PMID:2551119 http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00016 http://purl.obolibrary.org/obo/SO_0000403 U14 small nucleolar RNA (U14 snoRNA) is required for early cleavages of eukaryotic precursor rRNAs. In yeasts, this molecule possess a stem-loop region (known as the Y-domain) which is essential for function. A similar structure, but with a different consensus sequence, is found in plants, but is absent in vertebrates. http://purl.obolibrary.org/obo/SO_0000403 SO:0005839 http://purl.obolibrary.org/obo/SO_0000403 U14 small nucleolar RNA http://purl.obolibrary.org/obo/SO_0000403 U14 snoRNA http://purl.obolibrary.org/obo/SO_0000403 small nucleolar RNA U14 http://purl.obolibrary.org/obo/SO_0000403 snoRNA U14 http://purl.obolibrary.org/obo/SO_0000403 sequence http://purl.obolibrary.org/obo/SO_0000403 SO:0000403 http://purl.obolibrary.org/obo/SO_0000403 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000403 An evolutionarily conserved eukaryotic low molecular weight RNA capable of intermolecular hybridization with both homologous and heterologous 18S rRNA. http://purl.obolibrary.org/obo/SO_0000403 U14_snoRNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00006 http://purl.obolibrary.org/obo/SO_0000404 A family of RNAs are found as part of the enigmatic vault ribonucleoprotein complex. The complex consists of a major vault protein (MVP), two minor vault proteins (VPARP and TEP1), and several small untranslated RNA molecules. It has been suggested that the vault complex is involved in drug resistance. wiki http://purl.obolibrary.org/obo/SO_0000404 http://en.wikipedia.org/wiki/Vault_RNA http://purl.obolibrary.org/obo/SO_0000404 vault RNA http://purl.obolibrary.org/obo/SO_0000404 sequence http://purl.obolibrary.org/obo/SO_0000404 SO:0000404 http://purl.obolibrary.org/obo/SO_0000404 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000404 vault_RNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00019 http://purl.obolibrary.org/obo/SO_0000405 Y RNAs are components of the Ro ribonucleoprotein particle (Ro RNP), in association with Ro60 and La proteins. The Y RNAs and Ro60 and La proteins are well conserved, but the function of the Ro RNP is not known. In humans the RNA component can be one of four small RNAs: hY1, hY3, hY4 and hY5. These small RNAs are predicted to fold into a conserved secondary structure containing three stem structures. The largest of the four, hY1, contains an additional hairpin. wiki http://purl.obolibrary.org/obo/SO_0000405 http://en.wikipedia.org/wiki/Y_RNA http://purl.obolibrary.org/obo/SO_0000405 Y RNA http://purl.obolibrary.org/obo/SO_0000405 sequence http://purl.obolibrary.org/obo/SO_0000405 SO:0000405 http://purl.obolibrary.org/obo/SO_0000405 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000405 Y_RNA PMID:1899376 PMID:7823908 http://purl.obolibrary.org/obo/SO_0000406 An intron within an intron. Twintrons are group II or III introns, into which another group II or III intron has been transposed. wiki http://purl.obolibrary.org/obo/SO_0000406 http://en.wikipedia.org/wiki/Twintron http://purl.obolibrary.org/obo/SO_0000406 sequence http://purl.obolibrary.org/obo/SO_0000406 SO:0000406 http://purl.obolibrary.org/obo/SO_0000406 twintron SO:ke http://purl.obolibrary.org/obo/SO_0000407 A large polynucleotide in eukaryotes, which functions as the small subunit of the ribosome. wiki http://purl.obolibrary.org/obo/SO_0000407 http://en.wikipedia.org/wiki/18S_ribosomal_RNA http://purl.obolibrary.org/obo/SO_0000407 18S rRNA http://purl.obolibrary.org/obo/SO_0000407 18S ribosomal RNA http://purl.obolibrary.org/obo/SO_0000407 rRNA 18S http://purl.obolibrary.org/obo/SO_0000407 sequence http://purl.obolibrary.org/obo/SO_0000407 SO:0000407 http://purl.obolibrary.org/obo/SO_0000407 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000407 rRNA_18S SO:ke http://purl.obolibrary.org/obo/SO_0000408 The interbase position where something (eg an aberration) occurred. http://purl.obolibrary.org/obo/SO_0000408 sequence http://purl.obolibrary.org/obo/SO_0000408 SO:0000408 http://purl.obolibrary.org/obo/SO_0000408 site http://purl.obolibrary.org/obo/SO_0000408 true EBIBS:GAR SO:ke http://purl.obolibrary.org/obo/SO_0000409 A biological_region of sequence that, in the molecule, interacts selectively and non-covalently with other molecules. A region on the surface of a molecule that may interact with another molecule. When applied to polypeptides: Amino acids involved in binding or interactions. It can also apply to an amino acid bond which is represented by the positions of the two flanking amino acids. http://purl.obolibrary.org/obo/SO_0000409 BS:00033 wiki http://purl.obolibrary.org/obo/SO_0000409 http://en.wikipedia.org/wiki/Binding_site http://purl.obolibrary.org/obo/SO_0000409 binding_or_interaction_site http://purl.obolibrary.org/obo/SO_0000409 sequence http://purl.obolibrary.org/obo/SO_0000409 site http://purl.obolibrary.org/obo/SO_0000409 SO:0000409 http://purl.obolibrary.org/obo/SO_0000409 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000409 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0000409 See GO:0005488 : binding. http://purl.obolibrary.org/obo/SO_0000409 binding_site SO:ke http://purl.obolibrary.org/obo/SO_0000410 A binding site that, in the molecule, interacts selectively and non-covalently with polypeptide molecules. http://purl.obolibrary.org/obo/SO_0000410 protein binding site http://purl.obolibrary.org/obo/SO_0000410 sequence http://purl.obolibrary.org/obo/SO_0000410 SO:0000410 http://purl.obolibrary.org/obo/SO_0000410 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000410 See GO:0042277 : peptide binding. http://purl.obolibrary.org/obo/SO_0000410 protein_binding_site SO:xp http://purl.obolibrary.org/obo/SO_0000411 A region that rescues. http://purl.obolibrary.org/obo/SO_0000411 rescue fragment http://purl.obolibrary.org/obo/SO_0000411 rescue region http://purl.obolibrary.org/obo/SO_0000411 sequence http://purl.obolibrary.org/obo/SO_0000411 rescue segment http://purl.obolibrary.org/obo/SO_0000411 SO:0000411 http://purl.obolibrary.org/obo/SO_0000411 rescue_region SO:ke http://purl.obolibrary.org/obo/SO_0000412 A region of polynucleotide sequence produced by digestion with a restriction endonuclease. wiki http://purl.obolibrary.org/obo/SO_0000412 http://en.wikipedia.org/wiki/Restriction_fragment http://purl.obolibrary.org/obo/SO_0000412 restriction fragment http://purl.obolibrary.org/obo/SO_0000412 sequence http://purl.obolibrary.org/obo/SO_0000412 SO:0000412 http://purl.obolibrary.org/obo/SO_0000412 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000412 restriction_fragment SO:ke http://purl.obolibrary.org/obo/SO_0000413 A region where the sequence differs from that of a specified sequence. http://purl.obolibrary.org/obo/SO_0000413 sequence difference http://purl.obolibrary.org/obo/SO_0000413 sequence http://purl.obolibrary.org/obo/SO_0000413 SO:0000413 http://purl.obolibrary.org/obo/SO_0000413 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000413 sequence_difference SO:ke http://purl.obolibrary.org/obo/SO_0000414 An attribute to describe a feature that is invalidated due to genomic contamination. http://purl.obolibrary.org/obo/SO_0000414 invalidated by genomic contamination http://purl.obolibrary.org/obo/SO_0000414 sequence http://purl.obolibrary.org/obo/SO_0000414 SO:0000414 http://purl.obolibrary.org/obo/SO_0000414 invalidated_by_genomic_contamination SO:ke http://purl.obolibrary.org/obo/SO_0000415 An attribute to describe a feature that is invalidated due to polyA priming. http://purl.obolibrary.org/obo/SO_0000415 invalidated by genomic polyA primed cDNA http://purl.obolibrary.org/obo/SO_0000415 sequence http://purl.obolibrary.org/obo/SO_0000415 SO:0000415 http://purl.obolibrary.org/obo/SO_0000415 invalidated_by_genomic_polyA_primed_cDNA SO:ke http://purl.obolibrary.org/obo/SO_0000416 An attribute to describe a feature that is invalidated due to partial processing. http://purl.obolibrary.org/obo/SO_0000416 invalidated by partial processing http://purl.obolibrary.org/obo/SO_0000416 sequence http://purl.obolibrary.org/obo/SO_0000416 SO:0000416 http://purl.obolibrary.org/obo/SO_0000416 invalidated_by_partial_processing EBIBS:GAR http://purl.obolibrary.org/obo/SO_0000417 A structurally or functionally defined protein region. In proteins with multiple domains, the combination of the domains determines the function of the protein. A region which has been shown to recur throughout evolution. http://purl.obolibrary.org/obo/SO_0000417 BS:00012 http://purl.obolibrary.org/obo/SO_0000417 BS:00134 http://purl.obolibrary.org/obo/SO_0000417 SO:0001069 uniprot:feature_type http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0000417 domain http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0000417 structural domain http://purl.obolibrary.org/obo/SO_0000417 polypeptide domain http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0000417 polypeptide_structural_domain http://purl.obolibrary.org/obo/SO_0000417 sequence http://purl.obolibrary.org/obo/SO_0000417 SO:0000417 http://purl.obolibrary.org/obo/SO_0000417 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0000417 Range. Old definition from before biosapiens: A region of a single polypeptide chain that folds into an independent unit and exhibits biological activity. A polypeptide chain may have multiple domains. http://purl.obolibrary.org/obo/SO_0000417 polypeptide_domain http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000418 The signal_peptide is a short region of the peptide located at the N-terminus that directs the protein to be secreted or part of membrane components. http://purl.obolibrary.org/obo/SO_0000418 BS:00159 wiki http://purl.obolibrary.org/obo/SO_0000418 http://en.wikipedia.org/wiki/Signal_peptide http://purl.obolibrary.org/obo/SO_0000418 signal peptide http://purl.obolibrary.org/obo/SO_0000418 signal peptide coding sequence http://purl.obolibrary.org/obo/SO_0000418 sequence uniprot:feature_type http://purl.obolibrary.org/obo/SO_0000418 signal http://purl.obolibrary.org/obo/SO_0000418 SO:0000418 http://purl.obolibrary.org/obo/SO_0000418 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000418 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0000418 Old def before biosapiens:The sequence for an N-terminal domain of a secreted protein; this domain is involved in attaching nascent polypeptide to the membrane leader sequence. http://purl.obolibrary.org/obo/SO_0000418 signal_peptide EBIBS:GAR SO:cb http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000419 The polypeptide sequence that remains when the cleaved peptide regions have been cleaved from the immature peptide. http://purl.obolibrary.org/obo/SO_0000419 BS:00149 http://purl.obolibrary.org/obo/SO_0000419 mature protein region http://purl.obolibrary.org/obo/SO_0000419 sequence uniprot:feature_type http://purl.obolibrary.org/obo/SO_0000419 chain http://purl.obolibrary.org/obo/SO_0000419 mature peptide http://purl.obolibrary.org/obo/SO_0000419 SO:0000419 http://purl.obolibrary.org/obo/SO_0000419 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000419 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0000419 This term mature peptide, merged with the biosapiens term mature protein region and took that to be the new name. Old def: The coding sequence for the mature or final peptide or protein product following post-translational modification. http://purl.obolibrary.org/obo/SO_0000419 mature_protein_region http://purl.obolibrary.org/obo/SO_0000420 5' TIR http://purl.obolibrary.org/obo/SO_0000420 five prime terminal inverted repeat http://purl.obolibrary.org/obo/SO_0000420 sequence http://purl.obolibrary.org/obo/SO_0000420 SO:0000420 http://purl.obolibrary.org/obo/SO_0000420 five_prime_terminal_inverted_repeat http://purl.obolibrary.org/obo/SO_0000421 3' TIR http://purl.obolibrary.org/obo/SO_0000421 three prime terminal inverted repeat http://purl.obolibrary.org/obo/SO_0000421 sequence http://purl.obolibrary.org/obo/SO_0000421 SO:0000421 http://purl.obolibrary.org/obo/SO_0000421 three_prime_terminal_inverted_repeat http://purl.obolibrary.org/obo/SO_0000422 U5 LTR region http://purl.obolibrary.org/obo/SO_0000422 U5 long terminal repeat region http://purl.obolibrary.org/obo/SO_0000422 sequence http://purl.obolibrary.org/obo/SO_0000422 SO:0000422 http://purl.obolibrary.org/obo/SO_0000422 U5_LTR_region http://purl.obolibrary.org/obo/SO_0000423 R LTR region http://purl.obolibrary.org/obo/SO_0000423 R long terminal repeat region http://purl.obolibrary.org/obo/SO_0000423 sequence http://purl.obolibrary.org/obo/SO_0000423 SO:0000423 http://purl.obolibrary.org/obo/SO_0000423 R_LTR_region http://purl.obolibrary.org/obo/SO_0000424 U3 LTR region http://purl.obolibrary.org/obo/SO_0000424 U3 long terminal repeat region http://purl.obolibrary.org/obo/SO_0000424 sequence http://purl.obolibrary.org/obo/SO_0000424 SO:0000424 http://purl.obolibrary.org/obo/SO_0000424 U3_LTR_region http://purl.obolibrary.org/obo/SO_0000425 5' LTR http://purl.obolibrary.org/obo/SO_0000425 5' long terminal repeat http://purl.obolibrary.org/obo/SO_0000425 five prime LTR http://purl.obolibrary.org/obo/SO_0000425 sequence http://purl.obolibrary.org/obo/SO_0000425 SO:0000425 http://purl.obolibrary.org/obo/SO_0000425 five_prime_LTR http://purl.obolibrary.org/obo/SO_0000426 3' LTR http://purl.obolibrary.org/obo/SO_0000426 3' long terminal repeat http://purl.obolibrary.org/obo/SO_0000426 three prime LTR http://purl.obolibrary.org/obo/SO_0000426 sequence http://purl.obolibrary.org/obo/SO_0000426 SO:0000426 http://purl.obolibrary.org/obo/SO_0000426 three_prime_LTR http://purl.obolibrary.org/obo/SO_0000427 R 5' long term repeat region http://purl.obolibrary.org/obo/SO_0000427 R five prime LTR region http://purl.obolibrary.org/obo/SO_0000427 sequence http://purl.obolibrary.org/obo/SO_0000427 SO:0000427 http://purl.obolibrary.org/obo/SO_0000427 R_five_prime_LTR_region http://purl.obolibrary.org/obo/SO_0000428 U5 5' long terminal repeat region http://purl.obolibrary.org/obo/SO_0000428 U5 five prime LTR region http://purl.obolibrary.org/obo/SO_0000428 sequence http://purl.obolibrary.org/obo/SO_0000428 SO:0000428 http://purl.obolibrary.org/obo/SO_0000428 U5_five_prime_LTR_region http://purl.obolibrary.org/obo/SO_0000429 U3 5' long term repeat region http://purl.obolibrary.org/obo/SO_0000429 U3 five prime LTR region http://purl.obolibrary.org/obo/SO_0000429 sequence http://purl.obolibrary.org/obo/SO_0000429 SO:0000429 http://purl.obolibrary.org/obo/SO_0000429 U3_five_prime_LTR_region http://purl.obolibrary.org/obo/SO_0000430 R 3' long terminal repeat region http://purl.obolibrary.org/obo/SO_0000430 R three prime LTR region http://purl.obolibrary.org/obo/SO_0000430 sequence http://purl.obolibrary.org/obo/SO_0000430 SO:0000430 http://purl.obolibrary.org/obo/SO_0000430 R_three_prime_LTR_region http://purl.obolibrary.org/obo/SO_0000431 U3 3' long terminal repeat region http://purl.obolibrary.org/obo/SO_0000431 U3 three prime LTR region http://purl.obolibrary.org/obo/SO_0000431 sequence http://purl.obolibrary.org/obo/SO_0000431 SO:0000431 http://purl.obolibrary.org/obo/SO_0000431 U3_three_prime_LTR_region http://purl.obolibrary.org/obo/SO_0000432 U5 3' long terminal repeat region http://purl.obolibrary.org/obo/SO_0000432 U5 three prime LTR region http://purl.obolibrary.org/obo/SO_0000432 sequence http://purl.obolibrary.org/obo/SO_0000432 SO:0000432 http://purl.obolibrary.org/obo/SO_0000432 U5_three_prime_LTR_region SO:ke http://purl.obolibrary.org/obo/SO_0000433 A polymeric tract, such as poly(dA), within a non_LTR_retrotransposon. http://purl.obolibrary.org/obo/SO_0000433 non LTR retrotransposon polymeric tract http://purl.obolibrary.org/obo/SO_0000433 sequence http://purl.obolibrary.org/obo/SO_0000433 SO:0000433 http://purl.obolibrary.org/obo/SO_0000433 non_LTR_retrotransposon_polymeric_tract http://www.koko.gov.my/CocoaBioTech/Glossaryt.html http://purl.obolibrary.org/obo/SO_0000434 A sequence of the target DNA that is duplicated when a transposable element or phage inserts; usually found at each end the insertion. http://purl.obolibrary.org/obo/SO_0000434 target site duplication http://purl.obolibrary.org/obo/SO_0000434 sequence http://purl.obolibrary.org/obo/SO_0000434 SO:0000434 http://purl.obolibrary.org/obo/SO_0000434 target_site_duplication SO:ke http://purl.obolibrary.org/obo/SO_0000435 A polypurine tract within an LTR_retrotransposon. http://purl.obolibrary.org/obo/SO_0000435 RR tract http://purl.obolibrary.org/obo/SO_0000435 sequence http://purl.obolibrary.org/obo/SO_0000435 LTR retrotransposon poly purine tract http://purl.obolibrary.org/obo/SO_0000435 SO:0000435 http://purl.obolibrary.org/obo/SO_0000435 RR_tract SO:ma http://purl.obolibrary.org/obo/SO_0000436 A sequence that can autonomously replicate, as a plasmid, when transformed into a bacterial host. http://purl.obolibrary.org/obo/SO_0000436 autonomously replicating sequence http://purl.obolibrary.org/obo/SO_0000436 sequence http://purl.obolibrary.org/obo/SO_0000436 SO:0000436 http://purl.obolibrary.org/obo/SO_0000436 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000436 ARS http://purl.obolibrary.org/obo/SO_0000437 sequence http://purl.obolibrary.org/obo/SO_0000437 SO:0000437 http://purl.obolibrary.org/obo/SO_0000437 assortment_derived_duplication http://purl.obolibrary.org/obo/SO_0000437 true http://purl.obolibrary.org/obo/SO_0000438 sequence http://purl.obolibrary.org/obo/SO_0000438 SO:0000438 http://purl.obolibrary.org/obo/SO_0000438 gene_not_polyadenylated http://purl.obolibrary.org/obo/SO_0000438 true http://purl.obolibrary.org/obo/SO_0000439 inverted ring chromosome http://purl.obolibrary.org/obo/SO_0000439 sequence http://purl.obolibrary.org/obo/SO_0000439 SO:0000439 http://purl.obolibrary.org/obo/SO_0000439 inverted_ring_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000440 A replicon that has been modified to act as a vector for foreign sequence. wiki http://purl.obolibrary.org/obo/SO_0000440 http://en.wikipedia.org/wiki/Vector_(molecular_biology) http://purl.obolibrary.org/obo/SO_0000440 vector http://purl.obolibrary.org/obo/SO_0000440 vector replicon http://purl.obolibrary.org/obo/SO_0000440 sequence http://purl.obolibrary.org/obo/SO_0000440 SO:0000440 http://purl.obolibrary.org/obo/SO_0000440 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000440 vector_replicon SO:ke http://purl.obolibrary.org/obo/SO_0000441 A single stranded oligonucleotide. http://purl.obolibrary.org/obo/SO_0000441 single strand oligo http://purl.obolibrary.org/obo/SO_0000441 single strand oligonucleotide http://purl.obolibrary.org/obo/SO_0000441 single stranded oligonucleotide http://purl.obolibrary.org/obo/SO_0000441 ss oligo http://purl.obolibrary.org/obo/SO_0000441 ss oligonucleotide http://purl.obolibrary.org/obo/SO_0000441 sequence http://purl.obolibrary.org/obo/SO_0000441 SO:0000441 http://purl.obolibrary.org/obo/SO_0000441 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000441 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000441 ss_oligo SO:ke http://purl.obolibrary.org/obo/SO_0000442 A double stranded oligonucleotide. http://purl.obolibrary.org/obo/SO_0000442 double stranded oligonucleotide http://purl.obolibrary.org/obo/SO_0000442 ds oligo http://purl.obolibrary.org/obo/SO_0000442 ds-oligonucleotide http://purl.obolibrary.org/obo/SO_0000442 sequence http://purl.obolibrary.org/obo/SO_0000442 SO:0000442 http://purl.obolibrary.org/obo/SO_0000442 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000442 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000442 ds_oligo SO:ke http://purl.obolibrary.org/obo/SO_0000443 An attribute to describe the kind of biological sequence. http://purl.obolibrary.org/obo/SO_0000443 polymer attribute http://purl.obolibrary.org/obo/SO_0000443 sequence http://purl.obolibrary.org/obo/SO_0000443 SO:0000443 http://purl.obolibrary.org/obo/SO_0000443 polymer_attribute SO:ke http://purl.obolibrary.org/obo/SO_0000444 Non-coding exon in the 3' UTR. http://purl.obolibrary.org/obo/SO_0000444 three prime noncoding exon http://purl.obolibrary.org/obo/SO_0000444 sequence http://purl.obolibrary.org/obo/SO_0000444 SO:0000444 http://purl.obolibrary.org/obo/SO_0000444 three_prime_noncoding_exon SO:ke http://purl.obolibrary.org/obo/SO_0000445 Non-coding exon in the 5' UTR. http://purl.obolibrary.org/obo/SO_0000445 5' nc exon http://purl.obolibrary.org/obo/SO_0000445 5' non coding exon http://purl.obolibrary.org/obo/SO_0000445 five prime noncoding exon http://purl.obolibrary.org/obo/SO_0000445 sequence http://purl.obolibrary.org/obo/SO_0000445 SO:0000445 http://purl.obolibrary.org/obo/SO_0000445 five_prime_noncoding_exon SO:ke http://purl.obolibrary.org/obo/SO_0000446 Intron located in the untranslated region. http://purl.obolibrary.org/obo/SO_0000446 UTR intron http://purl.obolibrary.org/obo/SO_0000446 sequence http://purl.obolibrary.org/obo/SO_0000446 SO:0000446 http://purl.obolibrary.org/obo/SO_0000446 UTR_intron SO:ke http://purl.obolibrary.org/obo/SO_0000447 An intron located in the 5' UTR. http://purl.obolibrary.org/obo/SO_0000447 five prime UTR intron http://purl.obolibrary.org/obo/SO_0000447 sequence http://purl.obolibrary.org/obo/SO_0000447 SO:0000447 http://purl.obolibrary.org/obo/SO_0000447 five_prime_UTR_intron SO:ke http://purl.obolibrary.org/obo/SO_0000448 An intron located in the 3' UTR. http://purl.obolibrary.org/obo/SO_0000448 three prime UTR intron http://purl.obolibrary.org/obo/SO_0000448 sequence http://purl.obolibrary.org/obo/SO_0000448 SO:0000448 http://purl.obolibrary.org/obo/SO_0000448 three_prime_UTR_intron SO:ma http://purl.obolibrary.org/obo/SO_0000449 A sequence of nucleotides or amino acids which, by design, has a "random" order of components, given a predetermined input frequency of these components. http://purl.obolibrary.org/obo/SO_0000449 random sequence http://purl.obolibrary.org/obo/SO_0000449 sequence http://purl.obolibrary.org/obo/SO_0000449 SO:0000449 http://purl.obolibrary.org/obo/SO_0000449 random_sequence SO:ma http://purl.obolibrary.org/obo/SO_0000450 A light region between two darkly staining bands in a polytene chromosome. http://purl.obolibrary.org/obo/SO_0000450 sequence http://purl.obolibrary.org/obo/SO_0000450 chromosome interband http://purl.obolibrary.org/obo/SO_0000450 SO:0000450 http://purl.obolibrary.org/obo/SO_0000450 interband SO:xp http://purl.obolibrary.org/obo/SO_0000451 A gene that encodes a polyadenylated mRNA. http://purl.obolibrary.org/obo/SO_0000451 gene with polyadenylated mRNA http://purl.obolibrary.org/obo/SO_0000451 sequence http://purl.obolibrary.org/obo/SO_0000451 SO:0000451 http://purl.obolibrary.org/obo/SO_0000451 gene_with_polyadenylated_mRNA http://purl.obolibrary.org/obo/SO_0000452 sequence http://purl.obolibrary.org/obo/SO_0000452 SO:0000452 http://purl.obolibrary.org/obo/SO_0000452 transgene_attribute http://purl.obolibrary.org/obo/SO_0000452 true FB:reference_manual SO:ke http://purl.obolibrary.org/obo/SO_0000453 A chromosome structure variant whereby a region of a chromosome has been transferred to another position. Among interchromosomal rearrangements, the term transposition is reserved for that class in which the telomeres of the chromosomes involved are coupled (that is to say, form the two ends of a single DNA molecule) as in wild-type. http://purl.obolibrary.org/obo/SO_0000453 chromosomal transposition http://purl.obolibrary.org/obo/SO_0000453 transposition http://purl.obolibrary.org/obo/SO_0000453 sequence http://purl.obolibrary.org/obo/SO_0000453 SO:0000453 http://purl.obolibrary.org/obo/SO_0000453 chromosomal_transposition http://www.developmentalcell.com/content/article/abstract?uid=PIIS1534580703002284 http://purl.obolibrary.org/obo/SO_0000454 A 17-28-nt, small interfering RNA derived from transcripts of repetitive elements. wiki http://purl.obolibrary.org/obo/SO_0000454 http://en.wikipedia.org/wiki/RasiRNA http://purl.obolibrary.org/obo/SO_0000454 repeat associated small interfering RNA http://purl.obolibrary.org/obo/SO_0000454 sequence http://purl.obolibrary.org/obo/SO_0000454 SO:0000454 http://purl.obolibrary.org/obo/SO_0000454 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000454 rasiRNA SO:xp http://purl.obolibrary.org/obo/SO_0000455 A gene that encodes an mRNA with a frameshift. http://purl.obolibrary.org/obo/SO_0000455 gene with mRNA with frameshift http://purl.obolibrary.org/obo/SO_0000455 sequence http://purl.obolibrary.org/obo/SO_0000455 SO:0000455 http://purl.obolibrary.org/obo/SO_0000455 gene_with_mRNA_with_frameshift SO:ke http://purl.obolibrary.org/obo/SO_0000456 A gene that is recombinationally rearranged. http://purl.obolibrary.org/obo/SO_0000456 recombinationally rearranged gene http://purl.obolibrary.org/obo/SO_0000456 sequence http://purl.obolibrary.org/obo/SO_0000456 SO:0000456 http://purl.obolibrary.org/obo/SO_0000456 recombinationally_rearranged_gene SO:ke http://purl.obolibrary.org/obo/SO_0000457 A chromosome duplication involving an insertion from another chromosome. http://purl.obolibrary.org/obo/SO_0000457 interchromosomal duplication http://purl.obolibrary.org/obo/SO_0000457 sequence http://purl.obolibrary.org/obo/SO_0000457 SO:0000457 http://purl.obolibrary.org/obo/SO_0000457 interchromosomal_duplication http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000458 Germline genomic DNA including D-region with 5' UTR and 3' UTR, also designated as D-segment. http://purl.obolibrary.org/obo/SO_0000458 D gene http://purl.obolibrary.org/obo/SO_0000458 D-GENE http://purl.obolibrary.org/obo/SO_0000458 sequence http://purl.obolibrary.org/obo/SO_0000458 SO:0000458 http://purl.obolibrary.org/obo/SO_0000458 D_gene_segment SO:xp http://purl.obolibrary.org/obo/SO_0000459 A gene with a transcript that is trans-spliced. http://purl.obolibrary.org/obo/SO_0000459 gene with trans spliced transcript http://purl.obolibrary.org/obo/SO_0000459 sequence http://purl.obolibrary.org/obo/SO_0000459 SO:0000459 http://purl.obolibrary.org/obo/SO_0000459 gene_with_trans_spliced_transcript http://purl.obolibrary.org/obo/SO_0000460 vertebrate immunoglobulin T cell receptor segment http://purl.obolibrary.org/obo/SO_0000460 vertebrate_immunoglobulin/T-cell receptor gene http://purl.obolibrary.org/obo/SO_0000460 sequence http://purl.obolibrary.org/obo/SO_0000460 SO:0000460 http://purl.obolibrary.org/obo/SO_0000460 I am using the term segment instead of gene here to avoid confusion with the region 'gene'. http://purl.obolibrary.org/obo/SO_0000460 vertebrate_immunoglobulin_T_cell_receptor_segment FB:km http://purl.obolibrary.org/obo/SO_0000461 A chromosomal deletion whereby a chromosome generated by recombination between two inversions; has a deficiency at each end of the inversion. http://purl.obolibrary.org/obo/SO_0000461 inversion derived bipartite deficiency http://purl.obolibrary.org/obo/SO_0000461 sequence http://purl.obolibrary.org/obo/SO_0000461 SO:0000461 http://purl.obolibrary.org/obo/SO_0000461 inversion_derived_bipartite_deficiency SO:cjm http://purl.obolibrary.org/obo/SO_0000462 A non-functional descendant of a functional entity. http://purl.obolibrary.org/obo/SO_0000462 pseudogenic region http://purl.obolibrary.org/obo/SO_0000462 sequence http://purl.obolibrary.org/obo/SO_0000462 SO:0000462 http://purl.obolibrary.org/obo/SO_0000462 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000462 pseudogenic_region SO:ke http://purl.obolibrary.org/obo/SO_0000463 A gene that encodes more than one transcript. http://purl.obolibrary.org/obo/SO_0000463 encodes alternately spliced transcripts http://purl.obolibrary.org/obo/SO_0000463 sequence http://purl.obolibrary.org/obo/SO_0000463 SO:0000463 http://purl.obolibrary.org/obo/SO_0000463 encodes_alternately_spliced_transcripts SO:ke http://purl.obolibrary.org/obo/SO_0000464 A non-functional descendant of an exon. http://purl.obolibrary.org/obo/SO_0000464 decayed exon http://purl.obolibrary.org/obo/SO_0000464 sequence http://purl.obolibrary.org/obo/SO_0000464 SO:0000464 http://purl.obolibrary.org/obo/SO_0000464 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000464 decayed_exon FB:km http://purl.obolibrary.org/obo/SO_0000465 A chromosome deletion whereby a chromosome is generated by recombination between two inversions; there is a deficiency at one end of the inversion and a duplication at the other end of the inversion. http://purl.obolibrary.org/obo/SO_0000465 inversion derived deficiency plus duplication http://purl.obolibrary.org/obo/SO_0000465 sequence http://purl.obolibrary.org/obo/SO_0000465 SO:0000465 http://purl.obolibrary.org/obo/SO_0000465 inversion_derived_deficiency_plus_duplication http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000466 Germline genomic DNA including L-part1, V-intron and V-exon, with the 5' UTR and 3' UTR. http://purl.obolibrary.org/obo/SO_0000466 V gene http://purl.obolibrary.org/obo/SO_0000466 V-GENE http://purl.obolibrary.org/obo/SO_0000466 variable_gene http://purl.obolibrary.org/obo/SO_0000466 sequence http://purl.obolibrary.org/obo/SO_0000466 SO:0000466 http://purl.obolibrary.org/obo/SO_0000466 V_gene_segment SO:ke http://purl.obolibrary.org/obo/SO_0000467 An attribute describing a gene sequence where the resulting protein is regulated by the stability of the resulting protein. http://purl.obolibrary.org/obo/SO_0000467 post translationally regulated by protein stability http://purl.obolibrary.org/obo/SO_0000467 post-translationally regulated by protein stability http://purl.obolibrary.org/obo/SO_0000467 sequence http://purl.obolibrary.org/obo/SO_0000467 SO:0000467 http://purl.obolibrary.org/obo/SO_0000467 post_translationally_regulated_by_protein_stability SO:rd http://purl.obolibrary.org/obo/SO_0000468 One of the pieces of sequence that make up a golden path. http://purl.obolibrary.org/obo/SO_0000468 golden path fragment http://purl.obolibrary.org/obo/SO_0000468 sequence http://purl.obolibrary.org/obo/SO_0000468 SO:0000468 http://purl.obolibrary.org/obo/SO_0000468 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000468 golden_path_fragment SO:ke http://purl.obolibrary.org/obo/SO_0000469 An attribute describing a gene sequence where the resulting protein is modified to regulate it. http://purl.obolibrary.org/obo/SO_0000469 post translationally regulated by protein modification http://purl.obolibrary.org/obo/SO_0000469 post-translationally regulated by protein modification http://purl.obolibrary.org/obo/SO_0000469 sequence http://purl.obolibrary.org/obo/SO_0000469 SO:0000469 http://purl.obolibrary.org/obo/SO_0000469 post_translationally_regulated_by_protein_modification http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000470 Germline genomic DNA of an immunoglobulin/T-cell receptor gene including J-region with 5' UTR (SO:0000204) and 3' UTR (SO:0000205), also designated as J-segment. http://purl.obolibrary.org/obo/SO_0000470 J gene http://purl.obolibrary.org/obo/SO_0000470 J-GENE http://purl.obolibrary.org/obo/SO_0000470 sequence http://purl.obolibrary.org/obo/SO_0000470 SO:0000470 http://purl.obolibrary.org/obo/SO_0000470 J_gene_segment SO:ke http://purl.obolibrary.org/obo/SO_0000471 The gene product is involved in its own transcriptional regulation. http://purl.obolibrary.org/obo/SO_0000471 sequence http://purl.obolibrary.org/obo/SO_0000471 SO:0000471 http://purl.obolibrary.org/obo/SO_0000471 autoregulated SO:cjm http://purl.obolibrary.org/obo/SO_0000472 A set of regions which overlap with minimal polymorphism to form a linear sequence. http://purl.obolibrary.org/obo/SO_0000472 tiling path http://purl.obolibrary.org/obo/SO_0000472 sequence http://purl.obolibrary.org/obo/SO_0000472 SO:0000472 http://purl.obolibrary.org/obo/SO_0000472 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000472 tiling_path SO:ke http://purl.obolibrary.org/obo/SO_0000473 The gene product is involved in its own transcriptional regulation where it decreases transcription. http://purl.obolibrary.org/obo/SO_0000473 negatively autoregulated http://purl.obolibrary.org/obo/SO_0000473 sequence http://purl.obolibrary.org/obo/SO_0000473 SO:0000473 http://purl.obolibrary.org/obo/SO_0000473 negatively_autoregulated SO:ke http://purl.obolibrary.org/obo/SO_0000474 A piece of sequence that makes up a tiling_path (SO:0000472). http://purl.obolibrary.org/obo/SO_0000474 tiling path fragment http://purl.obolibrary.org/obo/SO_0000474 sequence http://purl.obolibrary.org/obo/SO_0000474 SO:0000474 http://purl.obolibrary.org/obo/SO_0000474 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000474 tiling_path_fragment SO:ke http://purl.obolibrary.org/obo/SO_0000475 The gene product is involved in its own transcriptional regulation, where it increases transcription. http://purl.obolibrary.org/obo/SO_0000475 positively autoregulated http://purl.obolibrary.org/obo/SO_0000475 sequence http://purl.obolibrary.org/obo/SO_0000475 SO:0000475 http://purl.obolibrary.org/obo/SO_0000475 positively_autoregulated SO:ke http://purl.obolibrary.org/obo/SO_0000476 A DNA sequencer read which is part of a contig. http://purl.obolibrary.org/obo/SO_0000476 contig read http://purl.obolibrary.org/obo/SO_0000476 sequence http://purl.obolibrary.org/obo/SO_0000476 SO:0000476 http://purl.obolibrary.org/obo/SO_0000476 contig_read SO:ke http://purl.obolibrary.org/obo/SO_0000477 A gene that is polycistronic. http://purl.obolibrary.org/obo/SO_0000477 sequence http://purl.obolibrary.org/obo/SO_0000477 SO:0000477 http://purl.obolibrary.org/obo/SO_0000477 polycistronic_gene http://purl.obolibrary.org/obo/SO_0000477 true http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000478 Genomic DNA of immunoglobulin/T-cell receptor gene including C-region (and introns if present) with 5' UTR (SO:0000204) and 3' UTR (SO:0000205). http://purl.obolibrary.org/obo/SO_0000478 C gene http://purl.obolibrary.org/obo/SO_0000478 C_GENE http://purl.obolibrary.org/obo/SO_0000478 constant gene http://purl.obolibrary.org/obo/SO_0000478 sequence http://purl.obolibrary.org/obo/SO_0000478 SO:0000478 http://purl.obolibrary.org/obo/SO_0000478 C_gene_segment SO:xp http://purl.obolibrary.org/obo/SO_0000479 A transcript that is trans-spliced. http://purl.obolibrary.org/obo/SO_0000479 trans spliced transcript http://purl.obolibrary.org/obo/SO_0000479 trans-spliced transcript http://purl.obolibrary.org/obo/SO_0000479 sequence http://purl.obolibrary.org/obo/SO_0000479 SO:0000479 http://purl.obolibrary.org/obo/SO_0000479 trans_spliced_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000480 A clone which is part of a tiling path. A tiling path is a set of sequencing substrates, typically clones, which have been selected in order to efficiently cover a region of the genome in preparation for sequencing and assembly. http://purl.obolibrary.org/obo/SO_0000480 tiling path clone http://purl.obolibrary.org/obo/SO_0000480 sequence http://purl.obolibrary.org/obo/SO_0000480 SO:0000480 http://purl.obolibrary.org/obo/SO_0000480 tiling_path_clone SO:ke http://purl.obolibrary.org/obo/SO_0000481 An inverted repeat (SO:0000294) occurring at the termini of a DNA transposon. http://purl.obolibrary.org/obo/SO_0000481 TIR http://purl.obolibrary.org/obo/SO_0000481 terminal inverted repeat http://purl.obolibrary.org/obo/SO_0000481 sequence http://purl.obolibrary.org/obo/SO_0000481 SO:0000481 http://purl.obolibrary.org/obo/SO_0000481 terminal_inverted_repeat http://purl.obolibrary.org/obo/SO_0000482 vertebrate immunoglobulin T cell receptor gene cluster http://purl.obolibrary.org/obo/SO_0000482 vertebrate_immunoglobulin/T-cell receptor gene cluster http://purl.obolibrary.org/obo/SO_0000482 sequence http://purl.obolibrary.org/obo/SO_0000482 SO:0000482 http://purl.obolibrary.org/obo/SO_0000482 vertebrate_immunoglobulin_T_cell_receptor_gene_cluster SO:ke http://purl.obolibrary.org/obo/SO_0000483 A primary transcript that is never translated into a protein. http://purl.obolibrary.org/obo/SO_0000483 nc primary transcript http://purl.obolibrary.org/obo/SO_0000483 noncoding primary transcript http://purl.obolibrary.org/obo/SO_0000483 sequence http://purl.obolibrary.org/obo/SO_0000483 SO:0000483 http://purl.obolibrary.org/obo/SO_0000483 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000483 nc_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000484 The sequence of the 3' exon that is not coding. http://purl.obolibrary.org/obo/SO_0000484 three prime coding exon noncoding region http://purl.obolibrary.org/obo/SO_0000484 three_prime_exon_noncoding_region http://purl.obolibrary.org/obo/SO_0000484 sequence http://purl.obolibrary.org/obo/SO_0000484 SO:0000484 http://purl.obolibrary.org/obo/SO_0000484 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000484 three_prime_coding_exon_noncoding_region http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000485 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one DJ-gene, and one J-gene. http://purl.obolibrary.org/obo/SO_0000485 (DJ)-J-CLUSTER http://purl.obolibrary.org/obo/SO_0000485 DJ J cluster http://purl.obolibrary.org/obo/SO_0000485 sequence http://purl.obolibrary.org/obo/SO_0000485 SO:0000485 http://purl.obolibrary.org/obo/SO_0000485 DJ_J_cluster SO:ke http://purl.obolibrary.org/obo/SO_0000486 The sequence of the 5' exon preceding the start codon. http://purl.obolibrary.org/obo/SO_0000486 five prime coding exon noncoding region http://purl.obolibrary.org/obo/SO_0000486 five_prime_exon_noncoding_region http://purl.obolibrary.org/obo/SO_0000486 sequence http://purl.obolibrary.org/obo/SO_0000486 SO:0000486 http://purl.obolibrary.org/obo/SO_0000486 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000486 five_prime_coding_exon_noncoding_region http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000487 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene, one J-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000487 (VDJ)-J-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000487 VDJ J C cluster http://purl.obolibrary.org/obo/SO_0000487 sequence http://purl.obolibrary.org/obo/SO_0000487 SO:0000487 http://purl.obolibrary.org/obo/SO_0000487 VDJ_J_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000488 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene and one J-gene. http://purl.obolibrary.org/obo/SO_0000488 (VDJ)-J-CLUSTER http://purl.obolibrary.org/obo/SO_0000488 VDJ J cluster http://purl.obolibrary.org/obo/SO_0000488 sequence http://purl.obolibrary.org/obo/SO_0000488 SO:0000488 http://purl.obolibrary.org/obo/SO_0000488 VDJ_J_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000489 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VJ-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000489 VJ C cluster http://purl.obolibrary.org/obo/SO_0000489 sequence http://purl.obolibrary.org/obo/SO_0000489 (VJ)-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000489 SO:0000489 http://purl.obolibrary.org/obo/SO_0000489 VJ_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000490 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VJ-gene, one J-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000490 (VJ)-J-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000490 VJ J C cluster http://purl.obolibrary.org/obo/SO_0000490 sequence http://purl.obolibrary.org/obo/SO_0000490 SO:0000490 http://purl.obolibrary.org/obo/SO_0000490 VJ_J_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000491 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VJ-gene and one J-gene. http://purl.obolibrary.org/obo/SO_0000491 (VJ)-J-CLUSTER http://purl.obolibrary.org/obo/SO_0000491 VJ J cluster http://purl.obolibrary.org/obo/SO_0000491 sequence http://purl.obolibrary.org/obo/SO_0000491 SO:0000491 http://purl.obolibrary.org/obo/SO_0000491 VJ_J_cluster http://purl.obolibrary.org/obo/SO_0000492 D gene recombination feature http://purl.obolibrary.org/obo/SO_0000492 sequence http://purl.obolibrary.org/obo/SO_0000492 SO:0000492 http://purl.obolibrary.org/obo/SO_0000492 D_gene_recombination_feature http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000493 7 nucleotide recombination site like CACAGTG, part of a 3' D-recombination signal sequence of an immunoglobulin/T-cell receptor gene. http://purl.obolibrary.org/obo/SO_0000493 3'D-HEPTAMER http://purl.obolibrary.org/obo/SO_0000493 three prime D heptamer http://purl.obolibrary.org/obo/SO_0000493 sequence http://purl.obolibrary.org/obo/SO_0000493 SO:0000493 http://purl.obolibrary.org/obo/SO_0000493 three_prime_D_heptamer http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000494 A 9 nucleotide recombination site (e.g. ACAAAAACC), part of a 3' D-recombination signal sequence of an immunoglobulin/T-cell receptor gene. http://purl.obolibrary.org/obo/SO_0000494 3'D-NOMAMER http://purl.obolibrary.org/obo/SO_0000494 three prime D nonamer http://purl.obolibrary.org/obo/SO_0000494 sequence http://purl.obolibrary.org/obo/SO_0000494 SO:0000494 http://purl.obolibrary.org/obo/SO_0000494 three_prime_D_nonamer http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000495 A 12 or 23 nucleotide spacer between the 3'D-HEPTAMER and 3'D-NONAMER of a 3'D-RS. http://purl.obolibrary.org/obo/SO_0000495 3'D-SPACER http://purl.obolibrary.org/obo/SO_0000495 three prime D spacer http://purl.obolibrary.org/obo/SO_0000495 sequence http://purl.obolibrary.org/obo/SO_0000495 SO:0000495 http://purl.obolibrary.org/obo/SO_0000495 three_prime_D_spacer http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000496 7 nucleotide recombination site (e.g. CACTGTG), part of a 5' D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene. http://purl.obolibrary.org/obo/SO_0000496 5'D-HEPTAMER http://purl.obolibrary.org/obo/SO_0000496 five prime D heptamer http://purl.obolibrary.org/obo/SO_0000496 sequence http://purl.obolibrary.org/obo/SO_0000496 SO:0000496 http://purl.obolibrary.org/obo/SO_0000496 five_prime_D_heptamer http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000497 9 nucleotide recombination site (e.g. GGTTTTTGT), part of a five_prime_D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene. http://purl.obolibrary.org/obo/SO_0000497 5'D-NONAMER http://purl.obolibrary.org/obo/SO_0000497 five prime D nonamer http://purl.obolibrary.org/obo/SO_0000497 sequence http://purl.obolibrary.org/obo/SO_0000497 SO:0000497 http://purl.obolibrary.org/obo/SO_0000497 five_prime_D_nonamer http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000498 12 or 23 nucleotide spacer between the 5' D-heptamer (SO:0000496) and 5' D-nonamer (SO:0000497) of a 5' D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene. http://purl.obolibrary.org/obo/SO_0000498 5'-SPACER http://purl.obolibrary.org/obo/SO_0000498 five prime D spacer http://purl.obolibrary.org/obo/SO_0000498 five prime D-spacer http://purl.obolibrary.org/obo/SO_0000498 sequence http://purl.obolibrary.org/obo/SO_0000498 SO:0000498 http://purl.obolibrary.org/obo/SO_0000498 five_prime_D_spacer SO:ke http://purl.obolibrary.org/obo/SO_0000499 A continuous piece of sequence similar to the 'virtual contig' concept of the Ensembl database. http://purl.obolibrary.org/obo/SO_0000499 virtual sequence http://purl.obolibrary.org/obo/SO_0000499 sequence http://purl.obolibrary.org/obo/SO_0000499 SO:0000499 http://purl.obolibrary.org/obo/SO_0000499 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000499 virtual_sequence PMID:12177293 http://purl.obolibrary.org/obo/SO_0000500 A type of non-canonical base-pairing. This is less energetically favourable than watson crick base pairing. Hoogsteen GC base pairs only have two hydrogen bonds. wiki http://purl.obolibrary.org/obo/SO_0000500 http://en.wikipedia.org/wiki/Hoogsteen_base_pair http://purl.obolibrary.org/obo/SO_0000500 Hoogsteen base pair http://purl.obolibrary.org/obo/SO_0000500 sequence http://purl.obolibrary.org/obo/SO_0000500 SO:0000500 http://purl.obolibrary.org/obo/SO_0000500 Hoogsteen_base_pair SO:ke http://purl.obolibrary.org/obo/SO_0000501 A type of non-canonical base-pairing. http://purl.obolibrary.org/obo/SO_0000501 reverse Hoogsteen base pair http://purl.obolibrary.org/obo/SO_0000501 sequence http://purl.obolibrary.org/obo/SO_0000501 SO:0000501 http://purl.obolibrary.org/obo/SO_0000501 reverse_Hoogsteen_base_pair SO:ke http://purl.obolibrary.org/obo/SO_0000502 A region of sequence that is transcribed. This region may cover the transcript of a gene, it may emcompas the sequence covered by all of the transcripts of a alternately spliced gene, or it may cover the region transcribed by a polycistronic transcript. A gene may have 1 or more transcribed regions and a transcribed_region may belong to one or more genes. http://purl.obolibrary.org/obo/SO_0000502 sequence http://purl.obolibrary.org/obo/SO_0000502 SO:0000502 http://purl.obolibrary.org/obo/SO_0000502 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000502 This concept cam about as a direct result of the SO meeting August 2004.nThe exact nature of the relationship between transcribed_region and gene is still up for discussion. We are going with 'associated_with' for the time being. http://purl.obolibrary.org/obo/SO_0000502 transcribed_region http://purl.obolibrary.org/obo/SO_0000502 true http://purl.obolibrary.org/obo/SO_0000503 sequence http://purl.obolibrary.org/obo/SO_0000503 SO:0000503 http://purl.obolibrary.org/obo/SO_0000503 alternately_spliced_gene_encodeing_one_transcript http://purl.obolibrary.org/obo/SO_0000503 true http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000504 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000504 D DJ C cluster http://purl.obolibrary.org/obo/SO_0000504 D-(DJ)-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000504 sequence http://purl.obolibrary.org/obo/SO_0000504 SO:0000504 http://purl.obolibrary.org/obo/SO_0000504 D_DJ_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000505 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene and one DJ-gene. http://purl.obolibrary.org/obo/SO_0000505 D DJ cluster http://purl.obolibrary.org/obo/SO_0000505 D-(DJ)-CLUSTER http://purl.obolibrary.org/obo/SO_0000505 sequence http://purl.obolibrary.org/obo/SO_0000505 SO:0000505 http://purl.obolibrary.org/obo/SO_0000505 D_DJ_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000506 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene, one J-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000506 D DJ J C cluster http://purl.obolibrary.org/obo/SO_0000506 D-(DJ)-J-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000506 sequence http://purl.obolibrary.org/obo/SO_0000506 SO:0000506 http://purl.obolibrary.org/obo/SO_0000506 D_DJ_J_C_cluster SO:ke http://purl.obolibrary.org/obo/SO_0000507 A non functional descendant of an exon, part of a pseudogene. http://purl.obolibrary.org/obo/SO_0000507 pseudogenic exon http://purl.obolibrary.org/obo/SO_0000507 sequence http://purl.obolibrary.org/obo/SO_0000507 SO:0000507 http://purl.obolibrary.org/obo/SO_0000507 This is the analog of the exon of a functional gene. The term was requested by Rama - SGD to allow the annotation of the parts of a pseudogene. Non-functional is defined as either its transcription or translation (or both) are prevented due to one or more mutations. http://purl.obolibrary.org/obo/SO_0000507 pseudogenic_exon http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000508 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene, and one J-gene. http://purl.obolibrary.org/obo/SO_0000508 D DJ J cluster http://purl.obolibrary.org/obo/SO_0000508 D-(DJ)-J-CLUSTER http://purl.obolibrary.org/obo/SO_0000508 sequence http://purl.obolibrary.org/obo/SO_0000508 SO:0000508 http://purl.obolibrary.org/obo/SO_0000508 D_DJ_J_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000509 Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one D-gene, one J-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000509 D J C cluster http://purl.obolibrary.org/obo/SO_0000509 D-J-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000509 sequence http://purl.obolibrary.org/obo/SO_0000509 SO:0000509 http://purl.obolibrary.org/obo/SO_0000509 D_J_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000510 Genomic DNA of immunoglobulin/T-cell receptor gene in partially rearranged genomic DNA including L-part1, V-intron and V-D-exon, with the 5' UTR (SO:0000204) and 3' UTR (SO:0000205). http://purl.obolibrary.org/obo/SO_0000510 VD gene http://purl.obolibrary.org/obo/SO_0000510 V_D_GENE http://purl.obolibrary.org/obo/SO_0000510 sequence http://purl.obolibrary.org/obo/SO_0000510 SO:0000510 http://purl.obolibrary.org/obo/SO_0000510 VD_gene_segment http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000511 Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one J-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000511 J C cluster http://purl.obolibrary.org/obo/SO_0000511 J-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000511 sequence http://purl.obolibrary.org/obo/SO_0000511 SO:0000511 http://purl.obolibrary.org/obo/SO_0000511 J_C_cluster FB:km http://purl.obolibrary.org/obo/SO_0000512 A chromosomal deletion whereby a chromosome generated by recombination between two inversions; has a deficiency at one end and presumed to have a deficiency or duplication at the other end of the inversion. http://purl.obolibrary.org/obo/SO_0000512 inversion derived deficiency plus aneuploid http://purl.obolibrary.org/obo/SO_0000512 sequence http://purl.obolibrary.org/obo/SO_0000512 SO:0000512 http://purl.obolibrary.org/obo/SO_0000512 inversion_derived_deficiency_plus_aneuploid http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000513 Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including more than one J-gene. http://purl.obolibrary.org/obo/SO_0000513 J cluster http://purl.obolibrary.org/obo/SO_0000513 J-CLUSTER http://purl.obolibrary.org/obo/SO_0000513 sequence http://purl.obolibrary.org/obo/SO_0000513 SO:0000513 http://purl.obolibrary.org/obo/SO_0000513 J_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000514 9 nucleotide recombination site (e.g. GGTTTTTGT), part of a J-gene recombination feature of an immunoglobulin/T-cell receptor gene. http://purl.obolibrary.org/obo/SO_0000514 J nonamer http://purl.obolibrary.org/obo/SO_0000514 J-NONAMER http://purl.obolibrary.org/obo/SO_0000514 sequence http://purl.obolibrary.org/obo/SO_0000514 SO:0000514 http://purl.obolibrary.org/obo/SO_0000514 J_nonamer http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000515 7 nucleotide recombination site (e.g. CACAGTG), part of a J-gene recombination feature of an immunoglobulin/T-cell receptor gene. http://purl.obolibrary.org/obo/SO_0000515 J heptamer http://purl.obolibrary.org/obo/SO_0000515 J-HEPTAMER http://purl.obolibrary.org/obo/SO_0000515 sequence http://purl.obolibrary.org/obo/SO_0000515 SO:0000515 http://purl.obolibrary.org/obo/SO_0000515 J_heptamer SO:ke http://purl.obolibrary.org/obo/SO_0000516 A non functional descendant of a transcript, part of a pseudogene. http://purl.obolibrary.org/obo/SO_0000516 pseudogenic transcript http://purl.obolibrary.org/obo/SO_0000516 sequence http://purl.obolibrary.org/obo/SO_0000516 SO:0000516 http://purl.obolibrary.org/obo/SO_0000516 This is the analog of the transcript of a functional gene. The term was requested by Rama - SGD to allow the annotation of the parts of a pseudogene. Non-functional is defined as either its transcription or translation (or both) are prevented due to one or more mutations. http://purl.obolibrary.org/obo/SO_0000516 pseudogenic_transcript http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000517 12 or 23 nucleotide spacer between the J-nonamer and the J-heptamer of a J-gene recombination feature of an immunoglobulin/T-cell receptor gene. http://purl.obolibrary.org/obo/SO_0000517 J spacer http://purl.obolibrary.org/obo/SO_0000517 J-SPACER http://purl.obolibrary.org/obo/SO_0000517 sequence http://purl.obolibrary.org/obo/SO_0000517 SO:0000517 http://purl.obolibrary.org/obo/SO_0000517 J_spacer http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000518 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one DJ-gene. http://purl.obolibrary.org/obo/SO_0000518 V DJ cluster http://purl.obolibrary.org/obo/SO_0000518 V-(DJ)-CLUSTER http://purl.obolibrary.org/obo/SO_0000518 sequence http://purl.obolibrary.org/obo/SO_0000518 SO:0000518 http://purl.obolibrary.org/obo/SO_0000518 V_DJ_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000519 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene and one J-gene. http://purl.obolibrary.org/obo/SO_0000519 V DJ J cluster http://purl.obolibrary.org/obo/SO_0000519 sequence http://purl.obolibrary.org/obo/SO_0000519 V-(DJ)-J-CLUSTER http://purl.obolibrary.org/obo/SO_0000519 SO:0000519 http://purl.obolibrary.org/obo/SO_0000519 V_DJ_J_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000520 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000520 V VDJ C cluster http://purl.obolibrary.org/obo/SO_0000520 V-(VDJ)-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000520 sequence http://purl.obolibrary.org/obo/SO_0000520 SO:0000520 http://purl.obolibrary.org/obo/SO_0000520 V_VDJ_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000521 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one VDJ-gene. http://purl.obolibrary.org/obo/SO_0000521 V VDJ cluster http://purl.obolibrary.org/obo/SO_0000521 V-(VDJ)-CLUSTER http://purl.obolibrary.org/obo/SO_0000521 sequence http://purl.obolibrary.org/obo/SO_0000521 SO:0000521 http://purl.obolibrary.org/obo/SO_0000521 V_VDJ_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000522 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene and one J-gene. http://purl.obolibrary.org/obo/SO_0000522 V VDJ J cluster http://purl.obolibrary.org/obo/SO_0000522 sequence http://purl.obolibrary.org/obo/SO_0000522 V-(VDJ)-J-CLUSTER http://purl.obolibrary.org/obo/SO_0000522 SO:0000522 http://purl.obolibrary.org/obo/SO_0000522 V_VDJ_J_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000523 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000523 V VJ C cluster http://purl.obolibrary.org/obo/SO_0000523 V-(VJ)-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000523 sequence http://purl.obolibrary.org/obo/SO_0000523 SO:0000523 http://purl.obolibrary.org/obo/SO_0000523 V_VJ_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000524 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one VJ-gene. http://purl.obolibrary.org/obo/SO_0000524 V VJ cluster http://purl.obolibrary.org/obo/SO_0000524 V-(VJ)-CLUSTER http://purl.obolibrary.org/obo/SO_0000524 sequence http://purl.obolibrary.org/obo/SO_0000524 SO:0000524 http://purl.obolibrary.org/obo/SO_0000524 V_VJ_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000525 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene and one J-gene. http://purl.obolibrary.org/obo/SO_0000525 V VJ J cluster http://purl.obolibrary.org/obo/SO_0000525 V-(VJ)-J-CLUSTER http://purl.obolibrary.org/obo/SO_0000525 sequence http://purl.obolibrary.org/obo/SO_0000525 SO:0000525 http://purl.obolibrary.org/obo/SO_0000525 V_VJ_J_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000526 Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including more than one V-gene. http://purl.obolibrary.org/obo/SO_0000526 V cluster http://purl.obolibrary.org/obo/SO_0000526 V-CLUSTER http://purl.obolibrary.org/obo/SO_0000526 sequence http://purl.obolibrary.org/obo/SO_0000526 SO:0000526 http://purl.obolibrary.org/obo/SO_0000526 V_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000527 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000527 V D DJ C cluster http://purl.obolibrary.org/obo/SO_0000527 V-D-(DJ)-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000527 sequence http://purl.obolibrary.org/obo/SO_0000527 SO:0000527 http://purl.obolibrary.org/obo/SO_0000527 V_D_DJ_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000528 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene. http://purl.obolibrary.org/obo/SO_0000528 V D DJ cluster http://purl.obolibrary.org/obo/SO_0000528 V-D-(DJ)-CLUSTER http://purl.obolibrary.org/obo/SO_0000528 sequence http://purl.obolibrary.org/obo/SO_0000528 SO:0000528 http://purl.obolibrary.org/obo/SO_0000528 V_D_DJ_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000529 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene, one J-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000529 V D DJ J C cluster http://purl.obolibrary.org/obo/SO_0000529 V-D-(DJ)-J-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000529 sequence http://purl.obolibrary.org/obo/SO_0000529 SO:0000529 http://purl.obolibrary.org/obo/SO_0000529 V_D_DJ_J_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000530 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene and one J-gene. http://purl.obolibrary.org/obo/SO_0000530 V D DJ J cluster http://purl.obolibrary.org/obo/SO_0000530 V-D-(DJ)-J-CLUSTER http://purl.obolibrary.org/obo/SO_0000530 sequence http://purl.obolibrary.org/obo/SO_0000530 SO:0000530 http://purl.obolibrary.org/obo/SO_0000530 V_D_DJ_J_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000531 Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one D-gene and one J-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000531 V D J C cluster http://purl.obolibrary.org/obo/SO_0000531 V-D-J-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000531 sequence http://purl.obolibrary.org/obo/SO_0000531 SO:0000531 http://purl.obolibrary.org/obo/SO_0000531 V_D_J_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000532 Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one D-gene and one J-gene. http://purl.obolibrary.org/obo/SO_0000532 V D J cluster http://purl.obolibrary.org/obo/SO_0000532 V-D-J-CLUSTER http://purl.obolibrary.org/obo/SO_0000532 sequence http://purl.obolibrary.org/obo/SO_0000532 SO:0000532 http://purl.obolibrary.org/obo/SO_0000532 V_D_J_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000533 7 nucleotide recombination site (e.g. CACAGTG), part of V-gene recombination feature of an immunoglobulin/T-cell receptor gene. http://purl.obolibrary.org/obo/SO_0000533 V heptamer http://purl.obolibrary.org/obo/SO_0000533 V-HEPTAMER http://purl.obolibrary.org/obo/SO_0000533 sequence http://purl.obolibrary.org/obo/SO_0000533 SO:0000533 http://purl.obolibrary.org/obo/SO_0000533 V_heptamer http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000534 Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene and one J-gene. http://purl.obolibrary.org/obo/SO_0000534 V J cluster http://purl.obolibrary.org/obo/SO_0000534 V-J-CLUSTER http://purl.obolibrary.org/obo/SO_0000534 sequence http://purl.obolibrary.org/obo/SO_0000534 SO:0000534 http://purl.obolibrary.org/obo/SO_0000534 V_J_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000535 Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one J-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000535 V J C cluster http://purl.obolibrary.org/obo/SO_0000535 V-J-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000535 sequence http://purl.obolibrary.org/obo/SO_0000535 SO:0000535 http://purl.obolibrary.org/obo/SO_0000535 V_J_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000536 9 nucleotide recombination site (e.g. ACAAAAACC), part of V-gene recombination feature of an immunoglobulin/T-cell receptor gene. http://purl.obolibrary.org/obo/SO_0000536 V nonamer http://purl.obolibrary.org/obo/SO_0000536 V-NONAMER http://purl.obolibrary.org/obo/SO_0000536 sequence http://purl.obolibrary.org/obo/SO_0000536 SO:0000536 http://purl.obolibrary.org/obo/SO_0000536 V_nonamer http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000537 12 or 23 nucleotide spacer between the V-heptamer and the V-nonamer of a V-gene recombination feature of an immunoglobulin/T-cell receptor gene. http://purl.obolibrary.org/obo/SO_0000537 V spacer http://purl.obolibrary.org/obo/SO_0000537 V-SPACER http://purl.obolibrary.org/obo/SO_0000537 sequence http://purl.obolibrary.org/obo/SO_0000537 SO:0000537 http://purl.obolibrary.org/obo/SO_0000537 V_spacer http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000538 Recombination signal including V-heptamer, V-spacer and V-nonamer in 3' of V-region of a V-gene or V-sequence of an immunoglobulin/T-cell receptor gene. http://purl.obolibrary.org/obo/SO_0000538 V gene recombination feature http://purl.obolibrary.org/obo/SO_0000538 V-RS http://purl.obolibrary.org/obo/SO_0000538 sequence http://purl.obolibrary.org/obo/SO_0000538 SO:0000538 http://purl.obolibrary.org/obo/SO_0000538 V_gene_recombination_feature http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000539 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one DJ-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000539 (DJ)-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000539 DJ C cluster http://purl.obolibrary.org/obo/SO_0000539 sequence http://purl.obolibrary.org/obo/SO_0000539 SO:0000539 http://purl.obolibrary.org/obo/SO_0000539 DJ_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000540 Genomic DNA in rearranged configuration including at least one D-J-GENE, one J-GENE and one C-GENE. http://purl.obolibrary.org/obo/SO_0000540 (DJ)-J-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000540 DJ J C cluster http://purl.obolibrary.org/obo/SO_0000540 sequence http://purl.obolibrary.org/obo/SO_0000540 SO:0000540 http://purl.obolibrary.org/obo/SO_0000540 DJ_J_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000541 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000541 (VDJ)-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000541 VDJ C cluster http://purl.obolibrary.org/obo/SO_0000541 sequence http://purl.obolibrary.org/obo/SO_0000541 SO:0000541 http://purl.obolibrary.org/obo/SO_0000541 VDJ_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000542 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000542 V DJ C cluster http://purl.obolibrary.org/obo/SO_0000542 V-(DJ)-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000542 sequence http://purl.obolibrary.org/obo/SO_0000542 SO:0000542 http://purl.obolibrary.org/obo/SO_0000542 V_DJ_C_cluster http://purl.obolibrary.org/obo/SO_0000543 sequence http://purl.obolibrary.org/obo/SO_0000543 SO:0000543 http://purl.obolibrary.org/obo/SO_0000543 alternately_spliced_gene_encoding_greater_than_one_transcript http://purl.obolibrary.org/obo/SO_0000543 true http://www.pnas.org/cgi/content/full/100/11/6569 http://purl.obolibrary.org/obo/SO_0000544 A rolling circle transposon. Autonomous helitrons encode a 5'-to-3' DNA helicase and nuclease/ligase similar to those encoded by known rolling-circle replicons. wiki http://purl.obolibrary.org/obo/SO_0000544 http://en.wikipedia.org/wiki/Helitron http://purl.obolibrary.org/obo/SO_0000544 sequence http://purl.obolibrary.org/obo/SO_0000544 ISCR http://purl.obolibrary.org/obo/SO_0000544 SO:0000544 http://purl.obolibrary.org/obo/SO_0000544 helitron http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=33937 http://purl.obolibrary.org/obo/SO_0000545 The pseudoknots involved in recoding are unique in that, as they play their role as a structure, they are immediately unfolded and their now linear sequence serves as a template for decoding. http://purl.obolibrary.org/obo/SO_0000545 recoding pseudoknot http://purl.obolibrary.org/obo/SO_0000545 sequence http://purl.obolibrary.org/obo/SO_0000545 SO:0000545 http://purl.obolibrary.org/obo/SO_0000545 recoding_pseudoknot http://purl.obolibrary.org/obo/SO_0000546 designed sequence http://purl.obolibrary.org/obo/SO_0000546 sequence http://purl.obolibrary.org/obo/SO_0000546 SO:0000546 http://purl.obolibrary.org/obo/SO_0000546 designed_sequence FB:km http://purl.obolibrary.org/obo/SO_0000547 A chromosome generated by recombination between two inversions; there is a duplication at each end of the inversion. http://purl.obolibrary.org/obo/SO_0000547 inversion derived bipartite duplication http://purl.obolibrary.org/obo/SO_0000547 sequence http://purl.obolibrary.org/obo/SO_0000547 SO:0000547 http://purl.obolibrary.org/obo/SO_0000547 inversion_derived_bipartite_duplication SO:xp http://purl.obolibrary.org/obo/SO_0000548 A gene that encodes a transcript that is edited. http://purl.obolibrary.org/obo/SO_0000548 gene with edited transcript http://purl.obolibrary.org/obo/SO_0000548 sequence http://purl.obolibrary.org/obo/SO_0000548 SO:0000548 http://purl.obolibrary.org/obo/SO_0000548 gene_with_edited_transcript FB:km http://purl.obolibrary.org/obo/SO_0000549 A chromosome generated by recombination between two inversions; has a duplication at one end and presumed to have a deficiency or duplication at the other end of the inversion. http://purl.obolibrary.org/obo/SO_0000549 inversion derived duplication plus aneuploid http://purl.obolibrary.org/obo/SO_0000549 sequence http://purl.obolibrary.org/obo/SO_0000549 SO:0000549 http://purl.obolibrary.org/obo/SO_0000549 inversion_derived_duplication_plus_aneuploid SO:ke http://purl.obolibrary.org/obo/SO_0000550 A chromosome structural variation whereby either a chromosome exists in addition to the normal chromosome complement or is lacking. http://purl.obolibrary.org/obo/SO_0000550 aneuploid chromosome http://purl.obolibrary.org/obo/SO_0000550 sequence http://purl.obolibrary.org/obo/SO_0000550 SO:0000550 http://purl.obolibrary.org/obo/SO_0000550 Examples are Nullo-4, Haplo-4 and triplo-4 in Drosophila. http://purl.obolibrary.org/obo/SO_0000550 aneuploid_chromosome http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000551 The recognition sequence necessary for endonuclease cleavage of an RNA transcript that is followed by polyadenylation; consensus=AATAAA. http://purl.obolibrary.org/obo/SO_0000551 poly(A) signal http://purl.obolibrary.org/obo/SO_0000551 polyA signal sequence http://purl.obolibrary.org/obo/SO_0000551 polyadenylation termination signal http://purl.obolibrary.org/obo/SO_0000551 sequence http://purl.obolibrary.org/obo/SO_0000551 SO:0000551 http://purl.obolibrary.org/obo/SO_0000551 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000551 polyA_signal_sequence SO:jh http://purl.obolibrary.org/obo/SO_0000552 A region in the 5' UTR that pairs with the 16S rRNA during formation of the preinitiation complex. wiki http://purl.obolibrary.org/obo/SO_0000552 http://en.wikipedia.org/wiki/Shine-Dalgarno_sequence http://purl.obolibrary.org/obo/SO_0000552 Shine Dalgarno sequence http://purl.obolibrary.org/obo/SO_0000552 Shine-Dalgarno sequence http://purl.obolibrary.org/obo/SO_0000552 five prime ribosome binding site http://purl.obolibrary.org/obo/SO_0000552 sequence http://purl.obolibrary.org/obo/SO_0000552 RBS http://purl.obolibrary.org/obo/SO_0000552 SO:0000552 http://purl.obolibrary.org/obo/SO_0000552 Not found in Eukaryotic sequence. http://purl.obolibrary.org/obo/SO_0000552 Shine_Dalgarno_sequence http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000553 The site on an RNA transcript to which will be added adenine residues by post-transcriptional polyadenylation. The boundary between the UTR and the polyA sequence. http://purl.obolibrary.org/obo/SO_0000553 SO:0001430 http://purl.obolibrary.org/obo/SO_0000553 polyA cleavage site http://purl.obolibrary.org/obo/SO_0000553 polyA junction http://purl.obolibrary.org/obo/SO_0000553 polyA site http://purl.obolibrary.org/obo/SO_0000553 polyA_junction http://purl.obolibrary.org/obo/SO_0000553 sequence http://purl.obolibrary.org/obo/SO_0000553 polyadenylation site http://purl.obolibrary.org/obo/SO_0000553 SO:0000553 http://purl.obolibrary.org/obo/SO_0000553 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000553 polyA_site http://purl.obolibrary.org/obo/SO_0000554 sequence http://purl.obolibrary.org/obo/SO_0000554 SO:0000554 http://purl.obolibrary.org/obo/SO_0000554 assortment_derived_deficiency_plus_duplication http://purl.obolibrary.org/obo/SO_0000554 true http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000555 5' most region of a precursor transcript that is clipped off during processing. http://purl.obolibrary.org/obo/SO_0000555 five prime clip http://purl.obolibrary.org/obo/SO_0000555 sequence http://purl.obolibrary.org/obo/SO_0000555 5' clip http://purl.obolibrary.org/obo/SO_0000555 SO:0000555 http://purl.obolibrary.org/obo/SO_0000555 five_prime_clip http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000556 Recombination signal of an immunoglobulin/T-cell receptor gene, including the 5' D-nonamer (SO:0000497), 5' D-spacer (SO:0000498), and 5' D-heptamer (SO:0000396) in 5' of the D-region of a D-gene, or in 5' of the D-region of DJ-gene. http://purl.obolibrary.org/obo/SO_0000556 5'RS http://purl.obolibrary.org/obo/SO_0000556 five prime D recombination signal sequence http://purl.obolibrary.org/obo/SO_0000556 five prime D-recombination signal sequence http://purl.obolibrary.org/obo/SO_0000556 sequence http://purl.obolibrary.org/obo/SO_0000556 SO:0000556 http://purl.obolibrary.org/obo/SO_0000556 five_prime_D_recombination_signal_sequence http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000557 3'-most region of a precursor transcript that is clipped off during processing. http://purl.obolibrary.org/obo/SO_0000557 3'-clip http://purl.obolibrary.org/obo/SO_0000557 three prime clip http://purl.obolibrary.org/obo/SO_0000557 sequence http://purl.obolibrary.org/obo/SO_0000557 SO:0000557 http://purl.obolibrary.org/obo/SO_0000557 three_prime_clip http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000558 Genomic DNA of immunoglobulin/T-cell receptor gene including more than one C-gene. http://purl.obolibrary.org/obo/SO_0000558 C cluster http://purl.obolibrary.org/obo/SO_0000558 C-CLUSTER http://purl.obolibrary.org/obo/SO_0000558 sequence http://purl.obolibrary.org/obo/SO_0000558 SO:0000558 http://purl.obolibrary.org/obo/SO_0000558 C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000559 Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including more than one D-gene. http://purl.obolibrary.org/obo/SO_0000559 D cluster http://purl.obolibrary.org/obo/SO_0000559 D-CLUSTER http://purl.obolibrary.org/obo/SO_0000559 sequence http://purl.obolibrary.org/obo/SO_0000559 SO:0000559 http://purl.obolibrary.org/obo/SO_0000559 D_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000560 Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one D-gene and one J-gene. http://purl.obolibrary.org/obo/SO_0000560 D J cluster http://purl.obolibrary.org/obo/SO_0000560 D-J-CLUSTER http://purl.obolibrary.org/obo/SO_0000560 sequence http://purl.obolibrary.org/obo/SO_0000560 SO:0000560 http://purl.obolibrary.org/obo/SO_0000560 D_J_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000561 Seven nucleotide recombination site (e.g. CACAGTG), part of V-gene, D-gene or J-gene recombination feature of an immunoglobulin or T-cell receptor gene. http://purl.obolibrary.org/obo/SO_0000561 heptamer of recombination feature of vertebrate immune system gene http://purl.obolibrary.org/obo/SO_0000561 sequence http://purl.obolibrary.org/obo/SO_0000561 HEPTAMER http://purl.obolibrary.org/obo/SO_0000561 SO:0000561 http://purl.obolibrary.org/obo/SO_0000561 heptamer_of_recombination_feature_of_vertebrate_immune_system_gene http://purl.obolibrary.org/obo/SO_0000562 nonamer of recombination feature of vertebrate immune system gene http://purl.obolibrary.org/obo/SO_0000562 sequence http://purl.obolibrary.org/obo/SO_0000562 SO:0000562 http://purl.obolibrary.org/obo/SO_0000562 nonamer_of_recombination_feature_of_vertebrate_immune_system_gene http://purl.obolibrary.org/obo/SO_0000563 vertebrate immune system gene recombination spacer http://purl.obolibrary.org/obo/SO_0000563 sequence http://purl.obolibrary.org/obo/SO_0000563 SO:0000563 http://purl.obolibrary.org/obo/SO_0000563 vertebrate_immune_system_gene_recombination_spacer http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000564 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene, one J-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000564 V DJ J C cluster http://purl.obolibrary.org/obo/SO_0000564 V-(DJ)-J-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000564 sequence http://purl.obolibrary.org/obo/SO_0000564 SO:0000564 http://purl.obolibrary.org/obo/SO_0000564 V_DJ_J_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000565 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene, one J-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000565 V VDJ J C cluster http://purl.obolibrary.org/obo/SO_0000565 V-(VDJ)-J-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000565 sequence http://purl.obolibrary.org/obo/SO_0000565 SO:0000565 http://purl.obolibrary.org/obo/SO_0000565 V_VDJ_J_C_cluster http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000566 Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene, one J-gene and one C-gene. http://purl.obolibrary.org/obo/SO_0000566 V VJ J C cluster http://purl.obolibrary.org/obo/SO_0000566 V-(VJ)-J-C-CLUSTER http://purl.obolibrary.org/obo/SO_0000566 sequence http://purl.obolibrary.org/obo/SO_0000566 SO:0000566 http://purl.obolibrary.org/obo/SO_0000566 V_VJ_J_C_cluster FB:km http://purl.obolibrary.org/obo/SO_0000567 A chromosome may be generated by recombination between two inversions; presumed to have a deficiency or duplication at each end of the inversion. http://purl.obolibrary.org/obo/SO_0000567 inversion derived aneuploid chromosome http://purl.obolibrary.org/obo/SO_0000567 sequence http://purl.obolibrary.org/obo/SO_0000567 SO:0000567 http://purl.obolibrary.org/obo/SO_0000567 inversion_derived_aneuploid_chromosome SO:ke http://purl.obolibrary.org/obo/SO_0000568 An unregulated promoter that allows continuous expression. http://purl.obolibrary.org/obo/SO_0000568 bidirectional promoter http://purl.obolibrary.org/obo/SO_0000568 sequence http://purl.obolibrary.org/obo/SO_0000568 SO:0000568 http://purl.obolibrary.org/obo/SO_0000568 bidirectional_promoter SO:ke http://purl.obolibrary.org/obo/SO_0000569 An attribute of a feature that occurred as the product of a reverse transcriptase mediated event. http://purl.obolibrary.org/obo/SO_0000569 SO:0100042 wiki http://purl.obolibrary.org/obo/SO_0000569 http://en.wikipedia.org/wiki/Retrotransposed http://purl.obolibrary.org/obo/SO_0000569 sequence http://purl.obolibrary.org/obo/SO_0000569 SO:0000569 http://purl.obolibrary.org/obo/SO_0000569 GO:0003964 RNA-directed DNA polymerase activity. http://purl.obolibrary.org/obo/SO_0000569 retrotransposed http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000570 Recombination signal of an immunoglobulin/T-cell receptor gene, including the 3' D-heptamer (SO:0000493), 3' D-spacer, and 3' D-nonamer (SO:0000494) in 3' of the D-region of a D-gene. http://purl.obolibrary.org/obo/SO_0000570 3'D-RS http://purl.obolibrary.org/obo/SO_0000570 three prime D recombination signal sequence http://purl.obolibrary.org/obo/SO_0000570 three_prime_D-recombination_signal_sequence http://purl.obolibrary.org/obo/SO_0000570 sequence http://purl.obolibrary.org/obo/SO_0000570 SO:0000570 http://purl.obolibrary.org/obo/SO_0000570 three_prime_D_recombination_signal_sequence http://purl.obolibrary.org/obo/SO_0000571 miRNA encoding http://purl.obolibrary.org/obo/SO_0000571 sequence http://purl.obolibrary.org/obo/SO_0000571 SO:0000571 http://purl.obolibrary.org/obo/SO_0000571 miRNA_encoding http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000572 Genomic DNA of immunoglobulin/T-cell receptor gene in partially rearranged genomic DNA including D-J-region with 5' UTR and 3' UTR, also designated as D-J-segment. http://purl.obolibrary.org/obo/SO_0000572 D-J-GENE http://purl.obolibrary.org/obo/SO_0000572 DJ gene http://purl.obolibrary.org/obo/SO_0000572 sequence http://purl.obolibrary.org/obo/SO_0000572 SO:0000572 http://purl.obolibrary.org/obo/SO_0000572 DJ_gene_segment http://purl.obolibrary.org/obo/SO_0000573 rRNA encoding http://purl.obolibrary.org/obo/SO_0000573 sequence http://purl.obolibrary.org/obo/SO_0000573 SO:0000573 http://purl.obolibrary.org/obo/SO_0000573 rRNA_encoding http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000574 Rearranged genomic DNA of immunoglobulin/T-cell receptor gene including L-part1, V-intron and V-D-J-exon, with the 5'UTR (SO:0000204) and 3'UTR (SO:0000205). http://purl.obolibrary.org/obo/SO_0000574 V-D-J-GENE http://purl.obolibrary.org/obo/SO_0000574 VDJ gene http://purl.obolibrary.org/obo/SO_0000574 sequence http://purl.obolibrary.org/obo/SO_0000574 SO:0000574 http://purl.obolibrary.org/obo/SO_0000574 VDJ_gene_segment http://purl.obolibrary.org/obo/SO_0000575 scRNA encoding http://purl.obolibrary.org/obo/SO_0000575 sequence http://purl.obolibrary.org/obo/SO_0000575 SO:0000575 http://purl.obolibrary.org/obo/SO_0000575 scRNA_encoding http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7# http://purl.obolibrary.org/obo/SO_0000576 Rearranged genomic DNA of immunoglobulin/T-cell receptor gene including L-part1, V-intron and V-J-exon, with the 5'UTR (SO:0000204) and 3'UTR (SO:0000205). http://purl.obolibrary.org/obo/SO_0000576 V-J-GENE http://purl.obolibrary.org/obo/SO_0000576 VJ gene http://purl.obolibrary.org/obo/SO_0000576 sequence http://purl.obolibrary.org/obo/SO_0000576 SO:0000576 http://purl.obolibrary.org/obo/SO_0000576 VJ_gene_segment SO:ke http://purl.obolibrary.org/obo/SO_0000577 A region of chromosome where the spindle fibers attach during mitosis and meiosis. wiki http://purl.obolibrary.org/obo/SO_0000577 http://en.wikipedia.org/wiki/Centromere http://purl.obolibrary.org/obo/SO_0000577 sequence http://purl.obolibrary.org/obo/SO_0000577 SO:0000577 http://purl.obolibrary.org/obo/SO_0000577 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000577 centromere http://purl.obolibrary.org/obo/SO_0000578 snoRNA encoding http://purl.obolibrary.org/obo/SO_0000578 sequence http://purl.obolibrary.org/obo/SO_0000578 SO:0000578 http://purl.obolibrary.org/obo/SO_0000578 snoRNA_encoding SO:ma http://purl.obolibrary.org/obo/SO_0000579 A locatable feature on a transcript that is edited. http://purl.obolibrary.org/obo/SO_0000579 edited transcript feature http://purl.obolibrary.org/obo/SO_0000579 sequence http://purl.obolibrary.org/obo/SO_0000579 SO:0000579 http://purl.obolibrary.org/obo/SO_0000579 edited_transcript_feature SO:ke http://purl.obolibrary.org/obo/SO_0000580 A primary transcript encoding a methylation guide small nucleolar RNA. http://purl.obolibrary.org/obo/SO_0000580 methylation guide snoRNA primary transcript http://purl.obolibrary.org/obo/SO_0000580 sequence http://purl.obolibrary.org/obo/SO_0000580 SO:0000580 http://purl.obolibrary.org/obo/SO_0000580 methylation_guide_snoRNA_primary_transcript http://seqcore.brcf.med.umich.edu/doc/educ/dnapr/mbglossary/mbgloss.html http://purl.obolibrary.org/obo/SO_0000581 A structure consisting of a 7-methylguanosine in 5'-5' triphosphate linkage with the first nucleotide of an mRNA. It is added post-transcriptionally, and is not encoded in the DNA. wiki http://purl.obolibrary.org/obo/SO_0000581 http://en.wikipedia.org/wiki/5%27_cap http://purl.obolibrary.org/obo/SO_0000581 sequence http://purl.obolibrary.org/obo/SO_0000581 SO:0000581 http://purl.obolibrary.org/obo/SO_0000581 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000581 cap SO:ke http://purl.obolibrary.org/obo/SO_0000582 A primary transcript encoding an rRNA cleavage snoRNA. http://purl.obolibrary.org/obo/SO_0000582 rRNA cleavage snoRNA primary transcript http://purl.obolibrary.org/obo/SO_0000582 sequence http://purl.obolibrary.org/obo/SO_0000582 SO:0000582 http://purl.obolibrary.org/obo/SO_0000582 rRNA_cleavage_snoRNA_primary_transcript http://dna.kdna.ucla.edu/rna/index.aspx http://purl.obolibrary.org/obo/SO_0000583 The region of a transcript that will be edited. http://purl.obolibrary.org/obo/SO_0000583 pre edited region http://purl.obolibrary.org/obo/SO_0000583 pre-edited region http://purl.obolibrary.org/obo/SO_0000583 sequence http://purl.obolibrary.org/obo/SO_0000583 SO:0000583 http://purl.obolibrary.org/obo/SO_0000583 pre_edited_region http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00023 http://purl.obolibrary.org/obo/SO_0000584 A tmRNA liberates a mRNA from a stalled ribosome. To accomplish this part of the tmRNA is used as a reading frame that ends in a translation stop signal. The broken mRNA is replaced in the ribosome by the tmRNA and translation of the tmRNA leads to addition of a proteolysis tag to the incomplete protein enabling recognition by a protease. Recently a number of permuted tmRNAs genes have been found encoded in two parts. TmRNAs have been identified in eubacteria and some chloroplasts but are absent from archeal and Eukaryote nuclear genomes. wiki http://purl.obolibrary.org/obo/SO_0000584 http://en.wikipedia.org/wiki/TmRNA http://purl.obolibrary.org/obo/SO_0000584 sequence http://purl.obolibrary.org/obo/SO_0000584 10Sa RNA http://purl.obolibrary.org/obo/SO_0000584 ssrA http://purl.obolibrary.org/obo/SO_0000584 SO:0000584 http://purl.obolibrary.org/obo/SO_0000584 tmRNA http://purl.obolibrary.org/obo/SO_0000585 C/D box snoRNA encoding http://purl.obolibrary.org/obo/SO_0000585 sequence http://purl.obolibrary.org/obo/SO_0000585 SO:0000585 http://purl.obolibrary.org/obo/SO_0000585 C_D_box_snoRNA_encoding SO:ke http://purl.obolibrary.org/obo/SO_0000586 A primary transcript encoding a tmRNA (SO:0000584). http://purl.obolibrary.org/obo/SO_0000586 tmRNA primary transcript http://purl.obolibrary.org/obo/SO_0000586 sequence http://purl.obolibrary.org/obo/SO_0000586 10Sa RNA primary transcript http://purl.obolibrary.org/obo/SO_0000586 ssrA RNA primary transcript http://purl.obolibrary.org/obo/SO_0000586 SO:0000586 http://purl.obolibrary.org/obo/SO_0000586 tmRNA_primary_transcript http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00028 http://purl.obolibrary.org/obo/SO_0000587 Group I catalytic introns are large self-splicing ribozymes. They catalyze their own excision from mRNA, tRNA and rRNA precursors in a wide range of organisms. The core secondary structure consists of 9 paired regions (P1-P9). These fold to essentially two domains, the P4-P6 domain (formed from the stacking of P5, P4, P6 and P6a helices) and the P3-P9 domain (formed from the P8, P3, P7 and P9 helices). Group I catalytic introns often have long ORFs inserted in loop regions. wiki http://purl.obolibrary.org/obo/SO_0000587 http://en.wikipedia.org/wiki/Group_I_intron http://purl.obolibrary.org/obo/SO_0000587 group I intron http://purl.obolibrary.org/obo/SO_0000587 sequence http://purl.obolibrary.org/obo/SO_0000587 SO:0000587 http://purl.obolibrary.org/obo/SO_0000587 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000587 GO:0000372. http://purl.obolibrary.org/obo/SO_0000587 group_I_intron SO:ke http://purl.obolibrary.org/obo/SO_0000588 A self spliced intron. http://purl.obolibrary.org/obo/SO_0000588 autocatalytically spliced intron http://purl.obolibrary.org/obo/SO_0000588 sequence http://purl.obolibrary.org/obo/SO_0000588 SO:0000588 http://purl.obolibrary.org/obo/SO_0000588 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000588 autocatalytically_spliced_intron SO:ke http://purl.obolibrary.org/obo/SO_0000589 A primary transcript encoding a signal recognition particle RNA. http://purl.obolibrary.org/obo/SO_0000589 SRP RNA primary transcript http://purl.obolibrary.org/obo/SO_0000589 sequence http://purl.obolibrary.org/obo/SO_0000589 SO:0000589 http://purl.obolibrary.org/obo/SO_0000589 SRP_RNA_primary_transcript http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00017 http://purl.obolibrary.org/obo/SO_0000590 The signal recognition particle (SRP) is a universally conserved ribonucleoprotein. It is involved in the co-translational targeting of proteins to membranes. The eukaryotic SRP consists of a 300-nucleotide 7S RNA and six proteins: SRPs 72, 68, 54, 19, 14, and 9. Archaeal SRP consists of a 7S RNA and homologues of the eukaryotic SRP19 and SRP54 proteins. In most eubacteria, the SRP consists of a 4.5S RNA and the Ffh protein (a homologue of the eukaryotic SRP54 protein). Eukaryotic and archaeal 7S RNAs have very similar secondary structures, with eight helical elements. These fold into the Alu and S domains, separated by a long linker region. Eubacterial SRP is generally a simpler structure, with the M domain of Ffh bound to a region of the 4.5S RNA that corresponds to helix 8 of the eukaryotic and archaeal SRP S domain. Some Gram-positive bacteria (e.g. Bacillus subtilis), however, have a larger SRP RNA that also has an Alu domain. The Alu domain is thought to mediate the peptide chain elongation retardation function of the SRP. The universally conserved helix which interacts with the SRP54/Ffh M domain mediates signal sequence recognition. In eukaryotes and archaea, the SRP19-helix 6 complex is thought to be involved in SRP assembly and stabilizes helix 8 for SRP54 binding. http://purl.obolibrary.org/obo/SO_0000590 SRP RNA http://purl.obolibrary.org/obo/SO_0000590 sequence http://purl.obolibrary.org/obo/SO_0000590 7S RNA http://purl.obolibrary.org/obo/SO_0000590 signal recognition particle RNA http://purl.obolibrary.org/obo/SO_0000590 SO:0000590 http://purl.obolibrary.org/obo/SO_0000590 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000590 SRP_RNA RSC:cb http://purl.obolibrary.org/obo/SO_0000591 A tertiary structure in RNA where nucleotides in a loop form base pairs with a region of RNA downstream of the loop. wiki http://purl.obolibrary.org/obo/SO_0000591 http://en.wikipedia.org/wiki/Pseudoknot http://purl.obolibrary.org/obo/SO_0000591 sequence http://purl.obolibrary.org/obo/SO_0000591 SO:0000591 http://purl.obolibrary.org/obo/SO_0000591 pseudoknot http://www.ncbi.nlm.nih.gov:80/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=10334330&dopt=Abstract http://purl.obolibrary.org/obo/SO_0000592 A pseudoknot which contains two stems and at least two loops. http://purl.obolibrary.org/obo/SO_0000592 H pseudoknot http://purl.obolibrary.org/obo/SO_0000592 H-pseudoknot http://purl.obolibrary.org/obo/SO_0000592 H-type pseudoknot http://purl.obolibrary.org/obo/SO_0000592 classical pseudoknot http://purl.obolibrary.org/obo/SO_0000592 hairpin-type pseudoknot http://purl.obolibrary.org/obo/SO_0000592 sequence http://purl.obolibrary.org/obo/SO_0000592 SO:0000592 http://purl.obolibrary.org/obo/SO_0000592 H_pseudoknot http://www.bio.umass.edu/biochem/rna-sequence/Yeast_snoRNA_Database/snoRNA_DataBase.html http://purl.obolibrary.org/obo/SO_0000593 Most box C/D snoRNAs also contain long (>10 nt) sequences complementary to rRNA. Boxes C and D, as well as boxes C' and D', are usually located in close proximity, and form a structure known as the box C/D motif. This motif is important for snoRNA stability, processing, nucleolar targeting and function. A small number of box C/D snoRNAs are involved in rRNA processing; most, however, are known or predicted to serve as guide RNAs in ribose methylation of rRNA. Targeting involves direct base pairing of the snoRNA at the rRNA site to be modified and selection of a rRNA nucleotide a fixed distance from box D or D'. http://purl.obolibrary.org/obo/SO_0000593 C D box snoRNA http://purl.obolibrary.org/obo/SO_0000593 C/D box snoRNA http://purl.obolibrary.org/obo/SO_0000593 box C/D snoRNA http://purl.obolibrary.org/obo/SO_0000593 sequence http://purl.obolibrary.org/obo/SO_0000593 SO:0000593 http://purl.obolibrary.org/obo/SO_0000593 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000593 C_D_box_snoRNA http://www.bio.umass.edu/biochem/rna-sequence/Yeast_snoRNA_Database/snoRNA_DataBase.html http://purl.obolibrary.org/obo/SO_0000594 Members of the box H/ACA family contain an ACA triplet, exactly 3 nt upstream from the 3' end and an H-box in a hinge region that links two structurally similar functional domains of the molecule. Both boxes are important for snoRNA biosynthesis and function. A few box H/ACA snoRNAs are involved in rRNA processing; most others are known or predicted to participate in selection of uridine nucleosides in rRNA to be converted to pseudouridines. Site selection is mediated by direct base pairing of the snoRNA with rRNA through one or both targeting domains. http://purl.obolibrary.org/obo/SO_0000594 H ACA box snoRNA http://purl.obolibrary.org/obo/SO_0000594 H/ACA box snoRNA http://purl.obolibrary.org/obo/SO_0000594 box H/ACA snoRNA http://purl.obolibrary.org/obo/SO_0000594 sequence http://purl.obolibrary.org/obo/SO_0000594 SO:0000594 http://purl.obolibrary.org/obo/SO_0000594 H_ACA_box_snoRNA SO:ke http://purl.obolibrary.org/obo/SO_0000595 A primary transcript encoding a small nucleolar RNA of the box C/D family. http://purl.obolibrary.org/obo/SO_0000595 C/D box snoRNA primary transcript http://purl.obolibrary.org/obo/SO_0000595 sequence http://purl.obolibrary.org/obo/SO_0000595 SO:0000595 http://purl.obolibrary.org/obo/SO_0000595 C_D_box_snoRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000596 A primary transcript encoding a small nucleolar RNA of the box H/ACA family. http://purl.obolibrary.org/obo/SO_0000596 H ACA box snoRNA primary transcript http://purl.obolibrary.org/obo/SO_0000596 sequence http://purl.obolibrary.org/obo/SO_0000596 SO:0000596 http://purl.obolibrary.org/obo/SO_0000596 H_ACA_box_snoRNA_primary_transcript http://www.rna.ucla.edu/index.html http://purl.obolibrary.org/obo/SO_0000597 The insertion and deletion of uridine (U) residues, usually within coding regions of mRNA transcripts of cryptogenes in the mitochondrial genome of kinetoplastid protozoa. http://purl.obolibrary.org/obo/SO_0000597 sequence http://purl.obolibrary.org/obo/SO_0000597 SO:0000597 http://purl.obolibrary.org/obo/SO_0000597 transcript_edited_by_U_insertion/deletion http://purl.obolibrary.org/obo/SO_0000597 true http://purl.obolibrary.org/obo/SO_0000598 sequence http://purl.obolibrary.org/obo/SO_0000598 transcript_edited_by_C-insertion_and_dinucleotide_insertion http://purl.obolibrary.org/obo/SO_0000598 SO:0000598 http://purl.obolibrary.org/obo/SO_0000598 edited_by_C_insertion_and_dinucleotide_insertion http://purl.obolibrary.org/obo/SO_0000598 true http://purl.obolibrary.org/obo/SO_0000599 sequence http://purl.obolibrary.org/obo/SO_0000599 SO:0000599 http://purl.obolibrary.org/obo/SO_0000599 edited_by_C_to_U_substitution http://purl.obolibrary.org/obo/SO_0000599 true http://purl.obolibrary.org/obo/SO_0000600 sequence http://purl.obolibrary.org/obo/SO_0000600 SO:0000600 http://purl.obolibrary.org/obo/SO_0000600 edited_by_A_to_I_substitution http://purl.obolibrary.org/obo/SO_0000600 true http://purl.obolibrary.org/obo/SO_0000601 sequence http://purl.obolibrary.org/obo/SO_0000601 SO:0000601 http://purl.obolibrary.org/obo/SO_0000601 edited_by_G_addition http://purl.obolibrary.org/obo/SO_0000601 true http://www.rna.ucla.edu/index.html http://purl.obolibrary.org/obo/SO_0000602 A short 3'-uridylated RNA that can form a duplex (except for its post-transcriptionally added oligo_U tail (SO:0000609)) with a stretch of mature edited mRNA. wiki http://purl.obolibrary.org/obo/SO_0000602 http://en.wikipedia.org/wiki/Guide_RNA http://purl.obolibrary.org/obo/SO_0000602 gRNA http://purl.obolibrary.org/obo/SO_0000602 guide RNA http://purl.obolibrary.org/obo/SO_0000602 sequence http://purl.obolibrary.org/obo/SO_0000602 SO:0000602 http://purl.obolibrary.org/obo/SO_0000602 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000602 guide_RNA http://www.sanger.ac.uk/Software/Rfam/browse/index.shtml http://purl.obolibrary.org/obo/SO_0000603 Group II introns are found in rRNA, tRNA and mRNA of organelles in fungi, plants and protists, and also in mRNA in bacteria. They are large self-splicing ribozymes and have 6 structural domains (usually designated dI to dVI). A subset of group II introns also encode essential splicing proteins in intronic ORFs. The length of these introns can therefore be up to 3kb. Splicing occurs in almost identical fashion to nuclear pre-mRNA splicing with two transesterification steps. The 2' hydroxyl of a bulged adenosine in domain VI attacks the 5' splice site, followed by nucleophilic attack on the 3' splice site by the 3' OH of the upstream exon. Protein machinery is required for splicing in vivo, and long range intron to intron and intron-exon interactions are important for splice site positioning. Group II introns are further sub-classified into groups IIA and IIB which differ in splice site consensus, distance of bulged A from 3' splice site, some tertiary interactions, and intronic ORF phylogeny. wiki http://purl.obolibrary.org/obo/SO_0000603 http://en.wikipedia.org/wiki/Group_II_intron http://purl.obolibrary.org/obo/SO_0000603 group II intron http://purl.obolibrary.org/obo/SO_0000603 sequence http://purl.obolibrary.org/obo/SO_0000603 SO:0000603 http://purl.obolibrary.org/obo/SO_0000603 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000603 GO:0000373. http://purl.obolibrary.org/obo/SO_0000603 group_II_intron http://dna.kdna.ucla.edu/rna/index.aspx http://purl.obolibrary.org/obo/SO_0000604 Edited mRNA sequence mediated by a single guide RNA (SO:0000602). http://purl.obolibrary.org/obo/SO_0000604 editing block http://purl.obolibrary.org/obo/SO_0000604 sequence http://purl.obolibrary.org/obo/SO_0000604 SO:0000604 http://purl.obolibrary.org/obo/SO_0000604 editing_block SO:cjm http://purl.obolibrary.org/obo/SO_0000605 A region containing or overlapping no genes that is bounded on either side by a gene, or bounded by a gene and the end of the chromosome. wiki http://purl.obolibrary.org/obo/SO_0000605 http://en.wikipedia.org/wiki/Intergenic_region http://purl.obolibrary.org/obo/SO_0000605 intergenic region http://purl.obolibrary.org/obo/SO_0000605 sequence http://purl.obolibrary.org/obo/SO_0000605 SO:0000605 http://purl.obolibrary.org/obo/SO_0000605 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000605 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000605 intergenic_region http://dna.kdna.ucla.edu/rna/index.aspx http://purl.obolibrary.org/obo/SO_0000606 Edited mRNA sequence mediated by two or more overlapping guide RNAs (SO:0000602). http://purl.obolibrary.org/obo/SO_0000606 editing domain http://purl.obolibrary.org/obo/SO_0000606 sequence http://purl.obolibrary.org/obo/SO_0000606 SO:0000606 http://purl.obolibrary.org/obo/SO_0000606 editing_domain http://dna.kdna.ucla.edu/rna/index.aspx http://purl.obolibrary.org/obo/SO_0000607 The region of an edited transcript that will not be edited. http://purl.obolibrary.org/obo/SO_0000607 unedited region http://purl.obolibrary.org/obo/SO_0000607 sequence http://purl.obolibrary.org/obo/SO_0000607 SO:0000607 http://purl.obolibrary.org/obo/SO_0000607 unedited_region http://purl.obolibrary.org/obo/SO_0000608 H ACA box snoRNA encoding http://purl.obolibrary.org/obo/SO_0000608 sequence http://purl.obolibrary.org/obo/SO_0000608 SO:0000608 http://purl.obolibrary.org/obo/SO_0000608 H_ACA_box_snoRNA_encoding http://www.rna.ucla.edu/ http://purl.obolibrary.org/obo/SO_0000609 The string of non-encoded U's at the 3' end of a guide RNA (SO:0000602). http://purl.obolibrary.org/obo/SO_0000609 oligo U tail http://purl.obolibrary.org/obo/SO_0000609 sequence http://purl.obolibrary.org/obo/SO_0000609 SO:0000609 http://purl.obolibrary.org/obo/SO_0000609 oligo_U_tail SO:ke http://purl.obolibrary.org/obo/SO_0000610 Sequence of about 100 nucleotides of A added to the 3' end of most eukaryotic mRNAs. http://purl.obolibrary.org/obo/SO_0000610 polyA sequence http://purl.obolibrary.org/obo/SO_0000610 sequence http://purl.obolibrary.org/obo/SO_0000610 SO:0000610 http://purl.obolibrary.org/obo/SO_0000610 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000610 polyA_sequence SO:ke http://purl.obolibrary.org/obo/SO_0000611 A pyrimidine rich sequence near the 3' end of an intron to which the 5'end becomes covalently bound during nuclear splicing. The resulting structure resembles a lariat. http://purl.obolibrary.org/obo/SO_0000611 branch point http://purl.obolibrary.org/obo/SO_0000611 branch site http://purl.obolibrary.org/obo/SO_0000611 branch_point http://purl.obolibrary.org/obo/SO_0000611 sequence http://purl.obolibrary.org/obo/SO_0000611 SO:0000611 http://purl.obolibrary.org/obo/SO_0000611 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000611 branch_site http://nar.oupjournals.org/cgi/content/full/25/4/888 http://purl.obolibrary.org/obo/SO_0000612 The polypyrimidine tract is one of the cis-acting sequence elements directing intron removal in pre-mRNA splicing. wiki http://purl.obolibrary.org/obo/SO_0000612 http://en.wikipedia.org/wiki/Polypyrimidine_tract http://purl.obolibrary.org/obo/SO_0000612 polypyrimidine tract http://purl.obolibrary.org/obo/SO_0000612 sequence http://purl.obolibrary.org/obo/SO_0000612 SO:0000612 http://purl.obolibrary.org/obo/SO_0000612 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000612 polypyrimidine_tract SO:ke http://purl.obolibrary.org/obo/SO_0000613 A DNA sequence to which bacterial RNA polymerase binds, to begin transcription. http://purl.obolibrary.org/obo/SO_0000613 bacterial RNApol promoter http://purl.obolibrary.org/obo/SO_0000613 sequence http://purl.obolibrary.org/obo/SO_0000613 SO:0000613 http://purl.obolibrary.org/obo/SO_0000613 bacterial_RNApol_promoter SO:ke http://purl.obolibrary.org/obo/SO_0000614 A terminator signal for bacterial transcription. http://purl.obolibrary.org/obo/SO_0000614 bacterial terminator http://purl.obolibrary.org/obo/SO_0000614 sequence http://purl.obolibrary.org/obo/SO_0000614 SO:0000614 http://purl.obolibrary.org/obo/SO_0000614 bacterial_terminator SO:ke http://purl.obolibrary.org/obo/SO_0000615 A terminator signal for RNA polymerase III transcription. http://purl.obolibrary.org/obo/SO_0000615 terminator of type 2 RNApol III promoter http://purl.obolibrary.org/obo/SO_0000615 sequence http://purl.obolibrary.org/obo/SO_0000615 SO:0000615 http://purl.obolibrary.org/obo/SO_0000615 terminator_of_type_2_RNApol_III_promoter SO:ke http://purl.obolibrary.org/obo/SO_0000616 The base where transcription ends. http://purl.obolibrary.org/obo/SO_0000616 transcription end site http://purl.obolibrary.org/obo/SO_0000616 sequence http://purl.obolibrary.org/obo/SO_0000616 SO:0000616 http://purl.obolibrary.org/obo/SO_0000616 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000616 transcription_end_site http://purl.obolibrary.org/obo/SO_0000617 RNApol III promoter type 1 http://purl.obolibrary.org/obo/SO_0000617 sequence http://purl.obolibrary.org/obo/SO_0000617 SO:0000617 http://purl.obolibrary.org/obo/SO_0000617 RNApol_III_promoter_type_1 http://purl.obolibrary.org/obo/SO_0000618 RNApol III promoter type 2 http://purl.obolibrary.org/obo/SO_0000618 sequence http://purl.obolibrary.org/obo/SO_0000618 tRNA promoter http://purl.obolibrary.org/obo/SO_0000618 SO:0000618 http://purl.obolibrary.org/obo/SO_0000618 RNApol_III_promoter_type_2 SO:ke http://purl.obolibrary.org/obo/SO_0000619 A variably distant linear promoter region recognized by TFIIIC, with consensus sequence TGGCnnAGTGG. wiki http://purl.obolibrary.org/obo/SO_0000619 http://en.wikipedia.org/wiki/A-box http://purl.obolibrary.org/obo/SO_0000619 A-box http://purl.obolibrary.org/obo/SO_0000619 sequence http://purl.obolibrary.org/obo/SO_0000619 SO:0000619 http://purl.obolibrary.org/obo/SO_0000619 Binds TFIIIC. http://purl.obolibrary.org/obo/SO_0000619 A_box SO:ke http://purl.obolibrary.org/obo/SO_0000620 A variably distant linear promoter region recognized by TFIIIC, with consensus sequence AGGTTCCAnnCC. http://purl.obolibrary.org/obo/SO_0000620 B-box http://purl.obolibrary.org/obo/SO_0000620 sequence http://purl.obolibrary.org/obo/SO_0000620 SO:0000620 http://purl.obolibrary.org/obo/SO_0000620 Binds TFIIIC. http://purl.obolibrary.org/obo/SO_0000620 B_box http://purl.obolibrary.org/obo/SO_0000621 RNApol III promoter type 3 http://purl.obolibrary.org/obo/SO_0000621 sequence http://purl.obolibrary.org/obo/SO_0000621 SO:0000621 http://purl.obolibrary.org/obo/SO_0000621 RNApol_III_promoter_type_3 SO:ke http://purl.obolibrary.org/obo/SO_0000622 An RNA polymerase III type 1 promoter with consensus sequence CAnnCCn. http://purl.obolibrary.org/obo/SO_0000622 C-box http://purl.obolibrary.org/obo/SO_0000622 sequence http://purl.obolibrary.org/obo/SO_0000622 SO:0000622 http://purl.obolibrary.org/obo/SO_0000622 C_box http://purl.obolibrary.org/obo/SO_0000623 snRNA encoding http://purl.obolibrary.org/obo/SO_0000623 sequence http://purl.obolibrary.org/obo/SO_0000623 SO:0000623 http://purl.obolibrary.org/obo/SO_0000623 snRNA_encoding SO:ma http://purl.obolibrary.org/obo/SO_0000624 A specific structure at the end of a linear chromosome, required for the integrity and maintenance of the end. wiki http://purl.obolibrary.org/obo/SO_0000624 http://en.wikipedia.org/wiki/Telomere http://purl.obolibrary.org/obo/SO_0000624 telomeric DNA http://purl.obolibrary.org/obo/SO_0000624 telomeric sequence http://purl.obolibrary.org/obo/SO_0000624 sequence http://purl.obolibrary.org/obo/SO_0000624 SO:0000624 http://purl.obolibrary.org/obo/SO_0000624 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000624 telomere SO:ke http://purl.obolibrary.org/obo/SO_0000625 A regulatory region which upon binding of transcription factors, suppress the transcription of the gene or genes they control. wiki http://purl.obolibrary.org/obo/SO_0000625 http://en.wikipedia.org/wiki/Silencer_(DNA) http://purl.obolibrary.org/obo/SO_0000625 sequence http://purl.obolibrary.org/obo/SO_0000625 SO:0000625 http://purl.obolibrary.org/obo/SO_0000625 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000625 silencer http://purl.obolibrary.org/obo/SO_0000626 chromosomal regulatory element http://purl.obolibrary.org/obo/SO_0000626 sequence http://purl.obolibrary.org/obo/SO_0000626 SO:0000626 http://purl.obolibrary.org/obo/SO_0000626 chromosomal_regulatory_element SO:regcreative http://purl.obolibrary.org/obo/SO_0000627 A transcriptional cis regulatory region that when located between a CM and a gene's promoter prevents the CRM from modulating that genes expression. wiki http://purl.obolibrary.org/obo/SO_0000627 http://en.wikipedia.org/wiki/Insulator_(genetics) http://purl.obolibrary.org/obo/SO_0000627 insulator element http://purl.obolibrary.org/obo/SO_0000627 sequence http://purl.obolibrary.org/obo/SO_0000627 SO:0000627 http://purl.obolibrary.org/obo/SO_0000627 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000627 insulator http://purl.obolibrary.org/obo/SO_0000628 chromosomal structural element http://purl.obolibrary.org/obo/SO_0000628 sequence http://purl.obolibrary.org/obo/SO_0000628 SO:0000628 http://purl.obolibrary.org/obo/SO_0000628 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000628 chromosomal_structural_element http://purl.obolibrary.org/obo/SO_0000629 five prime open reading frame http://purl.obolibrary.org/obo/SO_0000629 sequence http://purl.obolibrary.org/obo/SO_0000629 SO:0000629 http://purl.obolibrary.org/obo/SO_0000629 five_prime_open_reading_frame SO:ke http://purl.obolibrary.org/obo/SO_0000630 A start codon upstream of the ORF. http://purl.obolibrary.org/obo/SO_0000630 upstream AUG codon http://purl.obolibrary.org/obo/SO_0000630 sequence http://purl.obolibrary.org/obo/SO_0000630 SO:0000630 http://purl.obolibrary.org/obo/SO_0000630 upstream_AUG_codon SO:ke http://purl.obolibrary.org/obo/SO_0000631 A primary transcript encoding for more than one gene product. http://purl.obolibrary.org/obo/SO_0000631 polycistronic primary transcript http://purl.obolibrary.org/obo/SO_0000631 sequence http://purl.obolibrary.org/obo/SO_0000631 SO:0000631 http://purl.obolibrary.org/obo/SO_0000631 polycistronic_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000632 A primary transcript encoding for one gene product. http://purl.obolibrary.org/obo/SO_0000632 monocistronic primary transcript http://purl.obolibrary.org/obo/SO_0000632 sequence http://purl.obolibrary.org/obo/SO_0000632 SO:0000632 http://purl.obolibrary.org/obo/SO_0000632 monocistronic_primary_transcript SO:rd http://purl.obolibrary.org/obo/SO_0000633 An mRNA with either a single protein product, or for which the regions encoding all its protein products overlap. wiki http://purl.obolibrary.org/obo/SO_0000633 http://en.wikipedia.org/wiki/Monocistronic_mRNA http://purl.obolibrary.org/obo/SO_0000633 monocistronic mRNA http://purl.obolibrary.org/obo/SO_0000633 monocistronic processed transcript http://purl.obolibrary.org/obo/SO_0000633 sequence http://purl.obolibrary.org/obo/SO_0000633 SO:0000633 http://purl.obolibrary.org/obo/SO_0000633 monocistronic_mRNA SO:rd http://purl.obolibrary.org/obo/SO_0000634 An mRNA that encodes multiple proteins from at least two non-overlapping regions. wiki http://purl.obolibrary.org/obo/SO_0000634 http://en.wikipedia.org/wiki/Polycistronic_mRNA http://purl.obolibrary.org/obo/SO_0000634 polycistronic mRNA http://purl.obolibrary.org/obo/SO_0000634 sequence http://purl.obolibrary.org/obo/SO_0000634 polycistronic processed transcript http://purl.obolibrary.org/obo/SO_0000634 SO:0000634 http://purl.obolibrary.org/obo/SO_0000634 polycistronic_mRNA SO:ke http://purl.obolibrary.org/obo/SO_0000635 A primary transcript that donates the spliced leader to other mRNA. http://purl.obolibrary.org/obo/SO_0000635 mini exon donor RNA http://purl.obolibrary.org/obo/SO_0000635 mini-exon donor RNA http://purl.obolibrary.org/obo/SO_0000635 sequence http://purl.obolibrary.org/obo/SO_0000635 SO:0000635 http://purl.obolibrary.org/obo/SO_0000635 mini_exon_donor_RNA http://purl.obolibrary.org/obo/SO_0000636 spliced leader RNA http://purl.obolibrary.org/obo/SO_0000636 sequence http://purl.obolibrary.org/obo/SO_0000636 mini-exon http://purl.obolibrary.org/obo/SO_0000636 SO:0000636 http://purl.obolibrary.org/obo/SO_0000636 spliced_leader_RNA SO:xp http://purl.obolibrary.org/obo/SO_0000637 A plasmid that is engineered. http://purl.obolibrary.org/obo/SO_0000637 engineered plasmid http://purl.obolibrary.org/obo/SO_0000637 sequence http://purl.obolibrary.org/obo/SO_0000637 engineered plasmid gene http://purl.obolibrary.org/obo/SO_0000637 SO:0000637 http://purl.obolibrary.org/obo/SO_0000637 engineered_plasmid http://oregonstate.edu/instruction/bb492/general/glossary.html http://purl.obolibrary.org/obo/SO_0000638 Part of an rRNA transcription unit that is transcribed but discarded during maturation, not giving rise to any part of rRNA. http://purl.obolibrary.org/obo/SO_0000638 transcribed spacer region http://purl.obolibrary.org/obo/SO_0000638 sequence http://purl.obolibrary.org/obo/SO_0000638 SO:0000638 http://purl.obolibrary.org/obo/SO_0000638 transcribed_spacer_region SO:ke http://purl.obolibrary.org/obo/SO_0000639 Non-coding regions of DNA sequence that separate genes coding for the 28S, 5.8S, and 18S ribosomal RNAs. http://purl.obolibrary.org/obo/SO_0000639 internal transcribed spacer region http://purl.obolibrary.org/obo/SO_0000639 sequence http://purl.obolibrary.org/obo/SO_0000639 SO:0000639 http://purl.obolibrary.org/obo/SO_0000639 internal_transcribed_spacer_region SO:ke http://purl.obolibrary.org/obo/SO_0000640 Non-coding regions of DNA that precede the sequence that codes for the ribosomal RNA. http://purl.obolibrary.org/obo/SO_0000640 external transcribed spacer region http://purl.obolibrary.org/obo/SO_0000640 sequence http://purl.obolibrary.org/obo/SO_0000640 SO:0000640 http://purl.obolibrary.org/obo/SO_0000640 external_transcribed_spacer_region http://purl.obolibrary.org/obo/SO_0000641 tetranucleotide repeat microsatellite feature http://purl.obolibrary.org/obo/SO_0000641 sequence http://purl.obolibrary.org/obo/SO_0000641 SO:0000641 http://purl.obolibrary.org/obo/SO_0000641 tetranucleotide_repeat_microsatellite_feature http://purl.obolibrary.org/obo/SO_0000642 SRP RNA encoding http://purl.obolibrary.org/obo/SO_0000642 sequence http://purl.obolibrary.org/obo/SO_0000642 SO:0000642 http://purl.obolibrary.org/obo/SO_0000642 SRP_RNA_encoding http://www.informatics.jax.org/silver/glossary.shtml http://purl.obolibrary.org/obo/SO_0000643 A repeat region containing tandemly repeated sequences having a unit length of 10 to 40 bp. wiki http://purl.obolibrary.org/obo/SO_0000643 http://en.wikipedia.org/wiki/Minisatellite http://purl.obolibrary.org/obo/SO_0000643 sequence http://purl.obolibrary.org/obo/SO_0000643 SO:0000643 http://purl.obolibrary.org/obo/SO_0000643 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000643 minisatellite SO:ke http://purl.obolibrary.org/obo/SO_0000644 Antisense RNA is RNA that is transcribed from the coding, rather than the template, strand of DNA. It is therefore complementary to mRNA. wiki http://purl.obolibrary.org/obo/SO_0000644 http://en.wikipedia.org/wiki/Antisense_RNA http://purl.obolibrary.org/obo/SO_0000644 antisense RNA http://purl.obolibrary.org/obo/SO_0000644 sequence http://purl.obolibrary.org/obo/SO_0000644 SO:0000644 http://purl.obolibrary.org/obo/SO_0000644 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000644 antisense_RNA SO:ke http://purl.obolibrary.org/obo/SO_0000645 The reverse complement of the primary transcript. http://purl.obolibrary.org/obo/SO_0000645 antisense primary transcript http://purl.obolibrary.org/obo/SO_0000645 sequence http://purl.obolibrary.org/obo/SO_0000645 SO:0000645 http://purl.obolibrary.org/obo/SO_0000645 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000645 antisense_primary_transcript PMID:12592000 http://purl.obolibrary.org/obo/SO_0000646 A small RNA molecule that is the product of a longer exogenous or endogenous dsRNA, which is either a bimolecular duplex or very long hairpin, processed (via the Dicer pathway) such that numerous siRNAs accumulate from both strands of the dsRNA. SRNAs trigger the cleavage of their target molecules. wiki http://purl.obolibrary.org/obo/SO_0000646 http://en.wikipedia.org/wiki/SiRNA http://purl.obolibrary.org/obo/SO_0000646 small interfering RNA http://purl.obolibrary.org/obo/SO_0000646 sequence http://purl.obolibrary.org/obo/SO_0000646 SO:0000646 http://purl.obolibrary.org/obo/SO_0000646 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000646 siRNA SO:ke http://purl.obolibrary.org/obo/SO_0000647 A primary transcript encoding a micro RNA. http://purl.obolibrary.org/obo/SO_0000647 SO:0000648 http://purl.obolibrary.org/obo/SO_0000647 miRNA primary transcript http://purl.obolibrary.org/obo/SO_0000647 micro RNA primary transcript http://purl.obolibrary.org/obo/SO_0000647 small temporal RNA primary transcript http://purl.obolibrary.org/obo/SO_0000647 stRNA primary transcript http://purl.obolibrary.org/obo/SO_0000647 stRNA_primary_transcript http://purl.obolibrary.org/obo/SO_0000647 sequence http://purl.obolibrary.org/obo/SO_0000647 SO:0000647 http://purl.obolibrary.org/obo/SO_0000647 miRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000650 Ribosomal RNA transcript that structures the small subunit of the ribosome. RSC:cb http://purl.obolibrary.org/obo/SO_0000650 SSU RNA RSC:cb http://purl.obolibrary.org/obo/SO_0000650 SSU rRNA http://purl.obolibrary.org/obo/SO_0000650 small subunit rRNA http://purl.obolibrary.org/obo/SO_0000650 sequence http://purl.obolibrary.org/obo/SO_0000650 SO:0000650 http://purl.obolibrary.org/obo/SO_0000650 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000650 small_subunit_rRNA SO:ke http://purl.obolibrary.org/obo/SO_0000651 Ribosomal RNA transcript that structures the large subunit of the ribosome. RSC:cb http://purl.obolibrary.org/obo/SO_0000651 LSU RNA RSC:cb http://purl.obolibrary.org/obo/SO_0000651 LSU rRNA http://purl.obolibrary.org/obo/SO_0000651 large subunit rRNA http://purl.obolibrary.org/obo/SO_0000651 sequence http://purl.obolibrary.org/obo/SO_0000651 SO:0000651 http://purl.obolibrary.org/obo/SO_0000651 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000651 large_subunit_rRNA http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00001 http://purl.obolibrary.org/obo/SO_0000652 5S ribosomal RNA (5S rRNA) is a component of the large ribosomal subunit in both prokaryotes and eukaryotes. In eukaryotes, it is synthesised by RNA polymerase III (the other eukaryotic rRNAs are cleaved from a 45S precursor synthesised by RNA polymerase I). In Xenopus oocytes, it has been shown that fingers 4-7 of the nine-zinc finger transcription factor TFIIIA can bind to the central region of 5S RNA. Thus, in addition to positively regulating 5S rRNA transcription, TFIIIA also stabilizes 5S rRNA until it is required for transcription. wiki http://purl.obolibrary.org/obo/SO_0000652 http://en.wikipedia.org/wiki/5S_ribosomal_RNA http://purl.obolibrary.org/obo/SO_0000652 5S LSU rRNA http://purl.obolibrary.org/obo/SO_0000652 5S rRNA http://purl.obolibrary.org/obo/SO_0000652 5S ribosomal RNA http://purl.obolibrary.org/obo/SO_0000652 rRNA 5S http://purl.obolibrary.org/obo/SO_0000652 sequence http://purl.obolibrary.org/obo/SO_0000652 SO:0000652 http://purl.obolibrary.org/obo/SO_0000652 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000652 rRNA_5S SO:ke http://purl.obolibrary.org/obo/SO_0000653 A component of the large ribosomal subunit. wiki http://purl.obolibrary.org/obo/SO_0000653 http://en.wikipedia.org/wiki/28S_ribosomal_RNA http://purl.obolibrary.org/obo/SO_0000653 28S LSU rRNA http://purl.obolibrary.org/obo/SO_0000653 28S rRNA http://purl.obolibrary.org/obo/SO_0000653 28S ribosomal RNA http://purl.obolibrary.org/obo/SO_0000653 rRNA 28S http://purl.obolibrary.org/obo/SO_0000653 sequence http://purl.obolibrary.org/obo/SO_0000653 SO:0000653 http://purl.obolibrary.org/obo/SO_0000653 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000653 rRNA_28S SO:xp http://purl.obolibrary.org/obo/SO_0000654 A mitochondrial gene located in a maxicircle. http://purl.obolibrary.org/obo/SO_0000654 maxi-circle gene http://purl.obolibrary.org/obo/SO_0000654 maxicircle gene http://purl.obolibrary.org/obo/SO_0000654 sequence http://purl.obolibrary.org/obo/SO_0000654 SO:0000654 http://purl.obolibrary.org/obo/SO_0000654 maxicircle_gene SO:ke http://purl.obolibrary.org/obo/SO_0000655 An RNA transcript that does not encode for a protein rather the RNA molecule is the gene product. wiki http://purl.obolibrary.org/obo/SO_0000655 http://en.wikipedia.org/wiki/NcRNA http://purl.obolibrary.org/obo/SO_0000655 noncoding RNA http://purl.obolibrary.org/obo/SO_0000655 sequence http://purl.obolibrary.org/obo/SO_0000655 SO:0000655 http://purl.obolibrary.org/obo/SO_0000655 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000655 A ncRNA is a processed_transcript, so it may not contain parts such as transcribed_spacer_regions that are removed in the act of processing. For the corresponding primary_transcripts, please see term SO:0000483 nc_primary_transcript. http://purl.obolibrary.org/obo/SO_0000655 ncRNA http://purl.obolibrary.org/obo/SO_0000656 stRNA encoding http://purl.obolibrary.org/obo/SO_0000656 sequence http://purl.obolibrary.org/obo/SO_0000656 SO:0000656 http://purl.obolibrary.org/obo/SO_0000656 stRNA_encoding SO:ke http://purl.obolibrary.org/obo/SO_0000657 A region of sequence containing one or more repeat units. http://purl.obolibrary.org/obo/SO_0000657 repeat region http://purl.obolibrary.org/obo/SO_0000657 sequence http://purl.obolibrary.org/obo/SO_0000657 SO:0000657 http://purl.obolibrary.org/obo/SO_0000657 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000657 repeat_region SO:ke http://purl.obolibrary.org/obo/SO_0000658 A repeat that is located at dispersed sites in the genome. wiki http://purl.obolibrary.org/obo/SO_0000658 http://en.wikipedia.org/wiki/Interspersed_repeat http://purl.obolibrary.org/obo/SO_0000658 dispersed repeat http://purl.obolibrary.org/obo/SO_0000658 interspersed repeat http://purl.obolibrary.org/obo/SO_0000658 sequence http://purl.obolibrary.org/obo/SO_0000658 SO:0000658 http://purl.obolibrary.org/obo/SO_0000658 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000658 dispersed_repeat http://purl.obolibrary.org/obo/SO_0000659 tmRNA encoding http://purl.obolibrary.org/obo/SO_0000659 sequence http://purl.obolibrary.org/obo/SO_0000659 SO:0000659 http://purl.obolibrary.org/obo/SO_0000659 tmRNA_encoding http://purl.obolibrary.org/obo/SO_0000660 sequence http://purl.obolibrary.org/obo/SO_0000660 SO:0000660 http://purl.obolibrary.org/obo/SO_0000660 DNA_invertase_target_sequence http://purl.obolibrary.org/obo/SO_0000660 true http://purl.obolibrary.org/obo/SO_0000661 sequence http://purl.obolibrary.org/obo/SO_0000661 SO:0000661 http://purl.obolibrary.org/obo/SO_0000661 intron_attribute http://purl.obolibrary.org/obo/SO_0000661 true SO:ke http://purl.obolibrary.org/obo/SO_0000662 An intron which is spliced by the spliceosome. http://purl.obolibrary.org/obo/SO_0000662 spliceosomal intron http://purl.obolibrary.org/obo/SO_0000662 sequence http://purl.obolibrary.org/obo/SO_0000662 SO:0000662 http://purl.obolibrary.org/obo/SO_0000662 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000662 GO:0000398. http://purl.obolibrary.org/obo/SO_0000662 spliceosomal_intron http://purl.obolibrary.org/obo/SO_0000663 tRNA encoding http://purl.obolibrary.org/obo/SO_0000663 sequence http://purl.obolibrary.org/obo/SO_0000663 SO:0000663 http://purl.obolibrary.org/obo/SO_0000663 tRNA_encoding http://purl.obolibrary.org/obo/SO_0000664 introgressed chromosome region http://purl.obolibrary.org/obo/SO_0000664 sequence http://purl.obolibrary.org/obo/SO_0000664 SO:0000664 http://purl.obolibrary.org/obo/SO_0000664 introgressed_chromosome_region SO:xp http://purl.obolibrary.org/obo/SO_0000665 A transcript that is monocistronic. http://purl.obolibrary.org/obo/SO_0000665 monocistronic transcript http://purl.obolibrary.org/obo/SO_0000665 sequence http://purl.obolibrary.org/obo/SO_0000665 SO:0000665 http://purl.obolibrary.org/obo/SO_0000665 monocistronic_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000666 An intron (mitochondrial, chloroplast, nuclear or prokaryotic) that encodes a double strand sequence specific endonuclease allowing for mobility. http://purl.obolibrary.org/obo/SO_0000666 mobile intron http://purl.obolibrary.org/obo/SO_0000666 sequence http://purl.obolibrary.org/obo/SO_0000666 SO:0000666 http://purl.obolibrary.org/obo/SO_0000666 mobile_intron SO:ke http://purl.obolibrary.org/obo/SO_0000667 The sequence of one or more nucleotides added between two adjacent nucleotides in the sequence. http://purl.obolibrary.org/obo/SO_0000667 SO:1000034 Insertion http://purl.obolibrary.org/obo/SO_0000667 loinc:LA6687-3 http://www.ncbi.nlm.nih.gov/dbvar/ http://purl.obolibrary.org/obo/so-xp.obo#dbvar http://purl.obolibrary.org/obo/SO_0000667 insertion http://purl.obolibrary.org/obo/SO_0000667 nucleotide insertion http://purl.obolibrary.org/obo/SO_0000667 nucleotide_insertion http://purl.obolibrary.org/obo/SO_0000667 sequence http://purl.obolibrary.org/obo/SO_0000667 SO:0000667 http://purl.obolibrary.org/obo/SO_0000667 http://purl.obolibrary.org/obo/so-xp.obo#DBVAR http://purl.obolibrary.org/obo/SO_0000667 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000667 insertion SO:ke http://purl.obolibrary.org/obo/SO_0000668 A match against an EST sequence. http://purl.obolibrary.org/obo/SO_0000668 EST match http://purl.obolibrary.org/obo/SO_0000668 sequence http://purl.obolibrary.org/obo/SO_0000668 SO:0000668 http://purl.obolibrary.org/obo/SO_0000668 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000668 EST_match http://purl.obolibrary.org/obo/SO_0000669 sequence rearrangement feature http://purl.obolibrary.org/obo/SO_0000669 sequence http://purl.obolibrary.org/obo/SO_0000669 SO:0000669 http://purl.obolibrary.org/obo/SO_0000669 sequence_rearrangement_feature SO:ma http://purl.obolibrary.org/obo/SO_0000670 A sequence within the micronuclear DNA of ciliates at which chromosome breakage and telomere addition occurs during nuclear differentiation. http://purl.obolibrary.org/obo/SO_0000670 chromosome breakage sequence http://purl.obolibrary.org/obo/SO_0000670 sequence http://purl.obolibrary.org/obo/SO_0000670 SO:0000670 http://purl.obolibrary.org/obo/SO_0000670 chromosome_breakage_sequence SO:ma http://purl.obolibrary.org/obo/SO_0000671 A sequence eliminated from the genome of ciliates during nuclear differentiation. http://purl.obolibrary.org/obo/SO_0000671 internal eliminated sequence http://purl.obolibrary.org/obo/SO_0000671 sequence http://purl.obolibrary.org/obo/SO_0000671 SO:0000671 http://purl.obolibrary.org/obo/SO_0000671 internal_eliminated_sequence SO:ma http://purl.obolibrary.org/obo/SO_0000672 A sequence that is conserved, although rearranged relative to the micronucleus, in the macronucleus of a ciliate genome. http://purl.obolibrary.org/obo/SO_0000672 macronucleus destined segment http://purl.obolibrary.org/obo/SO_0000672 sequence http://purl.obolibrary.org/obo/SO_0000672 SO:0000672 http://purl.obolibrary.org/obo/SO_0000672 macronucleus_destined_segment SO:ma http://purl.obolibrary.org/obo/SO_0000673 An RNA synthesized on a DNA or RNA template by an RNA polymerase. wiki http://purl.obolibrary.org/obo/SO_0000673 http://en.wikipedia.org/wiki/RNA http://purl.obolibrary.org/obo/SO_0000673 sequence http://purl.obolibrary.org/obo/SO_0000673 SO:0000673 http://purl.obolibrary.org/obo/SO_0000673 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000673 transcript SO:ke http://purl.obolibrary.org/obo/SO_0000674 A splice site where the donor and acceptor sites differ from the canonical form. http://purl.obolibrary.org/obo/SO_0000674 SO:0000678 http://purl.obolibrary.org/obo/SO_0000674 SO:0000679 http://purl.obolibrary.org/obo/SO_0000674 non canonical splice site http://purl.obolibrary.org/obo/SO_0000674 non-canonical splice site http://purl.obolibrary.org/obo/SO_0000674 sequence http://purl.obolibrary.org/obo/SO_0000674 SO:0000674 http://purl.obolibrary.org/obo/SO_0000674 non_canonical_splice_site http://purl.obolibrary.org/obo/SO_0000674 true SO:ke http://purl.obolibrary.org/obo/SO_0000675 The major class of splice site with dinucleotides GT and AG for donor and acceptor sites, respectively. http://purl.obolibrary.org/obo/SO_0000675 SO:0000676 http://purl.obolibrary.org/obo/SO_0000675 SO:0000677 http://purl.obolibrary.org/obo/SO_0000675 canonical splice site http://purl.obolibrary.org/obo/SO_0000675 sequence http://purl.obolibrary.org/obo/SO_0000675 SO:0000675 http://purl.obolibrary.org/obo/SO_0000675 canonical_splice_site http://purl.obolibrary.org/obo/SO_0000675 true SO:ke http://purl.obolibrary.org/obo/SO_0000676 The canonical 3' splice site has the sequence "AG". http://purl.obolibrary.org/obo/SO_0000676 canonical 3' splice site http://purl.obolibrary.org/obo/SO_0000676 canonical three prime splice site http://purl.obolibrary.org/obo/SO_0000676 sequence http://purl.obolibrary.org/obo/SO_0000676 SO:0000676 http://purl.obolibrary.org/obo/SO_0000676 canonical_three_prime_splice_site SO:ke http://purl.obolibrary.org/obo/SO_0000677 The canonical 5' splice site has the sequence "GT". http://purl.obolibrary.org/obo/SO_0000677 canonical 5' splice site http://purl.obolibrary.org/obo/SO_0000677 canonical five prime splice site http://purl.obolibrary.org/obo/SO_0000677 sequence http://purl.obolibrary.org/obo/SO_0000677 SO:0000677 http://purl.obolibrary.org/obo/SO_0000677 canonical_five_prime_splice_site SO:ke http://purl.obolibrary.org/obo/SO_0000678 A 3' splice site that does not have the sequence "AG". http://purl.obolibrary.org/obo/SO_0000678 non canonical three prime splice site http://purl.obolibrary.org/obo/SO_0000678 non-canonical three prime splice site http://purl.obolibrary.org/obo/SO_0000678 sequence http://purl.obolibrary.org/obo/SO_0000678 non canonical 3' splice site http://purl.obolibrary.org/obo/SO_0000678 SO:0000678 http://purl.obolibrary.org/obo/SO_0000678 non_canonical_three_prime_splice_site SO:ke http://purl.obolibrary.org/obo/SO_0000679 A 5' splice site which does not have the sequence "GT". http://purl.obolibrary.org/obo/SO_0000679 non canonical 5' splice site http://purl.obolibrary.org/obo/SO_0000679 non canonical five prime splice site http://purl.obolibrary.org/obo/SO_0000679 non-canonical five prime splice site http://purl.obolibrary.org/obo/SO_0000679 sequence http://purl.obolibrary.org/obo/SO_0000679 SO:0000679 http://purl.obolibrary.org/obo/SO_0000679 non_canonical_five_prime_splice_site SO:ke http://purl.obolibrary.org/obo/SO_0000680 A start codon that is not the usual AUG sequence. http://purl.obolibrary.org/obo/SO_0000680 non ATG start codon http://purl.obolibrary.org/obo/SO_0000680 non canonical start codon http://purl.obolibrary.org/obo/SO_0000680 non-canonical start codon http://purl.obolibrary.org/obo/SO_0000680 sequence http://purl.obolibrary.org/obo/SO_0000680 SO:0000680 http://purl.obolibrary.org/obo/SO_0000680 non_canonical_start_codon SO:ke http://purl.obolibrary.org/obo/SO_0000681 A transcript that has been processed "incorrectly", for example by the failure of splicing of one or more exons. http://purl.obolibrary.org/obo/SO_0000681 aberrant processed transcript http://purl.obolibrary.org/obo/SO_0000681 sequence http://purl.obolibrary.org/obo/SO_0000681 SO:0000681 http://purl.obolibrary.org/obo/SO_0000681 aberrant_processed_transcript http://purl.obolibrary.org/obo/SO_0000682 sequence http://purl.obolibrary.org/obo/SO_0000682 SO:0000682 http://purl.obolibrary.org/obo/SO_0000682 splicing_feature http://purl.obolibrary.org/obo/SO_0000682 true http://www.ncbi.nlm.nih.gov:80/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=12403462&dopt=Abstract http://purl.obolibrary.org/obo/SO_0000683 Exonic splicing enhancers (ESEs) facilitate exon definition by assisting in the recruitment of splicing factors to the adjacent intron. http://purl.obolibrary.org/obo/SO_0000683 exonic splice enhancer http://purl.obolibrary.org/obo/SO_0000683 sequence http://purl.obolibrary.org/obo/SO_0000683 SO:0000683 http://purl.obolibrary.org/obo/SO_0000683 exonic_splice_enhancer SO:ma http://purl.obolibrary.org/obo/SO_0000684 A region of nucleotide sequence targeted by a nuclease enzyme. http://purl.obolibrary.org/obo/SO_0000684 nuclease sensitive site http://purl.obolibrary.org/obo/SO_0000684 sequence http://purl.obolibrary.org/obo/SO_0000684 SO:0000684 http://purl.obolibrary.org/obo/SO_0000684 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000684 nuclease_sensitive_site http://purl.obolibrary.org/obo/SO_0000685 DHS http://purl.obolibrary.org/obo/SO_0000685 DNAseI hypersensitive site http://purl.obolibrary.org/obo/SO_0000685 sequence http://purl.obolibrary.org/obo/SO_0000685 SO:0000685 http://purl.obolibrary.org/obo/SO_0000685 DNAseI_hypersensitive_site SO:ma http://purl.obolibrary.org/obo/SO_0000686 A chromosomal translocation whereby the chromosomes carrying non-homologous centromeres may be recovered independently. These chromosomes are described as translocation elements. This occurs for some translocations, particularly but not exclusively, reciprocal translocations. http://purl.obolibrary.org/obo/SO_0000686 translocation element http://purl.obolibrary.org/obo/SO_0000686 sequence http://purl.obolibrary.org/obo/SO_0000686 SO:0000686 http://purl.obolibrary.org/obo/SO_0000686 translocation_element SO:ke http://purl.obolibrary.org/obo/SO_0000687 The space between two bases in a sequence which marks the position where a deletion has occurred. http://purl.obolibrary.org/obo/SO_0000687 deletion junction http://purl.obolibrary.org/obo/SO_0000687 sequence http://purl.obolibrary.org/obo/SO_0000687 SO:0000687 http://purl.obolibrary.org/obo/SO_0000687 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000687 deletion_junction SO:ls http://purl.obolibrary.org/obo/SO_0000688 A set of subregions selected from sequence contigs which when concatenated form a nonredundant linear sequence. http://purl.obolibrary.org/obo/SO_0000688 golden path http://purl.obolibrary.org/obo/SO_0000688 sequence http://purl.obolibrary.org/obo/SO_0000688 SO:0000688 http://purl.obolibrary.org/obo/SO_0000688 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000688 golden_path SO:ke http://purl.obolibrary.org/obo/SO_0000689 A match against cDNA sequence. http://purl.obolibrary.org/obo/SO_0000689 cDNA match http://purl.obolibrary.org/obo/SO_0000689 sequence http://purl.obolibrary.org/obo/SO_0000689 SO:0000689 http://purl.obolibrary.org/obo/SO_0000689 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000689 cDNA_match SO:xp http://purl.obolibrary.org/obo/SO_0000690 A gene that encodes a polycistronic transcript. http://purl.obolibrary.org/obo/SO_0000690 gene with polycistronic transcript http://purl.obolibrary.org/obo/SO_0000690 sequence http://purl.obolibrary.org/obo/SO_0000690 SO:0000690 http://purl.obolibrary.org/obo/SO_0000690 gene_with_polycistronic_transcript EBIBS:GAR http://purl.obolibrary.org/obo/SO_0000691 The initiator methionine that has been cleaved from a mature polypeptide sequence. http://purl.obolibrary.org/obo/SO_0000691 BS:00067 http://purl.obolibrary.org/obo/SO_0000691 cleaved initiator methionine http://purl.obolibrary.org/obo/SO_0000691 sequence uniprot:feature_type http://purl.obolibrary.org/obo/SO_0000691 init_met http://purl.obolibrary.org/obo/SO_0000691 initiator methionine http://purl.obolibrary.org/obo/SO_0000691 SO:0000691 http://purl.obolibrary.org/obo/SO_0000691 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0000691 cleaved_initiator_methionine SO:xp http://purl.obolibrary.org/obo/SO_0000692 A gene that encodes a dicistronic transcript. http://purl.obolibrary.org/obo/SO_0000692 gene with dicistronic transcript http://purl.obolibrary.org/obo/SO_0000692 sequence http://purl.obolibrary.org/obo/SO_0000692 SO:0000692 http://purl.obolibrary.org/obo/SO_0000692 gene_with_dicistronic_transcript SO:xp http://purl.obolibrary.org/obo/SO_0000693 A gene that encodes an mRNA that is recoded. http://purl.obolibrary.org/obo/SO_0000693 gene with recoded mRNA http://purl.obolibrary.org/obo/SO_0000693 sequence http://purl.obolibrary.org/obo/SO_0000693 SO:0000693 http://purl.obolibrary.org/obo/SO_0000693 gene_with_recoded_mRNA SO:cb http://purl.obolibrary.org/obo/SO_0000694 SNPs are single base pair positions in genomic DNA at which different sequence alternatives exist in normal individuals in some population(s), wherein the least frequent variant has an abundance of 1% or greater. http://purl.obolibrary.org/obo/SO_0000694 single nucleotide polymorphism http://purl.obolibrary.org/obo/SO_0000694 sequence http://purl.obolibrary.org/obo/SO_0000694 SO:0000694 http://purl.obolibrary.org/obo/SO_0000694 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000694 SNP SO:ke http://purl.obolibrary.org/obo/SO_0000695 A sequence used in experiment. http://purl.obolibrary.org/obo/SO_0000695 sequence http://purl.obolibrary.org/obo/SO_0000695 SO:0000695 http://purl.obolibrary.org/obo/SO_0000695 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000695 Requested by Lynn Crosby, jan 2006. http://purl.obolibrary.org/obo/SO_0000695 reagent SO:ma http://purl.obolibrary.org/obo/SO_0000696 A short oligonucleotide sequence, of length on the order of 10's of bases; either single or double stranded. wiki http://purl.obolibrary.org/obo/SO_0000696 http://en.wikipedia.org/wiki/Oligonucleotide http://purl.obolibrary.org/obo/SO_0000696 oligonucleotide http://purl.obolibrary.org/obo/SO_0000696 sequence http://purl.obolibrary.org/obo/SO_0000696 SO:0000696 http://purl.obolibrary.org/obo/SO_0000696 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000696 oligo SO:xp http://purl.obolibrary.org/obo/SO_0000697 A gene that encodes a transcript with stop codon readthrough. http://purl.obolibrary.org/obo/SO_0000697 gene with stop codon read through http://purl.obolibrary.org/obo/SO_0000697 sequence http://purl.obolibrary.org/obo/SO_0000697 SO:0000697 http://purl.obolibrary.org/obo/SO_0000697 gene_with_stop_codon_read_through SO:xp http://purl.obolibrary.org/obo/SO_0000698 A gene encoding an mRNA that has the stop codon redefined as pyrrolysine. http://purl.obolibrary.org/obo/SO_0000698 gene with stop codon redefined as pyrrolysine http://purl.obolibrary.org/obo/SO_0000698 sequence http://purl.obolibrary.org/obo/SO_0000698 SO:0000698 http://purl.obolibrary.org/obo/SO_0000698 gene_with_stop_codon_redefined_as_pyrrolysine SO:ke http://purl.obolibrary.org/obo/SO_0000699 A sequence_feature with an extent of zero. http://purl.obolibrary.org/obo/SO_0000699 boundary http://purl.obolibrary.org/obo/SO_0000699 breakpoint http://purl.obolibrary.org/obo/SO_0000699 sequence http://purl.obolibrary.org/obo/SO_0000699 SO:0000699 http://purl.obolibrary.org/obo/SO_0000699 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000699 A junction is a boundary between regions. A boundary has an extent of zero. http://purl.obolibrary.org/obo/SO_0000699 junction SO:ke http://purl.obolibrary.org/obo/SO_0000700 A comment about the sequence. http://purl.obolibrary.org/obo/SO_0000700 sequence http://purl.obolibrary.org/obo/SO_0000700 SO:0000700 http://purl.obolibrary.org/obo/SO_0000700 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000700 remark SO:ke http://purl.obolibrary.org/obo/SO_0000701 A region of sequence where the validity of the base calling is questionable. http://purl.obolibrary.org/obo/SO_0000701 possible base call error http://purl.obolibrary.org/obo/SO_0000701 sequence http://purl.obolibrary.org/obo/SO_0000701 SO:0000701 http://purl.obolibrary.org/obo/SO_0000701 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000701 possible_base_call_error SO:ke http://purl.obolibrary.org/obo/SO_0000702 A region of sequence where there may have been an error in the assembly. http://purl.obolibrary.org/obo/SO_0000702 possible assembly error http://purl.obolibrary.org/obo/SO_0000702 sequence http://purl.obolibrary.org/obo/SO_0000702 SO:0000702 http://purl.obolibrary.org/obo/SO_0000702 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000702 possible_assembly_error SO:ke http://purl.obolibrary.org/obo/SO_0000703 A region of sequence implicated in an experimental result. http://purl.obolibrary.org/obo/SO_0000703 experimental result region http://purl.obolibrary.org/obo/SO_0000703 sequence http://purl.obolibrary.org/obo/SO_0000703 SO:0000703 http://purl.obolibrary.org/obo/SO_0000703 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000703 experimental_result_region SO:immuno_workshop http://purl.obolibrary.org/obo/SO_0000704 A region (or regions) that includes all of the sequence elements necessary to encode a functional transcript. A gene may include regulatory regions, transcribed regions and/or other functional sequence regions. wiki http://purl.obolibrary.org/obo/SO_0000704 http://en.wikipedia.org/wiki/Gene http://purl.obolibrary.org/obo/SO_0000704 sequence http://purl.obolibrary.org/obo/SO_0000704 SO:0000704 http://purl.obolibrary.org/obo/SO_0000704 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000704 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. A gene may be considered as a unit of inheritance. http://purl.obolibrary.org/obo/SO_0000704 gene SO:ke http://purl.obolibrary.org/obo/SO_0000705 Two or more adjacent copies of a region (of length greater than 1). wiki http://purl.obolibrary.org/obo/SO_0000705 http://en.wikipedia.org/wiki/Tandem_repeat http://purl.obolibrary.org/obo/SO_0000705 http://www.sci.sdsu.edu/~smaloy/Glossary/T.html http://purl.obolibrary.org/obo/SO_0000705 tandem repeat http://purl.obolibrary.org/obo/SO_0000705 sequence http://purl.obolibrary.org/obo/SO_0000705 SO:0000705 http://purl.obolibrary.org/obo/SO_0000705 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000705 tandem_repeat SO:ke http://purl.obolibrary.org/obo/SO_0000706 The 3' splice site of the acceptor primary transcript. http://purl.obolibrary.org/obo/SO_0000706 trans splice acceptor site http://purl.obolibrary.org/obo/SO_0000706 sequence http://purl.obolibrary.org/obo/SO_0000706 3' trans splice site http://purl.obolibrary.org/obo/SO_0000706 SO:0000706 http://purl.obolibrary.org/obo/SO_0000706 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000706 This region contains a polypyridine tract and AG dinucleotide in some organisms and is UUUCAG in C. elegans. http://purl.obolibrary.org/obo/SO_0000706 trans_splice_acceptor_site SO:ke http://purl.obolibrary.org/obo/SO_0000707 The 5' five prime splice site region of the donor RNA. http://purl.obolibrary.org/obo/SO_0000707 trans splice donor site http://purl.obolibrary.org/obo/SO_0000707 trans-splice donor site http://purl.obolibrary.org/obo/SO_0000707 sequence http://purl.obolibrary.org/obo/SO_0000707 5 prime trans splice site http://purl.obolibrary.org/obo/SO_0000707 SO:0000707 http://purl.obolibrary.org/obo/SO_0000707 SL RNA contains a donor site. http://purl.obolibrary.org/obo/SO_0000707 trans_splice_donor_site SO:nlw http://purl.obolibrary.org/obo/SO_0000708 A trans_splicing_acceptor_site which appends the 22nt SL1 RNA leader sequence to the 5' end of most mRNAs. http://purl.obolibrary.org/obo/SO_0000708 SL1 acceptor site http://purl.obolibrary.org/obo/SO_0000708 sequence http://purl.obolibrary.org/obo/SO_0000708 SO:0000708 http://purl.obolibrary.org/obo/SO_0000708 SL1_acceptor_site SO:nlw http://purl.obolibrary.org/obo/SO_0000709 A trans_splicing_acceptor_site which appends the 22nt SL2 RNA leader sequence to the 5' end of mRNAs. SL2 acceptor sites occur in genes in internal segments of polycistronic transcripts. http://purl.obolibrary.org/obo/SO_0000709 SL2 acceptor site http://purl.obolibrary.org/obo/SO_0000709 sequence http://purl.obolibrary.org/obo/SO_0000709 SO:0000709 http://purl.obolibrary.org/obo/SO_0000709 SL2_acceptor_site SO:xp http://purl.obolibrary.org/obo/SO_0000710 A gene encoding an mRNA that has the stop codon redefined as selenocysteine. http://purl.obolibrary.org/obo/SO_0000710 gene with stop codon redefined as selenocysteine http://purl.obolibrary.org/obo/SO_0000710 sequence http://purl.obolibrary.org/obo/SO_0000710 SO:0000710 http://purl.obolibrary.org/obo/SO_0000710 gene_with_stop_codon_redefined_as_selenocysteine SO:xp http://purl.obolibrary.org/obo/SO_0000711 A gene with mRNA recoded by translational bypass. http://purl.obolibrary.org/obo/SO_0000711 gene with mRNA recoded by translational bypass http://purl.obolibrary.org/obo/SO_0000711 sequence http://purl.obolibrary.org/obo/SO_0000711 SO:0000711 http://purl.obolibrary.org/obo/SO_0000711 gene_with_mRNA_recoded_by_translational_bypass SO:xp http://purl.obolibrary.org/obo/SO_0000712 A gene encoding a transcript that has a translational frameshift. http://purl.obolibrary.org/obo/SO_0000712 gene with transcript with translational frameshift http://purl.obolibrary.org/obo/SO_0000712 sequence http://purl.obolibrary.org/obo/SO_0000712 SO:0000712 http://purl.obolibrary.org/obo/SO_0000712 gene_with_transcript_with_translational_frameshift SO:ke http://purl.obolibrary.org/obo/SO_0000713 A motif that is active in the DNA form of the sequence. wiki http://purl.obolibrary.org/obo/SO_0000713 http://en.wikipedia.org/wiki/DNA_motif http://purl.obolibrary.org/obo/SO_0000713 DNA motif http://purl.obolibrary.org/obo/SO_0000713 sequence http://purl.obolibrary.org/obo/SO_0000713 SO:0000713 http://purl.obolibrary.org/obo/SO_0000713 DNA_motif SO:ke http://purl.obolibrary.org/obo/SO_0000714 A region of nucleotide sequence corresponding to a known motif. http://purl.obolibrary.org/obo/SO_0000714 nucleotide motif http://purl.obolibrary.org/obo/SO_0000714 sequence http://purl.obolibrary.org/obo/SO_0000714 SO:0000714 http://purl.obolibrary.org/obo/SO_0000714 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000714 nucleotide_motif SO:ke http://purl.obolibrary.org/obo/SO_0000715 A motif that is active in RNA sequence. http://purl.obolibrary.org/obo/SO_0000715 RNA motif http://purl.obolibrary.org/obo/SO_0000715 sequence http://purl.obolibrary.org/obo/SO_0000715 SO:0000715 http://purl.obolibrary.org/obo/SO_0000715 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000715 RNA_motif SO:ke http://purl.obolibrary.org/obo/SO_0000716 An mRNA that has the quality dicistronic. http://purl.obolibrary.org/obo/SO_0000716 dicistronic mRNA http://purl.obolibrary.org/obo/SO_0000716 sequence http://purl.obolibrary.org/obo/SO_0000716 dicistronic processed transcript http://purl.obolibrary.org/obo/SO_0000716 SO:0000716 http://purl.obolibrary.org/obo/SO_0000716 dicistronic_mRNA SGD:rb http://purl.obolibrary.org/obo/SO_0000717 A nucleic acid sequence that when read as sequential triplets, has the potential of encoding a sequential string of amino acids. It need not contain the start or stop codon. wiki http://purl.obolibrary.org/obo/SO_0000717 http://en.wikipedia.org/wiki/Reading_frame http://purl.obolibrary.org/obo/SO_0000717 reading frame http://purl.obolibrary.org/obo/SO_0000717 sequence http://purl.obolibrary.org/obo/SO_0000717 SO:0000717 http://purl.obolibrary.org/obo/SO_0000717 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000717 This term was added after a request by SGD. August 2004. Modified after SO meeting in Cambridge to not include start or stop. http://purl.obolibrary.org/obo/SO_0000717 reading_frame SGD:rb http://purl.obolibrary.org/obo/SO_0000718 A reading_frame that is interrupted by one or more stop codons; usually identified through inter-genomic sequence comparisons. http://purl.obolibrary.org/obo/SO_0000718 blocked reading frame http://purl.obolibrary.org/obo/SO_0000718 sequence http://purl.obolibrary.org/obo/SO_0000718 SO:0000718 http://purl.obolibrary.org/obo/SO_0000718 Term requested by Rama from SGD. http://purl.obolibrary.org/obo/SO_0000718 blocked_reading_frame FB:WG http://purl.obolibrary.org/obo/SO_0000719 An ordered and oriented set of scaffolds based on somewhat weaker sets of inferential evidence such as one set of mate pair reads together with supporting evidence from ESTs or location of markers from SNP or microsatellite maps, or cytogenetic localization of contained markers. http://purl.obolibrary.org/obo/SO_0000719 sequence http://purl.obolibrary.org/obo/SO_0000719 superscaffold http://purl.obolibrary.org/obo/SO_0000719 SO:0000719 http://purl.obolibrary.org/obo/SO_0000719 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000719 ultracontig SO:ke http://purl.obolibrary.org/obo/SO_0000720 A transposable element that is foreign. http://purl.obolibrary.org/obo/SO_0000720 foreign transposable element http://purl.obolibrary.org/obo/SO_0000720 sequence http://purl.obolibrary.org/obo/SO_0000720 SO:0000720 http://purl.obolibrary.org/obo/SO_0000720 requested by Michael on 19 Nov 2004. http://purl.obolibrary.org/obo/SO_0000720 foreign_transposable_element SO:xp http://purl.obolibrary.org/obo/SO_0000721 A gene that encodes a dicistronic primary transcript. http://purl.obolibrary.org/obo/SO_0000721 gene with dicistronic primary transcript http://purl.obolibrary.org/obo/SO_0000721 sequence http://purl.obolibrary.org/obo/SO_0000721 SO:0000721 http://purl.obolibrary.org/obo/SO_0000721 Requested by Michael, 19 nov 2004. http://purl.obolibrary.org/obo/SO_0000721 gene_with_dicistronic_primary_transcript SO:xp http://purl.obolibrary.org/obo/SO_0000722 A gene that encodes a polycistronic mRNA. http://purl.obolibrary.org/obo/SO_0000722 gene with dicistronic mRNA http://purl.obolibrary.org/obo/SO_0000722 gene with dicistronic processed transcript http://purl.obolibrary.org/obo/SO_0000722 sequence http://purl.obolibrary.org/obo/SO_0000722 SO:0000722 http://purl.obolibrary.org/obo/SO_0000722 Requested by MA nov 19 2004. http://purl.obolibrary.org/obo/SO_0000722 gene_with_dicistronic_mRNA SO:ma http://purl.obolibrary.org/obo/SO_0000723 Genomic sequence removed from the genome, as a normal event, by a process of recombination. wiki http://purl.obolibrary.org/obo/SO_0000723 http://en.wikipedia.org/wiki/IDNA http://purl.obolibrary.org/obo/SO_0000723 intervening DNA http://purl.obolibrary.org/obo/SO_0000723 sequence http://purl.obolibrary.org/obo/SO_0000723 SO:0000723 http://purl.obolibrary.org/obo/SO_0000723 iDNA http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000724 A region of a DNA molecule where transfer is initiated during the process of conjugation or mobilization. wiki http://purl.obolibrary.org/obo/SO_0000724 http://en.wikipedia.org/wiki/Origin_of_transfer http://purl.obolibrary.org/obo/SO_0000724 origin of transfer http://purl.obolibrary.org/obo/SO_0000724 sequence http://purl.obolibrary.org/obo/SO_0000724 SO:0000724 http://purl.obolibrary.org/obo/SO_0000724 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000724 oriT http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000725 The transit_peptide is a short region at the N-terminus of the peptide that directs the protein to an organelle (chloroplast, mitochondrion, microbody or cyanelle). http://purl.obolibrary.org/obo/SO_0000725 BS:00055 http://purl.obolibrary.org/obo/SO_0000725 transit peptide http://purl.obolibrary.org/obo/SO_0000725 sequence http://purl.obolibrary.org/obo/SO_0000725 signal uniprot:feature_type http://purl.obolibrary.org/obo/SO_0000725 transit http://purl.obolibrary.org/obo/SO_0000725 SO:0000725 http://purl.obolibrary.org/obo/SO_0000725 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000725 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0000725 Added to bring SO inline with the EMBL, DDBJ, GenBank feature table. Old definition before biosapiens: The coding sequence for an N-terminal domain of a nuclear-encoded organellar protein. This domain is involved in post translational import of the protein into the organelle. http://purl.obolibrary.org/obo/SO_0000725 transit_peptide SO:ke http://purl.obolibrary.org/obo/SO_0000726 The simplest repeated component of a repeat region. A single repeat. http://purl.obolibrary.org/obo/SO_0000726 http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0000726 repeat unit http://purl.obolibrary.org/obo/SO_0000726 sequence http://purl.obolibrary.org/obo/SO_0000726 SO:0000726 http://purl.obolibrary.org/obo/SO_0000726 Added to comply with the feature table. A single repeat. http://purl.obolibrary.org/obo/SO_0000726 repeat_unit PMID:19660565 SO:SG http://purl.obolibrary.org/obo/SO_0000727 A regulatory region where transcription factor binding sites clustered to regulate various aspects of transcription activities. (CRMs can be located a few kb to hundred kb upstream of the basal promoter, in the coding sequence, within introns, or in the downstream 3'UTR sequences, as well as on different chromosome). A single gene can be regulated by multiple CRMs to give precise control of its spatial and temporal expression. CRMs function as nodes in large, intertwined regulatory network. http://purl.obolibrary.org/obo/SO_0000727 TF module http://purl.obolibrary.org/obo/SO_0000727 cis regulatory module http://purl.obolibrary.org/obo/SO_0000727 transcription factor module http://purl.obolibrary.org/obo/SO_0000727 sequence http://purl.obolibrary.org/obo/SO_0000727 SO:0000727 http://purl.obolibrary.org/obo/SO_0000727 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000727 Requested by Stephen Grossmann Dec 2004. http://purl.obolibrary.org/obo/SO_0000727 CRM SO:ke http://purl.obolibrary.org/obo/SO_0000728 A region of a peptide that is able to excise itself and rejoin the remaining portions with a peptide bond. wiki http://purl.obolibrary.org/obo/SO_0000728 http://en.wikipedia.org/wiki/Intein http://purl.obolibrary.org/obo/SO_0000728 sequence http://purl.obolibrary.org/obo/SO_0000728 protein intron http://purl.obolibrary.org/obo/SO_0000728 SO:0000728 http://purl.obolibrary.org/obo/SO_0000728 Intein-mediated protein splicing occurs after mRNA has been translated into a protein. http://purl.obolibrary.org/obo/SO_0000728 intein SO:ke http://purl.obolibrary.org/obo/SO_0000729 An attribute of protein-coding genes where the initial protein product contains an intein. http://purl.obolibrary.org/obo/SO_0000729 intein containing http://purl.obolibrary.org/obo/SO_0000729 sequence http://purl.obolibrary.org/obo/SO_0000729 SO:0000729 http://purl.obolibrary.org/obo/SO_0000729 intein_containing SO:ke http://purl.obolibrary.org/obo/SO_0000730 A gap in the sequence of known length. The unknown bases are filled in with N's. http://purl.obolibrary.org/obo/SO_0000730 sequence http://purl.obolibrary.org/obo/SO_0000730 SO:0000730 http://purl.obolibrary.org/obo/SO_0000730 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000730 gap SO:ke http://purl.obolibrary.org/obo/SO_0000731 An attribute to describe a feature that is incomplete. http://purl.obolibrary.org/obo/SO_0000731 fragment http://purl.obolibrary.org/obo/SO_0000731 sequence http://purl.obolibrary.org/obo/SO_0000731 SO:0000731 http://purl.obolibrary.org/obo/SO_0000731 Term added because of request by MO people. http://purl.obolibrary.org/obo/SO_0000731 fragmentary SO:ke http://purl.obolibrary.org/obo/SO_0000732 An attribute describing an unverified region. wiki http://purl.obolibrary.org/obo/SO_0000732 http://en.wikipedia.org/wiki/Predicted http://purl.obolibrary.org/obo/SO_0000732 sequence http://purl.obolibrary.org/obo/SO_0000732 SO:0000732 http://purl.obolibrary.org/obo/SO_0000732 predicted SO:ke http://purl.obolibrary.org/obo/SO_0000733 An attribute describing a located_sequence_feature. http://purl.obolibrary.org/obo/SO_0000733 feature attribute http://purl.obolibrary.org/obo/SO_0000733 sequence http://purl.obolibrary.org/obo/SO_0000733 SO:0000733 http://purl.obolibrary.org/obo/SO_0000733 feature_attribute http://mged.sourceforge.net/ontologies/MGEDontology.php http://purl.obolibrary.org/obo/SO_0000734 An exemplar is a representative cDNA sequence for each gene. The exemplar approach is a method that usually involves some initial clustering into gene groups and the subsequent selection of a representative from each gene group. http://purl.obolibrary.org/obo/SO_0000734 exemplar mRNA http://purl.obolibrary.org/obo/SO_0000734 sequence http://purl.obolibrary.org/obo/SO_0000734 SO:0000734 http://purl.obolibrary.org/obo/SO_0000734 Added for the MO people. http://purl.obolibrary.org/obo/SO_0000734 exemplar_mRNA http://purl.obolibrary.org/obo/SO_0000735 sequence location http://purl.obolibrary.org/obo/SO_0000735 sequence http://purl.obolibrary.org/obo/SO_0000735 SO:0000735 http://purl.obolibrary.org/obo/SO_0000735 sequence_location http://purl.obolibrary.org/obo/SO_0000736 organelle sequence http://purl.obolibrary.org/obo/SO_0000736 sequence http://purl.obolibrary.org/obo/SO_0000736 SO:0000736 http://purl.obolibrary.org/obo/SO_0000736 organelle_sequence http://purl.obolibrary.org/obo/SO_0000737 mitochondrial sequence http://purl.obolibrary.org/obo/SO_0000737 sequence http://purl.obolibrary.org/obo/SO_0000737 SO:0000737 http://purl.obolibrary.org/obo/SO_0000737 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000737 mitochondrial_sequence http://purl.obolibrary.org/obo/SO_0000738 nuclear sequence http://purl.obolibrary.org/obo/SO_0000738 sequence http://purl.obolibrary.org/obo/SO_0000738 SO:0000738 http://purl.obolibrary.org/obo/SO_0000738 nuclear_sequence http://purl.obolibrary.org/obo/SO_0000739 nucleomorphic sequence http://purl.obolibrary.org/obo/SO_0000739 sequence http://purl.obolibrary.org/obo/SO_0000739 SO:0000739 http://purl.obolibrary.org/obo/SO_0000739 nucleomorphic_sequence http://purl.obolibrary.org/obo/SO_0000740 plastid sequence http://purl.obolibrary.org/obo/SO_0000740 sequence http://purl.obolibrary.org/obo/SO_0000740 SO:0000740 http://purl.obolibrary.org/obo/SO_0000740 plastid_sequence PMID:8395055 http://purl.obolibrary.org/obo/SO_0000741 A kinetoplast is an interlocked network of thousands of minicircles and tens of maxicircles, located near the base of the flagellum of some protozoan species. http://purl.obolibrary.org/obo/SO_0000741 SO:0000826 wiki http://purl.obolibrary.org/obo/SO_0000741 http://en.wikipedia.org/wiki/Kinetoplast http://purl.obolibrary.org/obo/SO_0000741 kinetoplast_chromosome http://purl.obolibrary.org/obo/SO_0000741 sequence http://purl.obolibrary.org/obo/SO_0000741 SO:0000741 http://purl.obolibrary.org/obo/SO_0000741 kinetoplast PMID:8395055 http://purl.obolibrary.org/obo/SO_0000742 A maxicircle is a replicon, part of a kinetoplast, that contains open reading frames and replicates via a rolling circle method. http://purl.obolibrary.org/obo/SO_0000742 SO:0000827 http://purl.obolibrary.org/obo/SO_0000742 maxicircle_chromosome http://purl.obolibrary.org/obo/SO_0000742 sequence http://purl.obolibrary.org/obo/SO_0000742 SO:0000742 http://purl.obolibrary.org/obo/SO_0000742 maxicircle http://purl.obolibrary.org/obo/SO_0000743 apicoplast sequence http://purl.obolibrary.org/obo/SO_0000743 sequence http://purl.obolibrary.org/obo/SO_0000743 SO:0000743 http://purl.obolibrary.org/obo/SO_0000743 apicoplast_sequence http://purl.obolibrary.org/obo/SO_0000744 chromoplast sequence http://purl.obolibrary.org/obo/SO_0000744 sequence http://purl.obolibrary.org/obo/SO_0000744 SO:0000744 http://purl.obolibrary.org/obo/SO_0000744 chromoplast_sequence http://purl.obolibrary.org/obo/SO_0000745 chloroplast sequence http://purl.obolibrary.org/obo/SO_0000745 sequence http://purl.obolibrary.org/obo/SO_0000745 SO:0000745 http://purl.obolibrary.org/obo/SO_0000745 chloroplast_sequence http://purl.obolibrary.org/obo/SO_0000746 cyanelle sequence http://purl.obolibrary.org/obo/SO_0000746 sequence http://purl.obolibrary.org/obo/SO_0000746 SO:0000746 http://purl.obolibrary.org/obo/SO_0000746 cyanelle_sequence http://purl.obolibrary.org/obo/SO_0000747 leucoplast sequence http://purl.obolibrary.org/obo/SO_0000747 sequence http://purl.obolibrary.org/obo/SO_0000747 SO:0000747 http://purl.obolibrary.org/obo/SO_0000747 leucoplast_sequence http://purl.obolibrary.org/obo/SO_0000748 proplastid sequence http://purl.obolibrary.org/obo/SO_0000748 sequence http://purl.obolibrary.org/obo/SO_0000748 SO:0000748 http://purl.obolibrary.org/obo/SO_0000748 proplastid_sequence http://purl.obolibrary.org/obo/SO_0000749 plasmid location http://purl.obolibrary.org/obo/SO_0000749 sequence http://purl.obolibrary.org/obo/SO_0000749 SO:0000749 http://purl.obolibrary.org/obo/SO_0000749 plasmid_location SO:ma http://purl.obolibrary.org/obo/SO_0000750 An origin_of_replication that is used for the amplification of a chromosomal nucleic acid sequence. http://purl.obolibrary.org/obo/SO_0000750 amplification origin http://purl.obolibrary.org/obo/SO_0000750 sequence http://purl.obolibrary.org/obo/SO_0000750 SO:0000750 http://purl.obolibrary.org/obo/SO_0000750 amplification_origin http://purl.obolibrary.org/obo/SO_0000751 proviral location http://purl.obolibrary.org/obo/SO_0000751 sequence http://purl.obolibrary.org/obo/SO_0000751 SO:0000751 http://purl.obolibrary.org/obo/SO_0000751 proviral_location http://purl.obolibrary.org/obo/SO_0000752 gene group regulatory region http://purl.obolibrary.org/obo/SO_0000752 sequence http://purl.obolibrary.org/obo/SO_0000752 SO:0000752 http://purl.obolibrary.org/obo/SO_0000752 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000752 gene_group_regulatory_region SO:ke http://purl.obolibrary.org/obo/SO_0000753 The region of sequence that has been inserted and is being propagated by the clone. http://purl.obolibrary.org/obo/SO_0000753 clone insert http://purl.obolibrary.org/obo/SO_0000753 sequence http://purl.obolibrary.org/obo/SO_0000753 SO:0000753 http://purl.obolibrary.org/obo/SO_0000753 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000753 clone_insert ISBN:0-1767-2380-8 http://purl.obolibrary.org/obo/SO_0000754 The lambda bacteriophage is the vector for the linear lambda clone. The genes involved in the lysogenic pathway are removed from the from the viral DNA. Up to 25 kb of foreign DNA can then be inserted into the lambda genome. http://purl.obolibrary.org/obo/SO_0000754 lambda vector http://purl.obolibrary.org/obo/SO_0000754 sequence http://purl.obolibrary.org/obo/SO_0000754 SO:0000754 http://purl.obolibrary.org/obo/SO_0000754 lambda_vector wiki http://purl.obolibrary.org/obo/SO_0000755 http://en.wikipedia.org/wiki/Plasmid_vector#Vectors http://purl.obolibrary.org/obo/SO_0000755 plasmid vector http://purl.obolibrary.org/obo/SO_0000755 sequence http://purl.obolibrary.org/obo/SO_0000755 SO:0000755 http://purl.obolibrary.org/obo/SO_0000755 plasmid_vector SO:ma http://purl.obolibrary.org/obo/SO_0000756 DNA synthesized by reverse transcriptase using RNA as a template. wiki http://purl.obolibrary.org/obo/SO_0000756 http://en.wikipedia.org/wiki/CDNA http://purl.obolibrary.org/obo/SO_0000756 complementary DNA http://purl.obolibrary.org/obo/SO_0000756 sequence http://purl.obolibrary.org/obo/SO_0000756 SO:0000756 http://purl.obolibrary.org/obo/SO_0000756 cDNA http://purl.obolibrary.org/obo/SO_0000757 single strand cDNA http://purl.obolibrary.org/obo/SO_0000757 single stranded cDNA http://purl.obolibrary.org/obo/SO_0000757 sequence http://purl.obolibrary.org/obo/SO_0000757 single-strand cDNA http://purl.obolibrary.org/obo/SO_0000757 SO:0000757 http://purl.obolibrary.org/obo/SO_0000757 single_stranded_cDNA http://purl.obolibrary.org/obo/SO_0000758 double stranded cDNA http://purl.obolibrary.org/obo/SO_0000758 sequence http://purl.obolibrary.org/obo/SO_0000758 double strand cDNA http://purl.obolibrary.org/obo/SO_0000758 double-strand cDNA http://purl.obolibrary.org/obo/SO_0000758 SO:0000758 http://purl.obolibrary.org/obo/SO_0000758 double_stranded_cDNA http://purl.obolibrary.org/obo/SO_0000759 sequence http://purl.obolibrary.org/obo/SO_0000759 SO:0000759 http://purl.obolibrary.org/obo/SO_0000759 plasmid_clone http://purl.obolibrary.org/obo/SO_0000759 true http://purl.obolibrary.org/obo/SO_0000760 sequence http://purl.obolibrary.org/obo/SO_0000760 SO:0000760 http://purl.obolibrary.org/obo/SO_0000760 YAC_clone http://purl.obolibrary.org/obo/SO_0000760 true http://purl.obolibrary.org/obo/SO_0000761 sequence http://purl.obolibrary.org/obo/SO_0000761 SO:0000761 http://purl.obolibrary.org/obo/SO_0000761 phagemid_clone http://purl.obolibrary.org/obo/SO_0000761 true http://purl.obolibrary.org/obo/SO_0000762 sequence http://purl.obolibrary.org/obo/SO_0000762 P1_clone http://purl.obolibrary.org/obo/SO_0000762 SO:0000762 http://purl.obolibrary.org/obo/SO_0000762 PAC_clone http://purl.obolibrary.org/obo/SO_0000762 true http://purl.obolibrary.org/obo/SO_0000763 sequence http://purl.obolibrary.org/obo/SO_0000763 SO:0000763 http://purl.obolibrary.org/obo/SO_0000763 fosmid_clone http://purl.obolibrary.org/obo/SO_0000763 true http://purl.obolibrary.org/obo/SO_0000764 sequence http://purl.obolibrary.org/obo/SO_0000764 SO:0000764 http://purl.obolibrary.org/obo/SO_0000764 BAC_clone http://purl.obolibrary.org/obo/SO_0000764 true http://purl.obolibrary.org/obo/SO_0000765 sequence http://purl.obolibrary.org/obo/SO_0000765 SO:0000765 http://purl.obolibrary.org/obo/SO_0000765 cosmid_clone http://purl.obolibrary.org/obo/SO_0000765 true SO:ke http://purl.obolibrary.org/obo/SO_0000766 A tRNA sequence that has a pyrrolysine anticodon, and a 3' pyrrolysine binding region. http://purl.obolibrary.org/obo/SO_0000766 pyrrolysyl tRNA http://purl.obolibrary.org/obo/SO_0000766 pyrrolysyl-transfer RNA http://purl.obolibrary.org/obo/SO_0000766 pyrrolysyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0000766 sequence http://purl.obolibrary.org/obo/SO_0000766 SO:0000766 http://purl.obolibrary.org/obo/SO_0000766 pyrrolysyl_tRNA http://purl.obolibrary.org/obo/SO_0000767 sequence http://purl.obolibrary.org/obo/SO_0000767 SO:0000767 http://purl.obolibrary.org/obo/SO_0000767 clone_insert_start http://purl.obolibrary.org/obo/SO_0000767 true SO:ma http://purl.obolibrary.org/obo/SO_0000768 A plasmid that may integrate with a chromosome. http://purl.obolibrary.org/obo/SO_0000768 sequence http://purl.obolibrary.org/obo/SO_0000768 SO:0000768 http://purl.obolibrary.org/obo/SO_0000768 episome Indiana:kw doi:10.1093/nar/gkh795 issn:1362-4962 http://purl.obolibrary.org/obo/SO_0000769 The region of a two-piece tmRNA that bears the reading frame encoding the proteolysis tag. The tmRNA gene undergoes circular permutation in some groups of bacteria. Processing of the transcripts from such a gene leaves the mature tmRNA in two pieces, base-paired together. http://purl.obolibrary.org/obo/SO_0000769 tmRNA coding piece http://purl.obolibrary.org/obo/SO_0000769 sequence http://purl.obolibrary.org/obo/SO_0000769 SO:0000769 http://purl.obolibrary.org/obo/SO_0000769 Added in response to comment from Kelly Williams from Indiana. Nov 2005. http://purl.obolibrary.org/obo/SO_0000769 tmRNA_coding_piece Indiana:kw doi:10.1093/nar/gkh795 http://purl.obolibrary.org/obo/SO_0000770 The acceptor region of a two-piece tmRNA that when mature is charged at its 3' end with alanine. The tmRNA gene undergoes circular permutation in some groups of bacteria; processing of the transcripts from such a gene leaves the mature tmRNA in two pieces, base-paired together. http://purl.obolibrary.org/obo/SO_0000770 tmRNA acceptor piece http://purl.obolibrary.org/obo/SO_0000770 sequence http://purl.obolibrary.org/obo/SO_0000770 SO:0000770 http://purl.obolibrary.org/obo/SO_0000770 Added in response to Kelly Williams from Indiana. Date: Nov 2005. http://purl.obolibrary.org/obo/SO_0000770 tmRNA_acceptor_piece http://rgd.mcw.edu/tu/qtls/ http://purl.obolibrary.org/obo/SO_0000771 A quantitative trait locus (QTL) is a polymorphic locus which contains alleles that differentially affect the expression of a continuously distributed phenotypic trait. Usually it is a marker described by statistical association to quantitative variation in the particular phenotypic trait that is thought to be controlled by the cumulative action of alleles at multiple loci. http://purl.obolibrary.org/obo/SO_0000771 quantitative trait locus http://purl.obolibrary.org/obo/SO_0000771 sequence http://purl.obolibrary.org/obo/SO_0000771 SO:0000771 http://purl.obolibrary.org/obo/SO_0000771 Added in respose to request by Simon Twigger November 14th 2005. http://purl.obolibrary.org/obo/SO_0000771 QTL Phigo:at SO:ke http://purl.obolibrary.org/obo/SO_0000772 A genomic island is an integrated mobile genetic element, characterized by size (over 10 Kb). It that has features that suggest a foreign origin. These can include nucleotide distribution (oligonucleotides signature, CG content etc.) that differs from the bulk of the chromosome and/or genes suggesting DNA mobility. wiki http://purl.obolibrary.org/obo/SO_0000772 http://en.wikipedia.org/wiki/Genomic_island http://purl.obolibrary.org/obo/SO_0000772 genomic island http://purl.obolibrary.org/obo/SO_0000772 sequence http://purl.obolibrary.org/obo/SO_0000772 SO:0000772 http://purl.obolibrary.org/obo/SO_0000772 Genomic islands are transmissible elements characterized by large size (>10kb). http://purl.obolibrary.org/obo/SO_0000772 genomic_island SO:ke http://purl.obolibrary.org/obo/SO_0000773 Mobile genetic elements that contribute to rapid changes in virulence potential. They are present on the genomes of pathogenic strains but absent from the genomes of non pathogenic members of the same or related species. http://purl.obolibrary.org/obo/SO_0000773 pathogenic island http://purl.obolibrary.org/obo/SO_0000773 sequence http://purl.obolibrary.org/obo/SO_0000773 SO:0000773 http://purl.obolibrary.org/obo/SO_0000773 Nature Reviews Microbiology 2, 414-424 (2004); doi:10.1038 micro 884 GENOMIC ISLANDS IN PATHOGENIC AND ENVIRONMENTAL MICROORGANISMS Ulrich Dobrindt, Bianca Hochhut, Ute Hentschel & Jorg Hacker. http://purl.obolibrary.org/obo/SO_0000773 pathogenic_island SO:ke http://purl.obolibrary.org/obo/SO_0000774 A transmissible element containing genes involved in metabolism, analogous to the pathogenicity islands of gram negative bacteria. http://purl.obolibrary.org/obo/SO_0000774 metabolic island http://purl.obolibrary.org/obo/SO_0000774 sequence http://purl.obolibrary.org/obo/SO_0000774 SO:0000774 http://purl.obolibrary.org/obo/SO_0000774 Genes for phenolic compound degradation in Pseudomonas putida are found on metabolic islands. http://purl.obolibrary.org/obo/SO_0000774 metabolic_island SO:ke http://purl.obolibrary.org/obo/SO_0000775 An adaptive island is a genomic island that provides an adaptive advantage to the host. http://purl.obolibrary.org/obo/SO_0000775 adaptive island http://purl.obolibrary.org/obo/SO_0000775 sequence http://purl.obolibrary.org/obo/SO_0000775 SO:0000775 http://purl.obolibrary.org/obo/SO_0000775 The iron-uptake ability of many pathogens are conveyed by adaptive islands. Nature Reviews Microbiology 2, 414-424 (2004); doi:10.1038 micro 884 GENOMIC ISLANDS IN PATHOGENIC AND ENVIRONMENTAL MICROORGANISMS Ulrich Dobrindt, Bianca Hochhut, Ute Hentschel & Jorg Hacker. http://purl.obolibrary.org/obo/SO_0000775 adaptive_island SO:ke http://purl.obolibrary.org/obo/SO_0000776 A transmissible element containing genes involved in symbiosis, analogous to the pathogenicity islands of gram negative bacteria. http://purl.obolibrary.org/obo/SO_0000776 symbiosis island http://purl.obolibrary.org/obo/SO_0000776 sequence http://purl.obolibrary.org/obo/SO_0000776 SO:0000776 http://purl.obolibrary.org/obo/SO_0000776 Nitrogen fixation in Rhizobiaceae species is encoded by symbiosis islands. Evolution of rhizobia by acquisition of a 500-kb symbiosis island that integrates into a phe-tRNA gene. John T. Sullivan and Clive W. Ronso PNAS 1998 Apr 28 95 (9) 5145-5149. http://purl.obolibrary.org/obo/SO_0000776 symbiosis_island SO:ke http://purl.obolibrary.org/obo/SO_0000777 A non functional descendant of an rRNA. http://purl.obolibrary.org/obo/SO_0000777 pseudogenic rRNA http://purl.obolibrary.org/obo/SO_0000777 sequence http://purl.obolibrary.org/obo/SO_0000777 SO:0000777 http://purl.obolibrary.org/obo/SO_0000777 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000777 Added Jan 2006 to allow the annotation of the pseudogenic rRNA by flybase. Non-functional is defined as its transcription is prevented due to one or more mutatations. http://purl.obolibrary.org/obo/SO_0000777 pseudogenic_rRNA SO:ke http://purl.obolibrary.org/obo/SO_0000778 A non functional descendent of a tRNA. http://purl.obolibrary.org/obo/SO_0000778 pseudogenic tRNA http://purl.obolibrary.org/obo/SO_0000778 sequence http://purl.obolibrary.org/obo/SO_0000778 SO:0000778 http://purl.obolibrary.org/obo/SO_0000778 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000778 Added Jan 2006 to allow the annotation of the pseudogenic tRNA by flybase. Non-functional is defined as its transcription is prevented due to one or more mutatations. http://purl.obolibrary.org/obo/SO_0000778 pseudogenic_tRNA SO:xp http://purl.obolibrary.org/obo/SO_0000779 An episome that is engineered. http://purl.obolibrary.org/obo/SO_0000779 engineered episome http://purl.obolibrary.org/obo/SO_0000779 sequence http://purl.obolibrary.org/obo/SO_0000779 SO:0000779 http://purl.obolibrary.org/obo/SO_0000779 Requested by Lynn Crosby Jan 2006. http://purl.obolibrary.org/obo/SO_0000779 engineered_episome http://purl.obolibrary.org/obo/SO_0000780 sequence http://purl.obolibrary.org/obo/SO_0000780 SO:0000780 http://purl.obolibrary.org/obo/SO_0000780 Added by KE Jan 2006 to capture the kinds of attributes of TEs http://purl.obolibrary.org/obo/SO_0000780 transposable_element_attribute http://purl.obolibrary.org/obo/SO_0000780 true SO:ke http://purl.obolibrary.org/obo/SO_0000781 Attribute describing sequence that has been integrated with foreign sequence. http://purl.obolibrary.org/obo/SO_0000781 sequence http://purl.obolibrary.org/obo/SO_0000781 SO:0000781 http://purl.obolibrary.org/obo/SO_0000781 transgenic SO:ke http://purl.obolibrary.org/obo/SO_0000782 An attribute describing a feature that occurs in nature. http://purl.obolibrary.org/obo/SO_0000782 sequence http://purl.obolibrary.org/obo/SO_0000782 SO:0000782 http://purl.obolibrary.org/obo/SO_0000782 natural SO:ke http://purl.obolibrary.org/obo/SO_0000783 An attribute to describe a region that was modified in vitro. http://purl.obolibrary.org/obo/SO_0000783 sequence http://purl.obolibrary.org/obo/SO_0000783 SO:0000783 http://purl.obolibrary.org/obo/SO_0000783 engineered SO:ke http://purl.obolibrary.org/obo/SO_0000784 An attribute to describe a region from another species. http://purl.obolibrary.org/obo/SO_0000784 sequence http://purl.obolibrary.org/obo/SO_0000784 SO:0000784 http://purl.obolibrary.org/obo/SO_0000784 foreign http://purl.obolibrary.org/obo/SO_0000785 cloned region http://purl.obolibrary.org/obo/SO_0000785 cloned segment http://purl.obolibrary.org/obo/SO_0000785 sequence http://purl.obolibrary.org/obo/SO_0000785 SO:0000785 http://purl.obolibrary.org/obo/SO_0000785 Added in response to Lynn Crosby. A clone insert may be composed of many cloned regions. http://purl.obolibrary.org/obo/SO_0000785 cloned_region http://purl.obolibrary.org/obo/SO_0000786 reagent attribute http://purl.obolibrary.org/obo/SO_0000786 sequence http://purl.obolibrary.org/obo/SO_0000786 SO:0000786 http://purl.obolibrary.org/obo/SO_0000786 Added jan 2006 by KE. http://purl.obolibrary.org/obo/SO_0000786 reagent_attribute http://purl.obolibrary.org/obo/SO_0000786 true http://purl.obolibrary.org/obo/SO_0000787 sequence http://purl.obolibrary.org/obo/SO_0000787 SO:0000787 http://purl.obolibrary.org/obo/SO_0000787 clone_attribute http://purl.obolibrary.org/obo/SO_0000787 true http://purl.obolibrary.org/obo/SO_0000788 sequence http://purl.obolibrary.org/obo/SO_0000788 SO:0000788 http://purl.obolibrary.org/obo/SO_0000788 cloned http://purl.obolibrary.org/obo/SO_0000788 true SO:ke http://purl.obolibrary.org/obo/SO_0000789 An attribute to describe a feature that has been proven. http://purl.obolibrary.org/obo/SO_0000789 sequence http://purl.obolibrary.org/obo/SO_0000789 SO:0000789 http://purl.obolibrary.org/obo/SO_0000789 validated SO:ke http://purl.obolibrary.org/obo/SO_0000790 An attribute describing a feature that is invalidated. http://purl.obolibrary.org/obo/SO_0000790 sequence http://purl.obolibrary.org/obo/SO_0000790 SO:0000790 http://purl.obolibrary.org/obo/SO_0000790 invalidated http://purl.obolibrary.org/obo/SO_0000791 sequence http://purl.obolibrary.org/obo/SO_0000791 SO:0000791 http://purl.obolibrary.org/obo/SO_0000791 cloned_genomic http://purl.obolibrary.org/obo/SO_0000791 true http://purl.obolibrary.org/obo/SO_0000792 sequence http://purl.obolibrary.org/obo/SO_0000792 SO:0000792 http://purl.obolibrary.org/obo/SO_0000792 cloned_cDNA http://purl.obolibrary.org/obo/SO_0000792 true http://purl.obolibrary.org/obo/SO_0000793 sequence http://purl.obolibrary.org/obo/SO_0000793 SO:0000793 http://purl.obolibrary.org/obo/SO_0000793 engineered_DNA http://purl.obolibrary.org/obo/SO_0000793 true SO:xp http://purl.obolibrary.org/obo/SO_0000794 A rescue region that is engineered. http://purl.obolibrary.org/obo/SO_0000794 engineered rescue fragment http://purl.obolibrary.org/obo/SO_0000794 engineered rescue region http://purl.obolibrary.org/obo/SO_0000794 engineered rescue segment http://purl.obolibrary.org/obo/SO_0000794 sequence http://purl.obolibrary.org/obo/SO_0000794 SO:0000794 http://purl.obolibrary.org/obo/SO_0000794 engineered_rescue_region SO:xp http://purl.obolibrary.org/obo/SO_0000795 A mini_gene that rescues. http://purl.obolibrary.org/obo/SO_0000795 rescue mini gene http://purl.obolibrary.org/obo/SO_0000795 rescue mini-gene http://purl.obolibrary.org/obo/SO_0000795 sequence http://purl.obolibrary.org/obo/SO_0000795 SO:0000795 http://purl.obolibrary.org/obo/SO_0000795 rescue_mini_gene FB:mc http://purl.obolibrary.org/obo/SO_0000796 TE that has been modified in vitro, including insertion of DNA derived from a source other than the originating TE. http://purl.obolibrary.org/obo/SO_0000796 transgenic transposable element http://purl.obolibrary.org/obo/SO_0000796 sequence http://purl.obolibrary.org/obo/SO_0000796 SO:0000796 http://purl.obolibrary.org/obo/SO_0000796 Modified as requested by Lynn - FB. May 2007. http://purl.obolibrary.org/obo/SO_0000796 transgenic_transposable_element FB:mc http://purl.obolibrary.org/obo/SO_0000797 TE that exists (or existed) in nature. http://purl.obolibrary.org/obo/SO_0000797 natural transposable element http://purl.obolibrary.org/obo/SO_0000797 sequence http://purl.obolibrary.org/obo/SO_0000797 SO:0000797 http://purl.obolibrary.org/obo/SO_0000797 natural_transposable_element FB:mc http://purl.obolibrary.org/obo/SO_0000798 TE that has been modified by manipulations in vitro. http://purl.obolibrary.org/obo/SO_0000798 engineered transposable element http://purl.obolibrary.org/obo/SO_0000798 sequence http://purl.obolibrary.org/obo/SO_0000798 SO:0000798 http://purl.obolibrary.org/obo/SO_0000798 engineered_transposable_element FB:mc http://purl.obolibrary.org/obo/SO_0000799 A transposable_element that is engineered and foreign. http://purl.obolibrary.org/obo/SO_0000799 engineered foreign transposable element http://purl.obolibrary.org/obo/SO_0000799 sequence http://purl.obolibrary.org/obo/SO_0000799 SO:0000799 http://purl.obolibrary.org/obo/SO_0000799 engineered_foreign_transposable_element FB:gm http://purl.obolibrary.org/obo/SO_0000800 A multi-chromosome duplication aberration generated by reassortment of other aberration components. http://purl.obolibrary.org/obo/SO_0000800 assortment derived duplication http://purl.obolibrary.org/obo/SO_0000800 sequence http://purl.obolibrary.org/obo/SO_0000800 SO:0000800 http://purl.obolibrary.org/obo/SO_0000800 assortment_derived_duplication FB:gm http://purl.obolibrary.org/obo/SO_0000801 A multi-chromosome aberration generated by reassortment of other aberration components; presumed to have a deficiency and a duplication. http://purl.obolibrary.org/obo/SO_0000801 assortment derived deficiency plus duplication http://purl.obolibrary.org/obo/SO_0000801 sequence http://purl.obolibrary.org/obo/SO_0000801 SO:0000801 http://purl.obolibrary.org/obo/SO_0000801 assortment_derived_deficiency_plus_duplication FB:gm http://purl.obolibrary.org/obo/SO_0000802 A multi-chromosome deficiency aberration generated by reassortment of other aberration components. http://purl.obolibrary.org/obo/SO_0000802 assortment-derived deficiency http://purl.obolibrary.org/obo/SO_0000802 sequence http://purl.obolibrary.org/obo/SO_0000802 SO:0000802 http://purl.obolibrary.org/obo/SO_0000802 assortment_derived_deficiency FB:gm http://purl.obolibrary.org/obo/SO_0000803 A multi-chromosome aberration generated by reassortment of other aberration components; presumed to have a deficiency or a duplication. http://purl.obolibrary.org/obo/SO_0000803 assortment derived aneuploid http://purl.obolibrary.org/obo/SO_0000803 sequence http://purl.obolibrary.org/obo/SO_0000803 SO:0000803 http://purl.obolibrary.org/obo/SO_0000803 assortment_derived_aneuploid SO:xp http://purl.obolibrary.org/obo/SO_0000804 A region that is engineered. http://purl.obolibrary.org/obo/SO_0000804 construct http://purl.obolibrary.org/obo/SO_0000804 engineered region http://purl.obolibrary.org/obo/SO_0000804 engineered sequence http://purl.obolibrary.org/obo/SO_0000804 sequence http://purl.obolibrary.org/obo/SO_0000804 SO:0000804 http://purl.obolibrary.org/obo/SO_0000804 engineered_region SO:xp http://purl.obolibrary.org/obo/SO_0000805 A region that is engineered and foreign. http://purl.obolibrary.org/obo/SO_0000805 engineered foreign region http://purl.obolibrary.org/obo/SO_0000805 sequence http://purl.obolibrary.org/obo/SO_0000805 SO:0000805 http://purl.obolibrary.org/obo/SO_0000805 engineered_foreign_region http://purl.obolibrary.org/obo/SO_0000806 sequence http://purl.obolibrary.org/obo/SO_0000806 SO:0000806 http://purl.obolibrary.org/obo/SO_0000806 fusion SO:xp http://purl.obolibrary.org/obo/SO_0000807 A tag that is engineered. http://purl.obolibrary.org/obo/SO_0000807 engineered tag http://purl.obolibrary.org/obo/SO_0000807 sequence http://purl.obolibrary.org/obo/SO_0000807 SO:0000807 http://purl.obolibrary.org/obo/SO_0000807 engineered_tag SO:xp http://purl.obolibrary.org/obo/SO_0000808 A cDNA clone that has been validated. http://purl.obolibrary.org/obo/SO_0000808 validated cDNA clone http://purl.obolibrary.org/obo/SO_0000808 sequence http://purl.obolibrary.org/obo/SO_0000808 SO:0000808 http://purl.obolibrary.org/obo/SO_0000808 validated_cDNA_clone SO:xp http://purl.obolibrary.org/obo/SO_0000809 A cDNA clone that is invalid. http://purl.obolibrary.org/obo/SO_0000809 invalidated cDNA clone http://purl.obolibrary.org/obo/SO_0000809 sequence http://purl.obolibrary.org/obo/SO_0000809 SO:0000809 http://purl.obolibrary.org/obo/SO_0000809 invalidated_cDNA_clone SO:xp http://purl.obolibrary.org/obo/SO_0000810 A cDNA clone invalidated because it is chimeric. http://purl.obolibrary.org/obo/SO_0000810 chimeric cDNA clone http://purl.obolibrary.org/obo/SO_0000810 sequence http://purl.obolibrary.org/obo/SO_0000810 SO:0000810 http://purl.obolibrary.org/obo/SO_0000810 chimeric_cDNA_clone SO:xp http://purl.obolibrary.org/obo/SO_0000811 A cDNA clone invalidated by genomic contamination. http://purl.obolibrary.org/obo/SO_0000811 genomically contaminated cDNA clone http://purl.obolibrary.org/obo/SO_0000811 sequence http://purl.obolibrary.org/obo/SO_0000811 SO:0000811 http://purl.obolibrary.org/obo/SO_0000811 genomically_contaminated_cDNA_clone SO:xp http://purl.obolibrary.org/obo/SO_0000812 A cDNA clone invalidated by polyA priming. http://purl.obolibrary.org/obo/SO_0000812 polyA primed cDNA clone http://purl.obolibrary.org/obo/SO_0000812 sequence http://purl.obolibrary.org/obo/SO_0000812 SO:0000812 http://purl.obolibrary.org/obo/SO_0000812 polyA_primed_cDNA_clone SO:xp http://purl.obolibrary.org/obo/SO_0000813 A cDNA invalidated clone by partial processing. http://purl.obolibrary.org/obo/SO_0000813 partially processed cDNA clone http://purl.obolibrary.org/obo/SO_0000813 sequence http://purl.obolibrary.org/obo/SO_0000813 SO:0000813 http://purl.obolibrary.org/obo/SO_0000813 partially_processed_cDNA_clone SO:ke http://purl.obolibrary.org/obo/SO_0000814 An attribute describing a region's ability, when introduced to a mutant organism, to re-establish (rescue) a phenotype. http://purl.obolibrary.org/obo/SO_0000814 sequence http://purl.obolibrary.org/obo/SO_0000814 SO:0000814 http://purl.obolibrary.org/obo/SO_0000814 rescue PMID:15992143 http://purl.obolibrary.org/obo/SO_0000815 By definition, minigenes are short open-reading frames (ORF), usually encoding approximately 9 to 20 amino acids, which are expressed in vivo (as distinct from being synthesized as peptide or protein ex vivo and subsequently injected). The in vivo synthesis confers a distinct advantage: the expressed sequences can enter both antigen presentation pathways, MHC I (inducing CD8+ T- cells, which are usually cytotoxic T-lymphocytes (CTL)) and MHC II (inducing CD4+ T-cells, usually 'T-helpers' (Th)); and can encounter B-cells, inducing antibody responses. Three main vector approaches have been used to deliver minigenes: viral vectors, bacterial vectors and plasmid DNA. http://purl.obolibrary.org/obo/SO_0000815 mini gene http://purl.obolibrary.org/obo/SO_0000815 sequence http://purl.obolibrary.org/obo/SO_0000815 SO:0000815 http://purl.obolibrary.org/obo/SO_0000815 mini_gene SO:xp http://purl.obolibrary.org/obo/SO_0000816 A gene that rescues. http://purl.obolibrary.org/obo/SO_0000816 rescue gene http://purl.obolibrary.org/obo/SO_0000816 sequence http://purl.obolibrary.org/obo/SO_0000816 SO:0000816 http://purl.obolibrary.org/obo/SO_0000816 rescue_gene SO:ke http://purl.obolibrary.org/obo/SO_0000817 An attribute describing sequence with the genotype found in nature and/or standard laboratory stock. wiki http://purl.obolibrary.org/obo/SO_0000817 http://en.wikipedia.org/wiki/Wild_type wild type http://purl.obolibrary.org/obo/SO_0000817 loinc:LA9658-1 http://purl.obolibrary.org/obo/SO_0000817 wild type http://purl.obolibrary.org/obo/SO_0000817 sequence http://purl.obolibrary.org/obo/SO_0000817 SO:0000817 http://purl.obolibrary.org/obo/SO_0000817 wild_type SO:xp http://purl.obolibrary.org/obo/SO_0000818 A gene that rescues. http://purl.obolibrary.org/obo/SO_0000818 wild type rescue gene http://purl.obolibrary.org/obo/SO_0000818 sequence http://purl.obolibrary.org/obo/SO_0000818 SO:0000818 http://purl.obolibrary.org/obo/SO_0000818 wild_type_rescue_gene SO:xp http://purl.obolibrary.org/obo/SO_0000819 A chromosome originating in a mitochondria. http://purl.obolibrary.org/obo/SO_0000819 mitochondrial chromosome http://purl.obolibrary.org/obo/SO_0000819 sequence http://purl.obolibrary.org/obo/SO_0000819 SO:0000819 http://purl.obolibrary.org/obo/SO_0000819 mitochondrial_chromosome SO:xp http://purl.obolibrary.org/obo/SO_0000820 A chromosome originating in a chloroplast. http://purl.obolibrary.org/obo/SO_0000820 chloroplast chromosome http://purl.obolibrary.org/obo/SO_0000820 sequence http://purl.obolibrary.org/obo/SO_0000820 SO:0000820 http://purl.obolibrary.org/obo/SO_0000820 chloroplast_chromosome SO:xp http://purl.obolibrary.org/obo/SO_0000821 A chromosome originating in a chromoplast. http://purl.obolibrary.org/obo/SO_0000821 chromoplast chromosome http://purl.obolibrary.org/obo/SO_0000821 sequence http://purl.obolibrary.org/obo/SO_0000821 SO:0000821 http://purl.obolibrary.org/obo/SO_0000821 chromoplast_chromosome SO:xp http://purl.obolibrary.org/obo/SO_0000822 A chromosome originating in a cyanelle. http://purl.obolibrary.org/obo/SO_0000822 cyanelle chromosome http://purl.obolibrary.org/obo/SO_0000822 sequence http://purl.obolibrary.org/obo/SO_0000822 SO:0000822 http://purl.obolibrary.org/obo/SO_0000822 cyanelle_chromosome SO:xp http://purl.obolibrary.org/obo/SO_0000823 A chromosome with origin in a leucoplast. http://purl.obolibrary.org/obo/SO_0000823 leucoplast chromosome http://purl.obolibrary.org/obo/SO_0000823 sequence http://purl.obolibrary.org/obo/SO_0000823 SO:0000823 http://purl.obolibrary.org/obo/SO_0000823 leucoplast_chromosome SO:xp http://purl.obolibrary.org/obo/SO_0000824 A chromosome originating in a macronucleus. http://purl.obolibrary.org/obo/SO_0000824 macronuclear chromosome http://purl.obolibrary.org/obo/SO_0000824 sequence http://purl.obolibrary.org/obo/SO_0000824 SO:0000824 http://purl.obolibrary.org/obo/SO_0000824 macronuclear_chromosome SO:xp http://purl.obolibrary.org/obo/SO_0000825 A chromosome originating in a micronucleus. http://purl.obolibrary.org/obo/SO_0000825 micronuclear chromosome http://purl.obolibrary.org/obo/SO_0000825 sequence http://purl.obolibrary.org/obo/SO_0000825 SO:0000825 http://purl.obolibrary.org/obo/SO_0000825 micronuclear_chromosome SO:xp http://purl.obolibrary.org/obo/SO_0000828 A chromosome originating in a nucleus. http://purl.obolibrary.org/obo/SO_0000828 nuclear chromosome http://purl.obolibrary.org/obo/SO_0000828 sequence http://purl.obolibrary.org/obo/SO_0000828 SO:0000828 http://purl.obolibrary.org/obo/SO_0000828 nuclear_chromosome SO:xp http://purl.obolibrary.org/obo/SO_0000829 A chromosome originating in a nucleomorph. http://purl.obolibrary.org/obo/SO_0000829 nucleomorphic chromosome http://purl.obolibrary.org/obo/SO_0000829 sequence http://purl.obolibrary.org/obo/SO_0000829 SO:0000829 http://purl.obolibrary.org/obo/SO_0000829 nucleomorphic_chromosome SO:ke http://purl.obolibrary.org/obo/SO_0000830 A region of a chromosome. http://purl.obolibrary.org/obo/SO_0000830 chromosome part http://purl.obolibrary.org/obo/SO_0000830 sequence http://purl.obolibrary.org/obo/SO_0000830 SO:0000830 http://purl.obolibrary.org/obo/SO_0000830 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000830 This is a manufactured term, that serves the purpose of allow the parts of a chromosome to have an is_a path to the root. http://purl.obolibrary.org/obo/SO_0000830 chromosome_part SO:ke http://purl.obolibrary.org/obo/SO_0000831 A region of a gene. http://purl.obolibrary.org/obo/SO_0000831 gene member region http://purl.obolibrary.org/obo/SO_0000831 sequence http://purl.obolibrary.org/obo/SO_0000831 SO:0000831 http://purl.obolibrary.org/obo/SO_0000831 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000831 A manufactured term used to allow the parts of a gene to have an is_a path to the root. http://purl.obolibrary.org/obo/SO_0000831 gene_member_region SO:ke http://purl.obolibrary.org/obo/SO_0000832 A region of sequence which is part of a promoter. http://purl.obolibrary.org/obo/SO_0000832 sequence http://purl.obolibrary.org/obo/SO_0000832 SO:0000832 http://purl.obolibrary.org/obo/SO_0000832 This is a manufactured term to allow the parts of promoter to have an is_a path back to the root. http://purl.obolibrary.org/obo/SO_0000832 promoter_region http://purl.obolibrary.org/obo/SO_0000832 true SO:ke http://purl.obolibrary.org/obo/SO_0000833 A region of a transcript. http://purl.obolibrary.org/obo/SO_0000833 transcript region http://purl.obolibrary.org/obo/SO_0000833 sequence http://purl.obolibrary.org/obo/SO_0000833 SO:0000833 http://purl.obolibrary.org/obo/SO_0000833 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000833 This term was added to provide a grouping term for the region parts of transcript, thus giving them an is_a path back to the root. http://purl.obolibrary.org/obo/SO_0000833 transcript_region SO:ke http://purl.obolibrary.org/obo/SO_0000834 A region of a mature transcript. http://purl.obolibrary.org/obo/SO_0000834 mature transcript region http://purl.obolibrary.org/obo/SO_0000834 sequence http://purl.obolibrary.org/obo/SO_0000834 SO:0000834 http://purl.obolibrary.org/obo/SO_0000834 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000834 A manufactured term to collect together the parts of a mature transcript and give them an is_a path to the root. http://purl.obolibrary.org/obo/SO_0000834 mature_transcript_region SO:ke http://purl.obolibrary.org/obo/SO_0000835 A part of a primary transcript. http://purl.obolibrary.org/obo/SO_0000835 primary transcript region http://purl.obolibrary.org/obo/SO_0000835 sequence http://purl.obolibrary.org/obo/SO_0000835 SO:0000835 http://purl.obolibrary.org/obo/SO_0000835 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000835 This term was added to provide a grouping term for the region parts of primary_transcript, thus giving them an is_a path back to the root. http://purl.obolibrary.org/obo/SO_0000835 primary_transcript_region SO:cb http://purl.obolibrary.org/obo/SO_0000836 A region of an mRNA. http://purl.obolibrary.org/obo/SO_0000836 mRNA region http://purl.obolibrary.org/obo/SO_0000836 sequence http://purl.obolibrary.org/obo/SO_0000836 SO:0000836 http://purl.obolibrary.org/obo/SO_0000836 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000836 This term was added to provide a grouping term for the region parts of mRNA, thus giving them an is_a path back to the root. http://purl.obolibrary.org/obo/SO_0000836 mRNA_region SO:ke http://purl.obolibrary.org/obo/SO_0000837 A region of UTR. http://purl.obolibrary.org/obo/SO_0000837 UTR region http://purl.obolibrary.org/obo/SO_0000837 sequence http://purl.obolibrary.org/obo/SO_0000837 SO:0000837 http://purl.obolibrary.org/obo/SO_0000837 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000837 A region of UTR. This term is a grouping term to allow the parts of UTR to have an is_a path to the root. http://purl.obolibrary.org/obo/SO_0000837 UTR_region SO:ke http://purl.obolibrary.org/obo/SO_0000838 A region of an rRNA primary transcript. http://purl.obolibrary.org/obo/SO_0000838 rRNA primary transcript region http://purl.obolibrary.org/obo/SO_0000838 sequence http://purl.obolibrary.org/obo/SO_0000838 SO:0000838 http://purl.obolibrary.org/obo/SO_0000838 To allow transcribed_spacer_region to have a path to the root. http://purl.obolibrary.org/obo/SO_0000838 rRNA_primary_transcript_region SO:GAR SO:ke http://purl.obolibrary.org/obo/SO_0000839 Biological sequence region that can be assigned to a specific subsequence of a polypeptide. http://purl.obolibrary.org/obo/SO_0000839 BS:00124 http://purl.obolibrary.org/obo/SO_0000839 BS:00331 uniprot:feature_type http://purl.obolibrary.org/obo/SO_0000839 region uniprot:feature_type http://purl.obolibrary.org/obo/SO_0000839 site http://purl.obolibrary.org/obo/SO_0000839 sequence http://purl.obolibrary.org/obo/SO_0000839 positional http://purl.obolibrary.org/obo/SO_0000839 positional polypeptide feature http://purl.obolibrary.org/obo/SO_0000839 region or site annotation http://purl.obolibrary.org/obo/SO_0000839 SO:0000839 http://purl.obolibrary.org/obo/SO_0000839 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000839 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0000839 Added to allow the polypeptide regions to have is_a paths back to the root. http://purl.obolibrary.org/obo/SO_0000839 polypeptide_region SO:ke http://purl.obolibrary.org/obo/SO_0000840 A region of a repeated sequence. http://purl.obolibrary.org/obo/SO_0000840 repeat component http://purl.obolibrary.org/obo/SO_0000840 sequence http://purl.obolibrary.org/obo/SO_0000840 SO:0000840 http://purl.obolibrary.org/obo/SO_0000840 A manufactured to group the parts of repeats, to give them an is_a path back to the root. http://purl.obolibrary.org/obo/SO_0000840 repeat_component SO:ke http://purl.obolibrary.org/obo/SO_0000841 A region within an intron. http://purl.obolibrary.org/obo/SO_0000841 spliceosomal intron region http://purl.obolibrary.org/obo/SO_0000841 sequence http://purl.obolibrary.org/obo/SO_0000841 SO:0000841 http://purl.obolibrary.org/obo/SO_0000841 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000841 A terms added to allow the parts of introns to have is_a paths to the root. http://purl.obolibrary.org/obo/SO_0000841 spliceosomal_intron_region http://purl.obolibrary.org/obo/SO_0000842 gene component region http://purl.obolibrary.org/obo/SO_0000842 sequence http://purl.obolibrary.org/obo/SO_0000842 SO:0000842 http://purl.obolibrary.org/obo/SO_0000842 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000842 gene_component_region SO:ke http://purl.obolibrary.org/obo/SO_0000843 A region which is part of a bacterial RNA polymerase promoter. http://purl.obolibrary.org/obo/SO_0000843 sequence http://purl.obolibrary.org/obo/SO_0000843 SO:0000843 http://purl.obolibrary.org/obo/SO_0000843 This is a manufactured term to allow the parts of bacterial_RNApol_promoter to have an is_a path back to the root. http://purl.obolibrary.org/obo/SO_0000843 bacterial_RNApol_promoter_region http://purl.obolibrary.org/obo/SO_0000843 true SO:ke http://purl.obolibrary.org/obo/SO_0000844 A region of sequence which is a promoter for RNA polymerase II. http://purl.obolibrary.org/obo/SO_0000844 sequence http://purl.obolibrary.org/obo/SO_0000844 SO:0000844 http://purl.obolibrary.org/obo/SO_0000844 This is a manufactured term to allow the parts of RNApol_II_promoter to have an is_a path back to the root. http://purl.obolibrary.org/obo/SO_0000844 RNApol_II_promoter_region http://purl.obolibrary.org/obo/SO_0000844 true SO:ke http://purl.obolibrary.org/obo/SO_0000845 A region of sequence which is a promoter for RNA polymerase III type 1. http://purl.obolibrary.org/obo/SO_0000845 sequence http://purl.obolibrary.org/obo/SO_0000845 SO:0000845 http://purl.obolibrary.org/obo/SO_0000845 This is a manufactured term to allow the parts of RNApol_III_promoter_type_1 to have an is_a path back to the root. http://purl.obolibrary.org/obo/SO_0000845 RNApol_III_promoter_type_1_region http://purl.obolibrary.org/obo/SO_0000845 true SO:ke http://purl.obolibrary.org/obo/SO_0000846 A region of sequence which is a promoter for RNA polymerase III type 2. http://purl.obolibrary.org/obo/SO_0000846 sequence http://purl.obolibrary.org/obo/SO_0000846 SO:0000846 http://purl.obolibrary.org/obo/SO_0000846 This is a manufactured term to allow the parts of RNApol_III_promoter_type_2 to have an is_a path back to the root. http://purl.obolibrary.org/obo/SO_0000846 RNApol_III_promoter_type_2_region http://purl.obolibrary.org/obo/SO_0000846 true SO:cb http://purl.obolibrary.org/obo/SO_0000847 A region of a tmRNA. http://purl.obolibrary.org/obo/SO_0000847 tmRNA region http://purl.obolibrary.org/obo/SO_0000847 sequence http://purl.obolibrary.org/obo/SO_0000847 SO:0000847 http://purl.obolibrary.org/obo/SO_0000847 This term was added to provide a grouping term for the region parts of tmRNA, thus giving them an is_a path back to the root. http://purl.obolibrary.org/obo/SO_0000847 tmRNA_region http://purl.obolibrary.org/obo/SO_0000848 LTR component http://purl.obolibrary.org/obo/SO_0000848 long term repeat component http://purl.obolibrary.org/obo/SO_0000848 sequence http://purl.obolibrary.org/obo/SO_0000848 SO:0000848 http://purl.obolibrary.org/obo/SO_0000848 LTR_component http://purl.obolibrary.org/obo/SO_0000849 3' long terminal repeat component http://purl.obolibrary.org/obo/SO_0000849 three prime LTR component http://purl.obolibrary.org/obo/SO_0000849 sequence http://purl.obolibrary.org/obo/SO_0000849 SO:0000849 http://purl.obolibrary.org/obo/SO_0000849 three_prime_LTR_component http://purl.obolibrary.org/obo/SO_0000850 5' long term repeat component http://purl.obolibrary.org/obo/SO_0000850 five prime LTR component http://purl.obolibrary.org/obo/SO_0000850 sequence http://purl.obolibrary.org/obo/SO_0000850 SO:0000850 http://purl.obolibrary.org/obo/SO_0000850 five_prime_LTR_component SO:cb http://purl.obolibrary.org/obo/SO_0000851 A region of a CDS. http://purl.obolibrary.org/obo/SO_0000851 CDS region http://purl.obolibrary.org/obo/SO_0000851 sequence http://purl.obolibrary.org/obo/SO_0000851 SO:0000851 http://purl.obolibrary.org/obo/SO_0000851 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000851 CDS_region RSC:cb http://purl.obolibrary.org/obo/SO_0000852 A region of an exon. http://purl.obolibrary.org/obo/SO_0000852 exon region http://purl.obolibrary.org/obo/SO_0000852 sequence http://purl.obolibrary.org/obo/SO_0000852 SO:0000852 http://purl.obolibrary.org/obo/SO_0000852 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0000852 exon_region SO:ke http://purl.obolibrary.org/obo/SO_0000853 A region that is homologous to another region. wiki http://purl.obolibrary.org/obo/SO_0000853 http://en.wikipedia.org/wiki/Homology_(biology) http://purl.obolibrary.org/obo/SO_0000853 homolog http://purl.obolibrary.org/obo/SO_0000853 homologous region http://purl.obolibrary.org/obo/SO_0000853 homologue http://purl.obolibrary.org/obo/SO_0000853 sequence http://purl.obolibrary.org/obo/SO_0000853 SO:0000853 http://purl.obolibrary.org/obo/SO_0000853 homologous_region SO:ke http://purl.obolibrary.org/obo/SO_0000854 A homologous_region that is paralogous to another region. wiki http://purl.obolibrary.org/obo/SO_0000854 http://en.wikipedia.org/wiki/Paralog#Paralogy http://purl.obolibrary.org/obo/SO_0000854 paralog http://purl.obolibrary.org/obo/SO_0000854 paralogous region http://purl.obolibrary.org/obo/SO_0000854 paralogue http://purl.obolibrary.org/obo/SO_0000854 sequence http://purl.obolibrary.org/obo/SO_0000854 SO:0000854 http://purl.obolibrary.org/obo/SO_0000854 A term to be used in conjunction with the paralogous_to relationship. http://purl.obolibrary.org/obo/SO_0000854 paralogous_region SO:ke http://purl.obolibrary.org/obo/SO_0000855 A homologous_region that is orthologous to another region. wiki http://purl.obolibrary.org/obo/SO_0000855 http://en.wikipedia.org/wiki/Ortholog#Orthology http://purl.obolibrary.org/obo/SO_0000855 ortholog http://purl.obolibrary.org/obo/SO_0000855 orthologous region http://purl.obolibrary.org/obo/SO_0000855 orthologue http://purl.obolibrary.org/obo/SO_0000855 sequence http://purl.obolibrary.org/obo/SO_0000855 SO:0000855 http://purl.obolibrary.org/obo/SO_0000855 This term should be used in conjunction with the similarity relationships defined in SO. http://purl.obolibrary.org/obo/SO_0000855 orthologous_region http://purl.obolibrary.org/obo/SO_0000856 sequence http://purl.obolibrary.org/obo/SO_0000856 SO:0000856 http://purl.obolibrary.org/obo/SO_0000856 conserved SO:ke http://purl.obolibrary.org/obo/SO_0000857 Similarity due to common ancestry. http://purl.obolibrary.org/obo/SO_0000857 sequence http://purl.obolibrary.org/obo/SO_0000857 SO:0000857 http://purl.obolibrary.org/obo/SO_0000857 homologous SO:ke http://purl.obolibrary.org/obo/SO_0000858 An attribute describing a kind of homology where divergence occurred after a speciation event. http://purl.obolibrary.org/obo/SO_0000858 sequence http://purl.obolibrary.org/obo/SO_0000858 SO:0000858 http://purl.obolibrary.org/obo/SO_0000858 orthologous SO:ke http://purl.obolibrary.org/obo/SO_0000859 An attribute describing a kind of homology where divergence occurred after a duplication event. http://purl.obolibrary.org/obo/SO_0000859 sequence http://purl.obolibrary.org/obo/SO_0000859 SO:0000859 http://purl.obolibrary.org/obo/SO_0000859 paralogous SO:ke http://purl.obolibrary.org/obo/SO_0000860 Attribute describing sequence regions occurring in same order on chromosome of different species. wiki http://purl.obolibrary.org/obo/SO_0000860 http://en.wikipedia.org/wiki/Syntenic http://purl.obolibrary.org/obo/SO_0000860 sequence http://purl.obolibrary.org/obo/SO_0000860 SO:0000860 http://purl.obolibrary.org/obo/SO_0000860 syntenic SO:xp http://purl.obolibrary.org/obo/SO_0000861 A primary transcript that is capped. http://purl.obolibrary.org/obo/SO_0000861 capped primary transcript http://purl.obolibrary.org/obo/SO_0000861 sequence http://purl.obolibrary.org/obo/SO_0000861 SO:0000861 http://purl.obolibrary.org/obo/SO_0000861 capped_primary_transcript SO:xp http://purl.obolibrary.org/obo/SO_0000862 An mRNA that is capped. http://purl.obolibrary.org/obo/SO_0000862 capped mRNA http://purl.obolibrary.org/obo/SO_0000862 sequence http://purl.obolibrary.org/obo/SO_0000862 SO:0000862 http://purl.obolibrary.org/obo/SO_0000862 capped_mRNA SO:ke http://purl.obolibrary.org/obo/SO_0000863 An attribute describing an mRNA feature. http://purl.obolibrary.org/obo/SO_0000863 mRNA attribute http://purl.obolibrary.org/obo/SO_0000863 sequence http://purl.obolibrary.org/obo/SO_0000863 SO:0000863 http://purl.obolibrary.org/obo/SO_0000863 mRNA_attribute SO:ke http://purl.obolibrary.org/obo/SO_0000864 An attribute describing a sequence is representative of a class of similar sequences. http://purl.obolibrary.org/obo/SO_0000864 sequence http://purl.obolibrary.org/obo/SO_0000864 SO:0000864 http://purl.obolibrary.org/obo/SO_0000864 exemplar SO:ke http://purl.obolibrary.org/obo/SO_0000865 An attribute describing a sequence that contains a mutation involving the deletion or insertion of one or more bases, where this number is not divisible by 3. wiki http://purl.obolibrary.org/obo/SO_0000865 http://en.wikipedia.org/wiki/Frameshift http://purl.obolibrary.org/obo/SO_0000865 sequence http://purl.obolibrary.org/obo/SO_0000865 SO:0000865 http://purl.obolibrary.org/obo/SO_0000865 frameshift SO:ke http://purl.obolibrary.org/obo/SO_0000866 A frameshift caused by deleting one base. http://purl.obolibrary.org/obo/SO_0000866 minus 1 frameshift http://purl.obolibrary.org/obo/SO_0000866 sequence http://purl.obolibrary.org/obo/SO_0000866 SO:0000866 http://purl.obolibrary.org/obo/SO_0000866 minus_1_frameshift SO:ke http://purl.obolibrary.org/obo/SO_0000867 A frameshift caused by deleting two bases. http://purl.obolibrary.org/obo/SO_0000867 minus 2 frameshift http://purl.obolibrary.org/obo/SO_0000867 sequence http://purl.obolibrary.org/obo/SO_0000867 SO:0000867 http://purl.obolibrary.org/obo/SO_0000867 minus_2_frameshift SO:ke http://purl.obolibrary.org/obo/SO_0000868 A frameshift caused by inserting one base. http://purl.obolibrary.org/obo/SO_0000868 plus 1 frameshift http://purl.obolibrary.org/obo/SO_0000868 sequence http://purl.obolibrary.org/obo/SO_0000868 SO:0000868 http://purl.obolibrary.org/obo/SO_0000868 plus_1_frameshift SO:ke http://purl.obolibrary.org/obo/SO_0000869 A frameshift caused by inserting two bases. http://purl.obolibrary.org/obo/SO_0000869 plus 2 framshift http://purl.obolibrary.org/obo/SO_0000869 sequence http://purl.obolibrary.org/obo/SO_0000869 SO:0000869 http://purl.obolibrary.org/obo/SO_0000869 plus_2_framshift SO:ke http://purl.obolibrary.org/obo/SO_0000870 An attribute describing transcript sequence that is created by splicing exons from diferent genes. http://purl.obolibrary.org/obo/SO_0000870 trans-spliced http://purl.obolibrary.org/obo/SO_0000870 sequence http://purl.obolibrary.org/obo/SO_0000870 SO:0000870 http://purl.obolibrary.org/obo/SO_0000870 trans_spliced SO:xp http://purl.obolibrary.org/obo/SO_0000871 An mRNA that is polyadenylated. http://purl.obolibrary.org/obo/SO_0000871 polyadenylated mRNA http://purl.obolibrary.org/obo/SO_0000871 sequence http://purl.obolibrary.org/obo/SO_0000871 SO:0000871 http://purl.obolibrary.org/obo/SO_0000871 polyadenylated_mRNA SO:xp http://purl.obolibrary.org/obo/SO_0000872 An mRNA that is trans-spliced. http://purl.obolibrary.org/obo/SO_0000872 trans-spliced mRNA http://purl.obolibrary.org/obo/SO_0000872 sequence http://purl.obolibrary.org/obo/SO_0000872 SO:0000872 http://purl.obolibrary.org/obo/SO_0000872 trans_spliced_mRNA SO:ke http://purl.obolibrary.org/obo/SO_0000873 A transcript that is edited. http://purl.obolibrary.org/obo/SO_0000873 edited transcript http://purl.obolibrary.org/obo/SO_0000873 sequence http://purl.obolibrary.org/obo/SO_0000873 SO:0000873 http://purl.obolibrary.org/obo/SO_0000873 edited_transcript SO:ke http://purl.obolibrary.org/obo/SO_0000874 A transcript that has been edited by A to I substitution. http://purl.obolibrary.org/obo/SO_0000874 edited transcript by A to I substitution http://purl.obolibrary.org/obo/SO_0000874 sequence http://purl.obolibrary.org/obo/SO_0000874 SO:0000874 http://purl.obolibrary.org/obo/SO_0000874 edited_transcript_by_A_to_I_substitution SO:ke http://purl.obolibrary.org/obo/SO_0000875 An attribute describing a sequence that is bound by a protein. http://purl.obolibrary.org/obo/SO_0000875 bound by protein http://purl.obolibrary.org/obo/SO_0000875 sequence http://purl.obolibrary.org/obo/SO_0000875 SO:0000875 http://purl.obolibrary.org/obo/SO_0000875 bound_by_protein SO:ke http://purl.obolibrary.org/obo/SO_0000876 An attribute describing a sequence that is bound by a nucleic acid. http://purl.obolibrary.org/obo/SO_0000876 bound by nucleic acid http://purl.obolibrary.org/obo/SO_0000876 sequence http://purl.obolibrary.org/obo/SO_0000876 SO:0000876 http://purl.obolibrary.org/obo/SO_0000876 bound_by_nucleic_acid SO:ke http://purl.obolibrary.org/obo/SO_0000877 An attribute describing a situation where a gene may encode for more than 1 transcript. http://purl.obolibrary.org/obo/SO_0000877 alternatively spliced http://purl.obolibrary.org/obo/SO_0000877 sequence http://purl.obolibrary.org/obo/SO_0000877 SO:0000877 http://purl.obolibrary.org/obo/SO_0000877 alternatively_spliced SO:ke http://purl.obolibrary.org/obo/SO_0000878 An attribute describing a sequence that contains the code for one gene product. http://purl.obolibrary.org/obo/SO_0000878 sequence http://purl.obolibrary.org/obo/SO_0000878 SO:0000878 http://purl.obolibrary.org/obo/SO_0000878 monocistronic SO:ke http://purl.obolibrary.org/obo/SO_0000879 An attribute describing a sequence that contains the code for two gene products. http://purl.obolibrary.org/obo/SO_0000879 sequence http://purl.obolibrary.org/obo/SO_0000879 SO:0000879 http://purl.obolibrary.org/obo/SO_0000879 dicistronic SO:ke http://purl.obolibrary.org/obo/SO_0000880 An attribute describing a sequence that contains the code for more than one gene product. http://purl.obolibrary.org/obo/SO_0000880 sequence http://purl.obolibrary.org/obo/SO_0000880 SO:0000880 http://purl.obolibrary.org/obo/SO_0000880 polycistronic SO:ke http://purl.obolibrary.org/obo/SO_0000881 An attribute describing an mRNA sequence that has been reprogrammed at translation, causing localized alterations. http://purl.obolibrary.org/obo/SO_0000881 sequence http://purl.obolibrary.org/obo/SO_0000881 SO:0000881 http://purl.obolibrary.org/obo/SO_0000881 recoded SO:ke http://purl.obolibrary.org/obo/SO_0000882 An attribute describing the alteration of codon meaning. http://purl.obolibrary.org/obo/SO_0000882 codon redefined http://purl.obolibrary.org/obo/SO_0000882 sequence http://purl.obolibrary.org/obo/SO_0000882 SO:0000882 http://purl.obolibrary.org/obo/SO_0000882 codon_redefined SO:ke http://purl.obolibrary.org/obo/SO_0000883 A stop codon redefined to be a new amino acid. http://purl.obolibrary.org/obo/SO_0000883 stop codon read through http://purl.obolibrary.org/obo/SO_0000883 sequence http://purl.obolibrary.org/obo/SO_0000883 stop codon readthrough http://purl.obolibrary.org/obo/SO_0000883 SO:0000883 http://purl.obolibrary.org/obo/SO_0000883 stop_codon_read_through SO:ke http://purl.obolibrary.org/obo/SO_0000884 A stop codon redefined to be the new amino acid, pyrrolysine. http://purl.obolibrary.org/obo/SO_0000884 stop codon redefined as pyrrolysine http://purl.obolibrary.org/obo/SO_0000884 sequence http://purl.obolibrary.org/obo/SO_0000884 SO:0000884 http://purl.obolibrary.org/obo/SO_0000884 stop_codon_redefined_as_pyrrolysine SO:ke http://purl.obolibrary.org/obo/SO_0000885 A stop codon redefined to be the new amino acid, selenocysteine. http://purl.obolibrary.org/obo/SO_0000885 stop codon redefined as selenocysteine http://purl.obolibrary.org/obo/SO_0000885 sequence http://purl.obolibrary.org/obo/SO_0000885 SO:0000885 http://purl.obolibrary.org/obo/SO_0000885 stop_codon_redefined_as_selenocysteine SO:ke http://purl.obolibrary.org/obo/SO_0000886 Recoded mRNA where a block of nucleotides is not translated. http://purl.obolibrary.org/obo/SO_0000886 recoded by translational bypass http://purl.obolibrary.org/obo/SO_0000886 sequence http://purl.obolibrary.org/obo/SO_0000886 SO:0000886 http://purl.obolibrary.org/obo/SO_0000886 recoded_by_translational_bypass SO:ke http://purl.obolibrary.org/obo/SO_0000887 Recoding by frameshifting a particular site. http://purl.obolibrary.org/obo/SO_0000887 translationally frameshifted http://purl.obolibrary.org/obo/SO_0000887 sequence http://purl.obolibrary.org/obo/SO_0000887 SO:0000887 http://purl.obolibrary.org/obo/SO_0000887 translationally_frameshifted SO:xp http://purl.obolibrary.org/obo/SO_0000888 A gene that is maternally_imprinted. http://purl.obolibrary.org/obo/SO_0000888 maternally imprinted gene http://purl.obolibrary.org/obo/SO_0000888 sequence http://purl.obolibrary.org/obo/SO_0000888 SO:0000888 http://purl.obolibrary.org/obo/SO_0000888 maternally_imprinted_gene SO:xp http://purl.obolibrary.org/obo/SO_0000889 A gene that is paternally imprinted. http://purl.obolibrary.org/obo/SO_0000889 paternally imprinted gene http://purl.obolibrary.org/obo/SO_0000889 sequence http://purl.obolibrary.org/obo/SO_0000889 SO:0000889 http://purl.obolibrary.org/obo/SO_0000889 paternally_imprinted_gene SO:xp http://purl.obolibrary.org/obo/SO_0000890 A gene that is post translationally regulated. http://purl.obolibrary.org/obo/SO_0000890 post translationally regulated gene http://purl.obolibrary.org/obo/SO_0000890 sequence http://purl.obolibrary.org/obo/SO_0000890 SO:0000890 http://purl.obolibrary.org/obo/SO_0000890 post_translationally_regulated_gene SO:xp http://purl.obolibrary.org/obo/SO_0000891 A gene that is negatively autoreguated. http://purl.obolibrary.org/obo/SO_0000891 negatively autoregulated gene http://purl.obolibrary.org/obo/SO_0000891 sequence http://purl.obolibrary.org/obo/SO_0000891 SO:0000891 http://purl.obolibrary.org/obo/SO_0000891 negatively_autoregulated_gene SO:xp http://purl.obolibrary.org/obo/SO_0000892 A gene that is positively autoregulated. http://purl.obolibrary.org/obo/SO_0000892 positively autoregulated gene http://purl.obolibrary.org/obo/SO_0000892 sequence http://purl.obolibrary.org/obo/SO_0000892 SO:0000892 http://purl.obolibrary.org/obo/SO_0000892 positively_autoregulated_gene SO:ke http://purl.obolibrary.org/obo/SO_0000893 An attribute describing an epigenetic process where a gene is inactivated at transcriptional or translational level. wiki http://purl.obolibrary.org/obo/SO_0000893 http://en.wikipedia.org/wiki/Silenced http://purl.obolibrary.org/obo/SO_0000893 sequence http://purl.obolibrary.org/obo/SO_0000893 SO:0000893 http://purl.obolibrary.org/obo/SO_0000893 silenced SO:ke http://purl.obolibrary.org/obo/SO_0000894 An attribute describing an epigenetic process where a gene is inactivated by DNA modifications, resulting in repression of transcription. http://purl.obolibrary.org/obo/SO_0000894 silenced by DNA modification http://purl.obolibrary.org/obo/SO_0000894 sequence http://purl.obolibrary.org/obo/SO_0000894 SO:0000894 http://purl.obolibrary.org/obo/SO_0000894 silenced_by_DNA_modification SO:ke http://purl.obolibrary.org/obo/SO_0000895 An attribute describing an epigenetic process where a gene is inactivated by DNA methylation, resulting in repression of transcription. http://purl.obolibrary.org/obo/SO_0000895 silenced by DNA methylation http://purl.obolibrary.org/obo/SO_0000895 sequence http://purl.obolibrary.org/obo/SO_0000895 SO:0000895 http://purl.obolibrary.org/obo/SO_0000895 silenced_by_DNA_methylation SO:xp http://purl.obolibrary.org/obo/SO_0000896 A gene that is translationally regulated. http://purl.obolibrary.org/obo/SO_0000896 translationally regulated gene http://purl.obolibrary.org/obo/SO_0000896 sequence http://purl.obolibrary.org/obo/SO_0000896 SO:0000896 http://purl.obolibrary.org/obo/SO_0000896 translationally_regulated_gene SO:xp http://purl.obolibrary.org/obo/SO_0000897 A gene that is allelically_excluded. http://purl.obolibrary.org/obo/SO_0000897 allelically excluded gene http://purl.obolibrary.org/obo/SO_0000897 sequence http://purl.obolibrary.org/obo/SO_0000897 SO:0000897 http://purl.obolibrary.org/obo/SO_0000897 allelically_excluded_gene SO:ke http://purl.obolibrary.org/obo/SO_0000898 A gene that is epigenetically modified. http://purl.obolibrary.org/obo/SO_0000898 epigenetically modified gene http://purl.obolibrary.org/obo/SO_0000898 sequence http://purl.obolibrary.org/obo/SO_0000898 SO:0000898 http://purl.obolibrary.org/obo/SO_0000898 epigenetically_modified_gene SO:ke http://purl.obolibrary.org/obo/SO_0000899 An attribute describing a nuclear pseudogene of a mitochndrial gene. http://purl.obolibrary.org/obo/SO_0000899 nuclear mitochondrial http://purl.obolibrary.org/obo/SO_0000899 sequence http://purl.obolibrary.org/obo/SO_0000899 SO:0000899 http://purl.obolibrary.org/obo/SO_0000899 nuclear_mitochondrial http://purl.obolibrary.org/obo/SO_0000899 true SO:ke http://purl.obolibrary.org/obo/SO_0000900 An attribute describing a pseudogene where by an mRNA was retrotransposed. The mRNA sequence is transcribed back into the genome, lacking introns and promotors, but often including a polyA tail. http://purl.obolibrary.org/obo/SO_0000900 sequence http://purl.obolibrary.org/obo/SO_0000900 SO:0000900 http://purl.obolibrary.org/obo/SO_0000900 processed http://purl.obolibrary.org/obo/SO_0000900 true SO:ke http://purl.obolibrary.org/obo/SO_0000901 An attribute describing a pseudogene that was created by tandem duplication and unequal crossing over during recombination. http://purl.obolibrary.org/obo/SO_0000901 unequally crossed over http://purl.obolibrary.org/obo/SO_0000901 sequence http://purl.obolibrary.org/obo/SO_0000901 SO:0000901 http://purl.obolibrary.org/obo/SO_0000901 unequally_crossed_over http://purl.obolibrary.org/obo/SO_0000901 true SO:xp http://purl.obolibrary.org/obo/SO_0000902 A transgene is a gene that has been transferred naturally or by any of a number of genetic engineering techniques from one organism to another. wiki http://purl.obolibrary.org/obo/SO_0000902 http://en.wikipedia.org/wiki/Transgene http://purl.obolibrary.org/obo/SO_0000902 sequence http://purl.obolibrary.org/obo/SO_0000902 SO:0000902 http://purl.obolibrary.org/obo/SO_0000902 transgene http://purl.obolibrary.org/obo/SO_0000903 endogenous retroviral sequence http://purl.obolibrary.org/obo/SO_0000903 sequence http://purl.obolibrary.org/obo/SO_0000903 SO:0000903 http://purl.obolibrary.org/obo/SO_0000903 endogenous_retroviral_sequence SO:ke http://purl.obolibrary.org/obo/SO_0000904 An attribute to describe the sequence of a feature, where the DNA is rearranged. http://purl.obolibrary.org/obo/SO_0000904 rearranged at DNA level http://purl.obolibrary.org/obo/SO_0000904 sequence http://purl.obolibrary.org/obo/SO_0000904 SO:0000904 http://purl.obolibrary.org/obo/SO_0000904 rearranged_at_DNA_level SO:ke http://purl.obolibrary.org/obo/SO_0000905 An attribute describing the status of a feature, based on the available evidence. http://purl.obolibrary.org/obo/SO_0000905 sequence http://purl.obolibrary.org/obo/SO_0000905 SO:0000905 http://purl.obolibrary.org/obo/SO_0000905 This term is the hypernym of attributes and should not be annotated to. http://purl.obolibrary.org/obo/SO_0000905 status SO:ke http://purl.obolibrary.org/obo/SO_0000906 Attribute to describe a feature that is independently known - not predicted. http://purl.obolibrary.org/obo/SO_0000906 independently known http://purl.obolibrary.org/obo/SO_0000906 sequence http://purl.obolibrary.org/obo/SO_0000906 SO:0000906 http://purl.obolibrary.org/obo/SO_0000906 independently_known SO:ke http://purl.obolibrary.org/obo/SO_0000907 An attribute to describe a feature that has been predicted using sequence similarity techniques. http://purl.obolibrary.org/obo/SO_0000907 supported by sequence similarity http://purl.obolibrary.org/obo/SO_0000907 sequence http://purl.obolibrary.org/obo/SO_0000907 SO:0000907 http://purl.obolibrary.org/obo/SO_0000907 supported_by_sequence_similarity SO:ke http://purl.obolibrary.org/obo/SO_0000908 An attribute to describe a feature that has been predicted using sequence similarity of a known domain. http://purl.obolibrary.org/obo/SO_0000908 supported by domain match http://purl.obolibrary.org/obo/SO_0000908 sequence http://purl.obolibrary.org/obo/SO_0000908 SO:0000908 http://purl.obolibrary.org/obo/SO_0000908 supported_by_domain_match SO:ke http://purl.obolibrary.org/obo/SO_0000909 An attribute to describe a feature that has been predicted using sequence similarity to EST or cDNA data. http://purl.obolibrary.org/obo/SO_0000909 supported by EST or cDNA http://purl.obolibrary.org/obo/SO_0000909 sequence http://purl.obolibrary.org/obo/SO_0000909 SO:0000909 http://purl.obolibrary.org/obo/SO_0000909 supported_by_EST_or_cDNA http://purl.obolibrary.org/obo/SO_0000910 sequence http://purl.obolibrary.org/obo/SO_0000910 SO:0000910 http://purl.obolibrary.org/obo/SO_0000910 orphan SO:ke http://purl.obolibrary.org/obo/SO_0000911 An attribute describing a feature that is predicted by a computer program that did not rely on sequence similarity. http://purl.obolibrary.org/obo/SO_0000911 predicted by ab initio computation http://purl.obolibrary.org/obo/SO_0000911 sequence http://purl.obolibrary.org/obo/SO_0000911 SO:0000911 http://purl.obolibrary.org/obo/SO_0000911 predicted_by_ab_initio_computation http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0000912 A motif of three consecutive residues and one H-bond in which: residue(i) is Aspartate or Asparagine (Asx), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2). http://purl.obolibrary.org/obo/SO_0000912 BS:00203 http://purl.obolibrary.org/obo/SO_0000912 asx turn http://purl.obolibrary.org/obo/SO_0000912 sequence http://purl.obolibrary.org/obo/SO_0000912 SO:0000912 http://purl.obolibrary.org/obo/SO_0000912 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0000912 asx_turn SO:xp http://purl.obolibrary.org/obo/SO_0000913 A clone insert made from cDNA. http://purl.obolibrary.org/obo/SO_0000913 cloned cDNA insert http://purl.obolibrary.org/obo/SO_0000913 sequence http://purl.obolibrary.org/obo/SO_0000913 SO:0000913 http://purl.obolibrary.org/obo/SO_0000913 cloned_cDNA_insert SO:xp http://purl.obolibrary.org/obo/SO_0000914 A clone insert made from genomic DNA. http://purl.obolibrary.org/obo/SO_0000914 cloned genomic insert http://purl.obolibrary.org/obo/SO_0000914 sequence http://purl.obolibrary.org/obo/SO_0000914 SO:0000914 http://purl.obolibrary.org/obo/SO_0000914 cloned_genomic_insert SO:xp http://purl.obolibrary.org/obo/SO_0000915 A clone insert that is engineered. http://purl.obolibrary.org/obo/SO_0000915 engineered insert http://purl.obolibrary.org/obo/SO_0000915 sequence http://purl.obolibrary.org/obo/SO_0000915 SO:0000915 http://purl.obolibrary.org/obo/SO_0000915 engineered_insert http://purl.obolibrary.org/obo/SO_0000916 edit operation http://purl.obolibrary.org/obo/SO_0000916 sequence http://purl.obolibrary.org/obo/SO_0000916 SO:0000916 http://purl.obolibrary.org/obo/SO_0000916 edit_operation http://purl.obolibrary.org/obo/SO_0000916 true SO:ke http://purl.obolibrary.org/obo/SO_0000917 An edit to insert a U. http://purl.obolibrary.org/obo/SO_0000917 insert U http://purl.obolibrary.org/obo/SO_0000917 sequence http://purl.obolibrary.org/obo/SO_0000917 SO:0000917 http://purl.obolibrary.org/obo/SO_0000917 The insertion and deletion of uridine (U) residues, usually within coding regions of mRNA transcripts of cryptogenes in the mitochondrial genome of kinetoplastid protozoa. http://purl.obolibrary.org/obo/SO_0000917 insert_U http://purl.obolibrary.org/obo/SO_0000917 true SO:ke http://purl.obolibrary.org/obo/SO_0000918 An edit to delete a uridine. http://purl.obolibrary.org/obo/SO_0000918 delete U http://purl.obolibrary.org/obo/SO_0000918 sequence http://purl.obolibrary.org/obo/SO_0000918 SO:0000918 http://purl.obolibrary.org/obo/SO_0000918 The insertion and deletion of uridine (U) residues, usually within coding regions of mRNA transcripts of cryptogenes in the mitochondrial genome of kinetoplastid protozoa. http://purl.obolibrary.org/obo/SO_0000918 delete_U http://purl.obolibrary.org/obo/SO_0000918 true SO:ke http://purl.obolibrary.org/obo/SO_0000919 An edit to substitute an I for an A. http://purl.obolibrary.org/obo/SO_0000919 substitute A to I http://purl.obolibrary.org/obo/SO_0000919 sequence http://purl.obolibrary.org/obo/SO_0000919 SO:0000919 http://purl.obolibrary.org/obo/SO_0000919 substitute_A_to_I http://purl.obolibrary.org/obo/SO_0000919 true SO:ke http://purl.obolibrary.org/obo/SO_0000920 An edit to insert a cytidine. http://purl.obolibrary.org/obo/SO_0000920 insert C http://purl.obolibrary.org/obo/SO_0000920 sequence http://purl.obolibrary.org/obo/SO_0000920 SO:0000920 http://purl.obolibrary.org/obo/SO_0000920 insert_C http://purl.obolibrary.org/obo/SO_0000920 true SO:ke http://purl.obolibrary.org/obo/SO_0000921 An edit to insert a dinucleotide. http://purl.obolibrary.org/obo/SO_0000921 insert dinucleotide http://purl.obolibrary.org/obo/SO_0000921 sequence http://purl.obolibrary.org/obo/SO_0000921 SO:0000921 http://purl.obolibrary.org/obo/SO_0000921 insert_dinucleotide http://purl.obolibrary.org/obo/SO_0000921 true SO:ke http://purl.obolibrary.org/obo/SO_0000922 An edit to substitute an U for a C. http://purl.obolibrary.org/obo/SO_0000922 substitute C to U http://purl.obolibrary.org/obo/SO_0000922 sequence http://purl.obolibrary.org/obo/SO_0000922 SO:0000922 http://purl.obolibrary.org/obo/SO_0000922 substitute_C_to_U http://purl.obolibrary.org/obo/SO_0000922 true SO:ke http://purl.obolibrary.org/obo/SO_0000923 An edit to insert a G. http://purl.obolibrary.org/obo/SO_0000923 insert G http://purl.obolibrary.org/obo/SO_0000923 sequence http://purl.obolibrary.org/obo/SO_0000923 SO:0000923 http://purl.obolibrary.org/obo/SO_0000923 insert_G http://purl.obolibrary.org/obo/SO_0000923 true SO:ke http://purl.obolibrary.org/obo/SO_0000924 An edit to insert a GC dinucleotide. http://purl.obolibrary.org/obo/SO_0000924 insert GC http://purl.obolibrary.org/obo/SO_0000924 sequence http://purl.obolibrary.org/obo/SO_0000924 SO:0000924 http://purl.obolibrary.org/obo/SO_0000924 The type of RNA editing found in the mitochondria of Myxomycota, characterized by the insertion of mono- and dinucleotides in RNAs relative to their mtDNA template and in addition, C to U base conversion. The most common mononucleotide insertion is cytidine, although a number of uridine mononucleotides are inserted at specific sites. Adenine and guanine have not been observed in mononucleotide insertions. Five different dinucleotide insertions have been observed, GC, GU, CU, AU and AA. Both mono- and dinucleotide insertions create open reading frames in mRNA and contribute to highly conserved structural features of rRNAs and tRNAs. http://purl.obolibrary.org/obo/SO_0000924 insert_GC http://purl.obolibrary.org/obo/SO_0000924 true SO:ke http://purl.obolibrary.org/obo/SO_0000925 An edit to insert a GU dinucleotide. http://purl.obolibrary.org/obo/SO_0000925 insert GU http://purl.obolibrary.org/obo/SO_0000925 sequence http://purl.obolibrary.org/obo/SO_0000925 SO:0000925 http://purl.obolibrary.org/obo/SO_0000925 The type of RNA editing found in the mitochondria of Myxomycota, characterized by the insertion of mono- and dinucleotides in RNAs relative to their mtDNA template and in addition, C to U base conversion. The most common mononucleotide insertion is cytidine, although a number of uridine mononucleotides are inserted at specific sites. Adenine and guanine have not been observed in mononucleotide insertions. Five different dinucleotide insertions have been observed, GC, GU, CU, AU and AA. Both mono- and dinucleotide insertions create open reading frames in mRNA and contribute to highly conserved structural features of rRNAs and tRNAs. http://purl.obolibrary.org/obo/SO_0000925 insert_GU http://purl.obolibrary.org/obo/SO_0000925 true SO:ke http://purl.obolibrary.org/obo/SO_0000926 An edit to insert a CU dinucleotide. http://purl.obolibrary.org/obo/SO_0000926 insert CU http://purl.obolibrary.org/obo/SO_0000926 sequence http://purl.obolibrary.org/obo/SO_0000926 SO:0000926 http://purl.obolibrary.org/obo/SO_0000926 The type of RNA editing found in the mitochondria of Myxomycota, characterized by the insertion of mono- and dinucleotides in RNAs relative to their mtDNA template and in addition, C to U base conversion. The most common mononucleotide insertion is cytidine, although a number of uridine mononucleotides are inserted at specific sites. Adenine and guanine have not been observed in mononucleotide insertions. Five different dinucleotide insertions have been observed, GC, GU, CU, AU and AA. Both mono- and dinucleotide insertions create open reading frames in mRNA and contribute to highly conserved structural features of rRNAs and tRNAs. http://purl.obolibrary.org/obo/SO_0000926 insert_CU http://purl.obolibrary.org/obo/SO_0000926 true SO:ke http://purl.obolibrary.org/obo/SO_0000927 An edit to insert a AU dinucleotide. http://purl.obolibrary.org/obo/SO_0000927 insert AU http://purl.obolibrary.org/obo/SO_0000927 sequence http://purl.obolibrary.org/obo/SO_0000927 SO:0000927 http://purl.obolibrary.org/obo/SO_0000927 The type of RNA editing found in the mitochondria of Myxomycota, characterized by the insertion of mono- and dinucleotides in RNAs relative to their mtDNA template and in addition, C to U base conversion. The most common mononucleotide insertion is cytidine, although a number of uridine mononucleotides are inserted at specific sites. Adenine and guanine have not been observed in mononucleotide insertions. Five different dinucleotide insertions have been observed, GC, GU, CU, AU and AA. Both mono- and dinucleotide insertions create open reading frames in mRNA and contribute to highly conserved structural features of rRNAs and tRNAs. http://purl.obolibrary.org/obo/SO_0000927 insert_AU http://purl.obolibrary.org/obo/SO_0000927 true SO:ke http://purl.obolibrary.org/obo/SO_0000928 An edit to insert a AA dinucleotide. http://purl.obolibrary.org/obo/SO_0000928 insert AA http://purl.obolibrary.org/obo/SO_0000928 sequence http://purl.obolibrary.org/obo/SO_0000928 SO:0000928 http://purl.obolibrary.org/obo/SO_0000928 The type of RNA editing found in the mitochondria of Myxomycota, characterized by the insertion of mono- and dinucleotides in RNAs relative to their mtDNA template and in addition, C to U base conversion. The most common mononucleotide insertion is cytidine, although a number of uridine mononucleotides are inserted at specific sites. Adenine and guanine have not been observed in mononucleotide insertions. Five different dinucleotide insertions have been observed, GC, GU, CU, AU and AA. Both mono- and dinucleotide insertions create open reading frames in mRNA and contribute to highly conserved structural features of rRNAs and tRNAs. http://purl.obolibrary.org/obo/SO_0000928 insert_AA http://purl.obolibrary.org/obo/SO_0000928 true SO:xp http://purl.obolibrary.org/obo/SO_0000929 An mRNA that is edited. http://purl.obolibrary.org/obo/SO_0000929 edited mRNA http://purl.obolibrary.org/obo/SO_0000929 sequence http://purl.obolibrary.org/obo/SO_0000929 SO:0000929 http://purl.obolibrary.org/obo/SO_0000929 edited_mRNA SO:ma http://purl.obolibrary.org/obo/SO_0000930 A region of guide RNA. http://purl.obolibrary.org/obo/SO_0000930 guide RNA region http://purl.obolibrary.org/obo/SO_0000930 sequence http://purl.obolibrary.org/obo/SO_0000930 SO:0000930 http://purl.obolibrary.org/obo/SO_0000930 guide_RNA_region SO:jk http://purl.obolibrary.org/obo/SO_0000931 A region of a guide_RNA that base-pairs to a target mRNA. http://purl.obolibrary.org/obo/SO_0000931 anchor region http://purl.obolibrary.org/obo/SO_0000931 sequence http://purl.obolibrary.org/obo/SO_0000931 SO:0000931 http://purl.obolibrary.org/obo/SO_0000931 anchor_region http://purl.obolibrary.org/obo/SO_0000932 pre-edited mRNA http://purl.obolibrary.org/obo/SO_0000932 sequence http://purl.obolibrary.org/obo/SO_0000932 SO:0000932 http://purl.obolibrary.org/obo/SO_0000932 pre_edited_mRNA SO:ke http://purl.obolibrary.org/obo/SO_0000933 An attribute to describe a feature between stages of processing. http://purl.obolibrary.org/obo/SO_0000933 sequence http://purl.obolibrary.org/obo/SO_0000933 SO:0000933 http://purl.obolibrary.org/obo/SO_0000933 intermediate FB:cds http://purl.obolibrary.org/obo/SO_0000934 A miRNA target site is a binding site where the molecule is a micro RNA. http://purl.obolibrary.org/obo/SO_0000934 miRNA target site http://purl.obolibrary.org/obo/SO_0000934 sequence http://purl.obolibrary.org/obo/SO_0000934 SO:0000934 http://purl.obolibrary.org/obo/SO_0000934 miRNA_target_site SO:xp http://purl.obolibrary.org/obo/SO_0000935 A CDS that is edited. http://purl.obolibrary.org/obo/SO_0000935 edited CDS http://purl.obolibrary.org/obo/SO_0000935 sequence http://purl.obolibrary.org/obo/SO_0000935 SO:0000935 http://purl.obolibrary.org/obo/SO_0000935 edited_CDS http://purl.obolibrary.org/obo/SO_0000936 vertebrate immunoglobulin T cell receptor rearranged segment http://purl.obolibrary.org/obo/SO_0000936 sequence http://purl.obolibrary.org/obo/SO_0000936 SO:0000936 http://purl.obolibrary.org/obo/SO_0000936 vertebrate_immunoglobulin_T_cell_receptor_rearranged_segment http://purl.obolibrary.org/obo/SO_0000937 sequence http://purl.obolibrary.org/obo/SO_0000937 SO:0000937 http://purl.obolibrary.org/obo/SO_0000937 vertebrate_immune_system_feature http://purl.obolibrary.org/obo/SO_0000937 true http://purl.obolibrary.org/obo/SO_0000938 vertebrate immunoglobulin T cell receptor rearranged gene cluster http://purl.obolibrary.org/obo/SO_0000938 sequence http://purl.obolibrary.org/obo/SO_0000938 SO:0000938 http://purl.obolibrary.org/obo/SO_0000938 vertebrate_immunoglobulin_T_cell_receptor_rearranged_gene_cluster http://purl.obolibrary.org/obo/SO_0000939 vertebrate immune system gene recombination signal feature http://purl.obolibrary.org/obo/SO_0000939 sequence http://purl.obolibrary.org/obo/SO_0000939 SO:0000939 http://purl.obolibrary.org/obo/SO_0000939 vertebrate_immune_system_gene_recombination_signal_feature http://purl.obolibrary.org/obo/SO_0000940 recombinationally rearranged http://purl.obolibrary.org/obo/SO_0000940 sequence http://purl.obolibrary.org/obo/SO_0000940 SO:0000940 http://purl.obolibrary.org/obo/SO_0000940 recombinationally_rearranged SO:xp http://purl.obolibrary.org/obo/SO_0000941 A recombinationally rearranged gene of the vertebrate immune system. http://purl.obolibrary.org/obo/SO_0000941 recombinationally rearranged vertebrate immune system gene http://purl.obolibrary.org/obo/SO_0000941 sequence http://purl.obolibrary.org/obo/SO_0000941 SO:0000941 http://purl.obolibrary.org/obo/SO_0000941 recombinationally_rearranged_vertebrate_immune_system_gene SO:as http://purl.obolibrary.org/obo/SO_0000942 An integration/excision site of a phage chromosome at which a recombinase acts to insert the phage DNA at a cognate integration/excision site on a bacterial chromosome. http://purl.obolibrary.org/obo/SO_0000942 attP site http://purl.obolibrary.org/obo/SO_0000942 sequence http://purl.obolibrary.org/obo/SO_0000942 SO:0000942 http://purl.obolibrary.org/obo/SO_0000942 attP_site SO:as http://purl.obolibrary.org/obo/SO_0000943 An integration/excision site of a bacterial chromosome at which a recombinase acts to insert foreign DNA containing a cognate integration/excision site. http://purl.obolibrary.org/obo/SO_0000943 attB site http://purl.obolibrary.org/obo/SO_0000943 sequence http://purl.obolibrary.org/obo/SO_0000943 SO:0000943 http://purl.obolibrary.org/obo/SO_0000943 attB_site SO:as http://purl.obolibrary.org/obo/SO_0000944 A region that results from recombination between attP_site and attB_site, composed of the 5' portion of attB_site and the 3' portion of attP_site. http://purl.obolibrary.org/obo/SO_0000944 sequence http://purl.obolibrary.org/obo/SO_0000944 attBP' http://purl.obolibrary.org/obo/SO_0000944 attL site http://purl.obolibrary.org/obo/SO_0000944 SO:0000944 http://purl.obolibrary.org/obo/SO_0000944 attL_site SO:as http://purl.obolibrary.org/obo/SO_0000945 A region that results from recombination between attP_site and attB_site, composed of the 5' portion of attP_site and the 3' portion of attB_site. http://purl.obolibrary.org/obo/SO_0000945 attR site http://purl.obolibrary.org/obo/SO_0000945 sequence http://purl.obolibrary.org/obo/SO_0000945 attPB' http://purl.obolibrary.org/obo/SO_0000945 SO:0000945 http://purl.obolibrary.org/obo/SO_0000945 attR_site SO:as http://purl.obolibrary.org/obo/SO_0000946 A region specifically recognised by a recombinase, which inserts or removes another region marked by a distinct cognate integration/excision site. http://purl.obolibrary.org/obo/SO_0000946 integration excision site http://purl.obolibrary.org/obo/SO_0000946 sequence http://purl.obolibrary.org/obo/SO_0000946 attachment site http://purl.obolibrary.org/obo/SO_0000946 SO:0000946 http://purl.obolibrary.org/obo/SO_0000946 integration_excision_site SO:as http://purl.obolibrary.org/obo/SO_0000947 A region specifically recognized by a recombinase, which separates a physically contiguous circle of DNA into two physically separate circles. http://purl.obolibrary.org/obo/SO_0000947 res site http://purl.obolibrary.org/obo/SO_0000947 resolution site http://purl.obolibrary.org/obo/SO_0000947 sequence http://purl.obolibrary.org/obo/SO_0000947 SO:0000947 http://purl.obolibrary.org/obo/SO_0000947 resolution_site SO:ma http://purl.obolibrary.org/obo/SO_0000948 A region specifically recognised by a recombinase, which inverts the region flanked by a pair of sites. http://purl.obolibrary.org/obo/SO_0000948 inversion site http://purl.obolibrary.org/obo/SO_0000948 sequence http://purl.obolibrary.org/obo/SO_0000948 SO:0000948 http://purl.obolibrary.org/obo/SO_0000948 A target region for site-specific inversion of a DNA region and which carries binding sites for a site-specific recombinase and accessory proteins as well as the site for specific cleavage by the recombinase. http://purl.obolibrary.org/obo/SO_0000948 inversion_site SO:as http://purl.obolibrary.org/obo/SO_0000949 A site at which replicated bacterial circular chromosomes are decatenated by site specific resolvase. http://purl.obolibrary.org/obo/SO_0000949 dif site http://purl.obolibrary.org/obo/SO_0000949 sequence http://purl.obolibrary.org/obo/SO_0000949 SO:0000949 http://purl.obolibrary.org/obo/SO_0000949 dif_site SO:as http://purl.obolibrary.org/obo/SO_0000950 An attC site is a sequence required for the integration of a DNA of an integron. http://purl.obolibrary.org/obo/SO_0000950 attC site http://purl.obolibrary.org/obo/SO_0000950 sequence http://purl.obolibrary.org/obo/SO_0000950 SO:0000950 http://purl.obolibrary.org/obo/SO_0000950 attC_site http://purl.obolibrary.org/obo/SO_0000951 eukaryotic terminator http://purl.obolibrary.org/obo/SO_0000951 sequence http://purl.obolibrary.org/obo/SO_0000951 SO:0000951 http://purl.obolibrary.org/obo/SO_0000951 eukaryotic_terminator SO:as http://purl.obolibrary.org/obo/SO_0000952 An origin of vegetative replication in plasmids and phages. http://purl.obolibrary.org/obo/SO_0000952 origin of vegetative replication http://purl.obolibrary.org/obo/SO_0000952 sequence http://purl.obolibrary.org/obo/SO_0000952 SO:0000952 http://purl.obolibrary.org/obo/SO_0000952 oriV SO:as http://purl.obolibrary.org/obo/SO_0000953 An origin of bacterial chromosome replication. http://purl.obolibrary.org/obo/SO_0000953 origin of bacterial chromosome replication http://purl.obolibrary.org/obo/SO_0000953 sequence http://purl.obolibrary.org/obo/SO_0000953 SO:0000953 http://purl.obolibrary.org/obo/SO_0000953 oriC SO:ma http://purl.obolibrary.org/obo/SO_0000954 Structural unit composed of a self-replicating, DNA molecule. http://purl.obolibrary.org/obo/SO_0000954 DNA chromosome http://purl.obolibrary.org/obo/SO_0000954 sequence http://purl.obolibrary.org/obo/SO_0000954 SO:0000954 http://purl.obolibrary.org/obo/SO_0000954 DNA_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000955 Structural unit composed of a self-replicating, double-stranded DNA molecule. http://purl.obolibrary.org/obo/SO_0000955 double stranded DNA chromosome http://purl.obolibrary.org/obo/SO_0000955 sequence http://purl.obolibrary.org/obo/SO_0000955 SO:0000955 http://purl.obolibrary.org/obo/SO_0000955 double_stranded_DNA_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000956 Structural unit composed of a self-replicating, single-stranded DNA molecule. http://purl.obolibrary.org/obo/SO_0000956 single stranded DNA chromosome http://purl.obolibrary.org/obo/SO_0000956 sequence http://purl.obolibrary.org/obo/SO_0000956 SO:0000956 http://purl.obolibrary.org/obo/SO_0000956 single_stranded_DNA_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000957 Structural unit composed of a self-replicating, double-stranded, linear DNA molecule. http://purl.obolibrary.org/obo/SO_0000957 linear double stranded DNA chromosome http://purl.obolibrary.org/obo/SO_0000957 sequence http://purl.obolibrary.org/obo/SO_0000957 SO:0000957 http://purl.obolibrary.org/obo/SO_0000957 linear_double_stranded_DNA_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000958 Structural unit composed of a self-replicating, double-stranded, circular DNA molecule. http://purl.obolibrary.org/obo/SO_0000958 circular double stranded DNA chromosome http://purl.obolibrary.org/obo/SO_0000958 sequence http://purl.obolibrary.org/obo/SO_0000958 SO:0000958 http://purl.obolibrary.org/obo/SO_0000958 circular_double_stranded_DNA_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000959 Structural unit composed of a self-replicating, single-stranded, linear DNA molecule. http://purl.obolibrary.org/obo/SO_0000959 linear single stranded DNA chromosome http://purl.obolibrary.org/obo/SO_0000959 sequence http://purl.obolibrary.org/obo/SO_0000959 SO:0000959 http://purl.obolibrary.org/obo/SO_0000959 linear_single_stranded_DNA_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000960 Structural unit composed of a self-replicating, single-stranded, circular DNA molecule. http://purl.obolibrary.org/obo/SO_0000960 circular single stranded DNA chromosome http://purl.obolibrary.org/obo/SO_0000960 sequence http://purl.obolibrary.org/obo/SO_0000960 SO:0000960 http://purl.obolibrary.org/obo/SO_0000960 circular_single_stranded_DNA_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000961 Structural unit composed of a self-replicating, RNA molecule. http://purl.obolibrary.org/obo/SO_0000961 RNA chromosome http://purl.obolibrary.org/obo/SO_0000961 sequence http://purl.obolibrary.org/obo/SO_0000961 SO:0000961 http://purl.obolibrary.org/obo/SO_0000961 RNA_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000962 Structural unit composed of a self-replicating, single-stranded RNA molecule. http://purl.obolibrary.org/obo/SO_0000962 single stranded RNA chromosome http://purl.obolibrary.org/obo/SO_0000962 sequence http://purl.obolibrary.org/obo/SO_0000962 SO:0000962 http://purl.obolibrary.org/obo/SO_0000962 single_stranded_RNA_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000963 Structural unit composed of a self-replicating, single-stranded, linear RNA molecule. http://purl.obolibrary.org/obo/SO_0000963 linear single stranded RNA chromosome http://purl.obolibrary.org/obo/SO_0000963 sequence http://purl.obolibrary.org/obo/SO_0000963 SO:0000963 http://purl.obolibrary.org/obo/SO_0000963 linear_single_stranded_RNA_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000964 Structural unit composed of a self-replicating, double-stranded, linear RNA molecule. http://purl.obolibrary.org/obo/SO_0000964 linear double stranded RNA chromosome http://purl.obolibrary.org/obo/SO_0000964 sequence http://purl.obolibrary.org/obo/SO_0000964 SO:0000964 http://purl.obolibrary.org/obo/SO_0000964 linear_double_stranded_RNA_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000965 Structural unit composed of a self-replicating, double-stranded RNA molecule. http://purl.obolibrary.org/obo/SO_0000965 double stranded RNA chromosome http://purl.obolibrary.org/obo/SO_0000965 sequence http://purl.obolibrary.org/obo/SO_0000965 SO:0000965 http://purl.obolibrary.org/obo/SO_0000965 double_stranded_RNA_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000966 Structural unit composed of a self-replicating, single-stranded, circular DNA molecule. http://purl.obolibrary.org/obo/SO_0000966 circular single stranded RNA chromosome http://purl.obolibrary.org/obo/SO_0000966 sequence http://purl.obolibrary.org/obo/SO_0000966 SO:0000966 http://purl.obolibrary.org/obo/SO_0000966 circular_single_stranded_RNA_chromosome SO:ma http://purl.obolibrary.org/obo/SO_0000967 Structural unit composed of a self-replicating, double-stranded, circular RNA molecule. http://purl.obolibrary.org/obo/SO_0000967 circular double stranded RNA chromosome http://purl.obolibrary.org/obo/SO_0000967 sequence http://purl.obolibrary.org/obo/SO_0000967 SO:0000967 http://purl.obolibrary.org/obo/SO_0000967 circular_double_stranded_RNA_chromosome http://purl.obolibrary.org/obo/SO_0000968 sequence replication mode http://purl.obolibrary.org/obo/SO_0000968 sequence http://purl.obolibrary.org/obo/SO_0000968 SO:0000968 http://purl.obolibrary.org/obo/SO_0000968 This has been obsoleted as it represents a process. replaced_by: GO:0034961. http://purl.obolibrary.org/obo/SO_0000968 sequence_replication_mode http://purl.obolibrary.org/obo/SO_0000968 true wiki http://purl.obolibrary.org/obo/SO_0000969 http://en.wikipedia.org/wiki/Rolling_circle http://purl.obolibrary.org/obo/SO_0000969 rolling circle http://purl.obolibrary.org/obo/SO_0000969 sequence http://purl.obolibrary.org/obo/SO_0000969 SO:0000969 http://purl.obolibrary.org/obo/SO_0000969 This has been obsoleted as it represents a process. replaced_by: GO:0070581. http://purl.obolibrary.org/obo/SO_0000969 rolling_circle http://purl.obolibrary.org/obo/SO_0000969 true http://purl.obolibrary.org/obo/SO_0000970 theta replication http://purl.obolibrary.org/obo/SO_0000970 sequence http://purl.obolibrary.org/obo/SO_0000970 SO:0000970 http://purl.obolibrary.org/obo/SO_0000970 This has been obsoleted as it represents a process. replaced_by: GO:0070582 http://purl.obolibrary.org/obo/SO_0000970 theta_replication http://purl.obolibrary.org/obo/SO_0000970 true http://purl.obolibrary.org/obo/SO_0000971 DNA replication mode http://purl.obolibrary.org/obo/SO_0000971 sequence http://purl.obolibrary.org/obo/SO_0000971 SO:0000971 http://purl.obolibrary.org/obo/SO_0000971 This has been obsoleted as it represents a process. replaced_by: GO:0006260. http://purl.obolibrary.org/obo/SO_0000971 DNA_replication_mode http://purl.obolibrary.org/obo/SO_0000971 true http://purl.obolibrary.org/obo/SO_0000972 RNA replication mode http://purl.obolibrary.org/obo/SO_0000972 sequence http://purl.obolibrary.org/obo/SO_0000972 SO:0000972 http://purl.obolibrary.org/obo/SO_0000972 This has been obsoleted as it represents a process. replaced_by: GO:0034961. http://purl.obolibrary.org/obo/SO_0000972 RNA_replication_mode http://purl.obolibrary.org/obo/SO_0000972 true SO:as http://purl.obolibrary.org/obo/SO_0000973 A terminal_inverted_repeat_element that is bacterial and only encodes the functions required for its transposition between these inverted repeats. wiki http://purl.obolibrary.org/obo/SO_0000973 http://en.wikipedia.org/wiki/Insertion_sequence http://purl.obolibrary.org/obo/SO_0000973 insertion sequence http://purl.obolibrary.org/obo/SO_0000973 sequence http://purl.obolibrary.org/obo/SO_0000973 IS http://purl.obolibrary.org/obo/SO_0000973 SO:0000973 http://purl.obolibrary.org/obo/SO_0000973 insertion_sequence http://purl.obolibrary.org/obo/SO_0000975 minicircle gene http://purl.obolibrary.org/obo/SO_0000975 sequence http://purl.obolibrary.org/obo/SO_0000975 SO:0000975 http://purl.obolibrary.org/obo/SO_0000975 minicircle_gene SO:ke http://purl.obolibrary.org/obo/SO_0000976 A feature_attribute describing a feature that is not manifest under normal conditions. http://purl.obolibrary.org/obo/SO_0000976 sequence http://purl.obolibrary.org/obo/SO_0000976 SO:0000976 http://purl.obolibrary.org/obo/SO_0000976 cryptic http://purl.obolibrary.org/obo/SO_0000977 anchor binding site http://purl.obolibrary.org/obo/SO_0000977 sequence http://purl.obolibrary.org/obo/SO_0000977 SO:0000977 http://purl.obolibrary.org/obo/SO_0000977 Part of an edited transcript only. http://purl.obolibrary.org/obo/SO_0000977 anchor_binding_site SO:jk http://purl.obolibrary.org/obo/SO_0000978 A region of a guide_RNA that specifies the insertions and deletions of bases in the editing of a target mRNA. http://purl.obolibrary.org/obo/SO_0000978 information region http://purl.obolibrary.org/obo/SO_0000978 template region http://purl.obolibrary.org/obo/SO_0000978 sequence http://purl.obolibrary.org/obo/SO_0000978 SO:0000978 http://purl.obolibrary.org/obo/SO_0000978 template_region SO:ma http://purl.obolibrary.org/obo/SO_0000979 A non-protein_coding gene that encodes a guide_RNA. http://purl.obolibrary.org/obo/SO_0000979 gRNA encoding http://purl.obolibrary.org/obo/SO_0000979 sequence http://purl.obolibrary.org/obo/SO_0000979 SO:0000979 http://purl.obolibrary.org/obo/SO_0000979 gRNA_encoding PMID:8395055 http://purl.obolibrary.org/obo/SO_0000980 A minicircle is a replicon, part of a kinetoplast, that encodes for guide RNAs. http://purl.obolibrary.org/obo/SO_0000980 SO:0000974 wiki http://purl.obolibrary.org/obo/SO_0000980 http://en.wikipedia.org/wiki/Minicircle http://purl.obolibrary.org/obo/SO_0000980 minicircle_chromosome http://purl.obolibrary.org/obo/SO_0000980 sequence http://purl.obolibrary.org/obo/SO_0000980 SO:0000980 http://purl.obolibrary.org/obo/SO_0000980 minicircle http://purl.obolibrary.org/obo/SO_0000981 rho dependent bacterial terminator http://purl.obolibrary.org/obo/SO_0000981 sequence http://purl.obolibrary.org/obo/SO_0000981 SO:0000981 http://purl.obolibrary.org/obo/SO_0000981 rho_dependent_bacterial_terminator http://purl.obolibrary.org/obo/SO_0000982 rho independent bacterial terminator http://purl.obolibrary.org/obo/SO_0000982 sequence http://purl.obolibrary.org/obo/SO_0000982 SO:0000982 http://purl.obolibrary.org/obo/SO_0000982 rho_independent_bacterial_terminator http://purl.obolibrary.org/obo/SO_0000983 strand attribute http://purl.obolibrary.org/obo/SO_0000983 sequence http://purl.obolibrary.org/obo/SO_0000983 SO:0000983 http://purl.obolibrary.org/obo/SO_0000983 Attributes added to describe the different kinds of replicon. SO workshop, September 2006. http://purl.obolibrary.org/obo/SO_0000983 strand_attribute http://purl.obolibrary.org/obo/SO_0000984 sequence http://purl.obolibrary.org/obo/SO_0000984 SO:0000984 http://purl.obolibrary.org/obo/SO_0000984 Attributes added to describe the different kinds of replicon. SO workshop, September 2006. http://purl.obolibrary.org/obo/SO_0000984 single http://purl.obolibrary.org/obo/SO_0000985 sequence http://purl.obolibrary.org/obo/SO_0000985 SO:0000985 http://purl.obolibrary.org/obo/SO_0000985 Attributes added to describe the different kinds of replicon. SO workshop, September 2006. http://purl.obolibrary.org/obo/SO_0000985 double http://purl.obolibrary.org/obo/SO_0000986 topology attribute http://purl.obolibrary.org/obo/SO_0000986 sequence http://purl.obolibrary.org/obo/SO_0000986 SO:0000986 http://purl.obolibrary.org/obo/SO_0000986 Attributes added to describe the different kinds of replicon. SO workshop, September 2006. http://purl.obolibrary.org/obo/SO_0000986 topology_attribute SO:cb http://purl.obolibrary.org/obo/SO_0000987 A quality of a nucleotide polymer that has a 3'-terminal residue and a 5'-terminal residue. http://purl.obolibrary.org/obo/SO_0000987 sequence http://purl.obolibrary.org/obo/SO_0000987 two-ended http://purl.obolibrary.org/obo/SO_0000987 SO:0000987 http://purl.obolibrary.org/obo/SO_0000987 Attributes added to describe the different kinds of replicon. SO workshop, September 2006. http://purl.obolibrary.org/obo/SO_0000987 linear SO:cb http://purl.obolibrary.org/obo/SO_0000988 A quality of a nucleotide polymer that has no terminal nucleotide residues. http://purl.obolibrary.org/obo/SO_0000988 sequence http://purl.obolibrary.org/obo/SO_0000988 zero-ended http://purl.obolibrary.org/obo/SO_0000988 SO:0000988 http://purl.obolibrary.org/obo/SO_0000988 Attributes added to describe the different kinds of replicon. SO workshop, September 2006. http://purl.obolibrary.org/obo/SO_0000988 circular PMID:15333696 http://purl.obolibrary.org/obo/SO_0000989 Small non-coding RNA (59-60 nt long) containing 5' and 3' ends that are predicted to come together to form a stem structure. Identified in the social amoeba Dictyostelium discoideum and localized in the cytoplasm. http://purl.obolibrary.org/obo/SO_0000989 class II RNA http://purl.obolibrary.org/obo/SO_0000989 sequence http://purl.obolibrary.org/obo/SO_0000989 SO:0000989 http://purl.obolibrary.org/obo/SO_0000989 class_II_RNA PMID:15333696 http://purl.obolibrary.org/obo/SO_0000990 Small non-coding RNA (55-65 nt long) containing highly conserved 5' and 3' ends (16 and 8 nt, respectively) that are predicted to come together to form a stem structure. Identified in the social amoeba Dictyostelium discoideum and localized in the cytoplasm. http://purl.obolibrary.org/obo/SO_0000990 class I RNA http://purl.obolibrary.org/obo/SO_0000990 sequence http://purl.obolibrary.org/obo/SO_0000990 SO:0000990 http://purl.obolibrary.org/obo/SO_0000990 Requested by Karen Pilcher - Dictybase. song-Term Tracker-1574577. http://purl.obolibrary.org/obo/SO_0000990 class_I_RNA http://purl.obolibrary.org/obo/SO_0000991 genomic DNA http://purl.obolibrary.org/obo/SO_0000991 sequence http://purl.obolibrary.org/obo/SO_0000991 SO:0000991 http://purl.obolibrary.org/obo/SO_0000991 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000991 genomic_DNA http://purl.obolibrary.org/obo/SO_0000992 BAC cloned genomic insert http://purl.obolibrary.org/obo/SO_0000992 sequence http://purl.obolibrary.org/obo/SO_0000992 SO:0000992 http://purl.obolibrary.org/obo/SO_0000992 Requested by Andy Schroder - Flybase Harvard, Nov 2006. http://purl.obolibrary.org/obo/SO_0000992 BAC_cloned_genomic_insert http://purl.obolibrary.org/obo/SO_0000993 sequence http://purl.obolibrary.org/obo/SO_0000993 SO:0000993 http://purl.obolibrary.org/obo/SO_0000993 Term added Dec 06 to comply with mapping to MGED terms. It should be used to generate consensus regions. The specific cross product terms they require are consensus_region and consensus_mRNA. http://purl.obolibrary.org/obo/SO_0000993 consensus http://purl.obolibrary.org/obo/SO_0000994 consensus region http://purl.obolibrary.org/obo/SO_0000994 sequence http://purl.obolibrary.org/obo/SO_0000994 SO:0000994 http://purl.obolibrary.org/obo/SO_0000994 DO not obsolete without considering MGED mapping. http://purl.obolibrary.org/obo/SO_0000994 consensus_region http://purl.obolibrary.org/obo/SO_0000995 consensus mRNA http://purl.obolibrary.org/obo/SO_0000995 sequence http://purl.obolibrary.org/obo/SO_0000995 SO:0000995 http://purl.obolibrary.org/obo/SO_0000995 DO not obsolete without considering MGED mapping. http://purl.obolibrary.org/obo/SO_0000995 consensus_mRNA http://purl.obolibrary.org/obo/SO_0000996 predicted gene http://purl.obolibrary.org/obo/SO_0000996 sequence http://purl.obolibrary.org/obo/SO_0000996 SO:0000996 http://purl.obolibrary.org/obo/SO_0000996 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000996 predicted_gene http://purl.obolibrary.org/obo/SO_0000997 gene fragment http://purl.obolibrary.org/obo/SO_0000997 sequence http://purl.obolibrary.org/obo/SO_0000997 SO:0000997 http://purl.obolibrary.org/obo/SO_0000997 This term is mapped to MGED. Do not obsolete without consulting MGED ontology. http://purl.obolibrary.org/obo/SO_0000997 gene_fragment http://www.genetics.org/cgi/content/full/170/2/661 http://purl.obolibrary.org/obo/SO_0000998 A recursive splice site is a splice site which subdivides a large intron. Recursive splicing is a mechanism that splices large introns by sub dividing the intron at non exonic elements and alternate exons. http://purl.obolibrary.org/obo/SO_0000998 recursive splice site http://purl.obolibrary.org/obo/SO_0000998 sequence http://purl.obolibrary.org/obo/SO_0000998 SO:0000998 http://purl.obolibrary.org/obo/SO_0000998 recursive_splice_site SO:ke http://purl.obolibrary.org/obo/SO_0000999 A region of sequence from the end of a BAC clone that may provide a highly specific marker. http://purl.obolibrary.org/obo/SO_0000999 BAC end http://purl.obolibrary.org/obo/SO_0000999 BAC end sequence http://purl.obolibrary.org/obo/SO_0000999 BES http://purl.obolibrary.org/obo/SO_0000999 sequence http://purl.obolibrary.org/obo/SO_0000999 SO:0000999 http://purl.obolibrary.org/obo/SO_0000999 Requested by Keith Boroevich December, 2006. http://purl.obolibrary.org/obo/SO_0000999 BAC_end SO:ke http://purl.obolibrary.org/obo/SO_0001000 A large polynucleotide in Bacteria and Archaea, which functions as the small subunit of the ribosome. wiki http://purl.obolibrary.org/obo/SO_0001000 http://en.wikipedia.org/wiki/16S_ribosomal_RNA http://purl.obolibrary.org/obo/SO_0001000 16S SSU RNA http://purl.obolibrary.org/obo/SO_0001000 16S ribosomal RNA http://purl.obolibrary.org/obo/SO_0001000 rRNA 16S http://purl.obolibrary.org/obo/SO_0001000 sequence http://purl.obolibrary.org/obo/SO_0001000 16S rRNA http://purl.obolibrary.org/obo/SO_0001000 SO:0001000 http://purl.obolibrary.org/obo/SO_0001000 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001000 rRNA_16S SO:ke http://purl.obolibrary.org/obo/SO_0001001 A large polynucleotide in Bacteria and Archaea, which functions as the large subunit of the ribosome. http://purl.obolibrary.org/obo/SO_0001001 23S LSU rRNA http://purl.obolibrary.org/obo/SO_0001001 23S rRNA http://purl.obolibrary.org/obo/SO_0001001 rRNA 23S http://purl.obolibrary.org/obo/SO_0001001 sequence http://purl.obolibrary.org/obo/SO_0001001 23S ribosomal RNA http://purl.obolibrary.org/obo/SO_0001001 SO:0001001 http://purl.obolibrary.org/obo/SO_0001001 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001001 rRNA_23S RSC:cb http://purl.obolibrary.org/obo/SO_0001002 A large polynucleotide which functions as part of the large subunit of the ribosome in some eukaryotes. http://purl.obolibrary.org/obo/SO_0001002 25S LSU rRNA http://purl.obolibrary.org/obo/SO_0001002 25S rRNA http://purl.obolibrary.org/obo/SO_0001002 25S ribosomal RNA http://purl.obolibrary.org/obo/SO_0001002 rRNA 25S http://purl.obolibrary.org/obo/SO_0001002 sequence http://purl.obolibrary.org/obo/SO_0001002 SO:0001002 http://purl.obolibrary.org/obo/SO_0001002 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001002 rRNA_25S SO:ke http://purl.obolibrary.org/obo/SO_0001003 A recombination product between the 2 LTR of the same element. http://purl.obolibrary.org/obo/SO_0001003 solo LTR http://purl.obolibrary.org/obo/SO_0001003 sequence http://purl.obolibrary.org/obo/SO_0001003 SO:0001003 http://purl.obolibrary.org/obo/SO_0001003 Requested by Hadi Quesneville January 2007. http://purl.obolibrary.org/obo/SO_0001003 solo_LTR http://purl.obolibrary.org/obo/SO_0001004 low complexity http://purl.obolibrary.org/obo/SO_0001004 sequence http://purl.obolibrary.org/obo/SO_0001004 SO:0001004 http://purl.obolibrary.org/obo/SO_0001004 low_complexity http://purl.obolibrary.org/obo/SO_0001005 low complexity region http://purl.obolibrary.org/obo/SO_0001005 sequence http://purl.obolibrary.org/obo/SO_0001005 SO:0001005 http://purl.obolibrary.org/obo/SO_0001005 low_complexity_region GOC:jl http://purl.obolibrary.org/obo/SO_0001006 A phage genome after it has established in the host genome in a latent/immune state either as a plasmid or as an integrated "island". wiki http://purl.obolibrary.org/obo/SO_0001006 http://en.wikipedia.org/wiki/Prophage http://purl.obolibrary.org/obo/SO_0001006 sequence http://purl.obolibrary.org/obo/SO_0001006 SO:0001006 http://purl.obolibrary.org/obo/SO_0001006 prophage GOC:jl http://purl.obolibrary.org/obo/SO_0001007 A remnant of an integrated prophage in the host genome or an "island" in the host genome that includes phage like-genes. http://purl.obolibrary.org/obo/SO_0001007 http://ecoliwiki.net/colipedia/index.php/Category:Cryptic_Prophage.w http://purl.obolibrary.org/obo/SO_0001007 cryptic prophage http://purl.obolibrary.org/obo/SO_0001007 sequence http://purl.obolibrary.org/obo/SO_0001007 SO:0001007 http://purl.obolibrary.org/obo/SO_0001007 This is not cryptic in the same sense as a cryptic gene or cryptic splice site. http://purl.obolibrary.org/obo/SO_0001007 cryptic_prophage SO:ke http://purl.obolibrary.org/obo/SO_0001008 A base-paired stem with loop of 4 non-hydrogen bonded nucleotides. wiki http://purl.obolibrary.org/obo/SO_0001008 http://en.wikipedia.org/wiki/Tetraloop http://purl.obolibrary.org/obo/SO_0001008 sequence http://purl.obolibrary.org/obo/SO_0001008 SO:0001008 http://purl.obolibrary.org/obo/SO_0001008 tetraloop http:/www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=search&db=pubmed&term=SILVERMAN+SK[au]&dispmax=50 http://purl.obolibrary.org/obo/SO_0001009 A double-stranded DNA used to control macromolecular structure and function. http://purl.obolibrary.org/obo/SO_0001009 DNA constraint http://purl.obolibrary.org/obo/SO_0001009 DNA constraint sequence http://purl.obolibrary.org/obo/SO_0001009 sequence http://purl.obolibrary.org/obo/SO_0001009 SO:0001009 http://purl.obolibrary.org/obo/SO_0001009 DNA_constraint_sequence PMID:9753739 http://purl.obolibrary.org/obo/SO_0001010 A cytosine rich domain whereby strands associate both inter- and intramolecularly at moderately acidic pH. http://purl.obolibrary.org/obo/SO_0001010 i motif http://purl.obolibrary.org/obo/SO_0001010 short intercalated motif http://purl.obolibrary.org/obo/SO_0001010 sequence http://purl.obolibrary.org/obo/SO_0001010 SO:0001010 http://purl.obolibrary.org/obo/SO_0001010 i_motif SO:ke http://purl.obolibrary.org/obo/SO_0001011 Peptide nucleic acid, is a chemical not known to occur naturally but is artificially synthesized and used in some biological research and medical treatments. The PNA backbone is composed of repeating N-(2-aminoethyl)-glycine units linked by peptide bonds. The purine and pyrimidine bases are linked to the backbone by methylene carbonyl bonds. wiki http://purl.obolibrary.org/obo/SO_0001011 http://en.wikipedia.org/wiki/Peptide_nucleic_acid http://purl.obolibrary.org/obo/SO_0001011 PNA oligo http://purl.obolibrary.org/obo/SO_0001011 peptide nucleic acid http://purl.obolibrary.org/obo/SO_0001011 sequence http://purl.obolibrary.org/obo/SO_0001011 SO:0001011 http://purl.obolibrary.org/obo/SO_0001011 PNA_oligo SO:cb http://purl.obolibrary.org/obo/SO_0001012 A DNA sequence with catalytic activity. http://purl.obolibrary.org/obo/SO_0001012 DNA enzyme http://purl.obolibrary.org/obo/SO_0001012 catalytic DNA http://purl.obolibrary.org/obo/SO_0001012 sequence http://purl.obolibrary.org/obo/SO_0001012 deoxyribozyme http://purl.obolibrary.org/obo/SO_0001012 SO:0001012 http://purl.obolibrary.org/obo/SO_0001012 Added by request from Colin Batchelor. http://purl.obolibrary.org/obo/SO_0001012 DNAzyme http://www.ncbi.nlm.nih.gov/SNP/snp_ref.cgi?rs=rs2067431 http://purl.obolibrary.org/obo/SO_0001013 A multiple nucleotide polymorphism with alleles of common length > 1, for example AAA/TTT. http://purl.obolibrary.org/obo/SO_0001013 sequence http://purl.obolibrary.org/obo/SO_0001013 multiple nucleotide polymorphism http://purl.obolibrary.org/obo/SO_0001013 SO:0001013 http://purl.obolibrary.org/obo/SO_0001013 MNP http://purl.obolibrary.org/obo/SO_0001014 intron domain http://purl.obolibrary.org/obo/SO_0001014 sequence http://purl.obolibrary.org/obo/SO_0001014 SO:0001014 http://purl.obolibrary.org/obo/SO_0001014 Requested by Colin Batchelor, Feb 2007. http://purl.obolibrary.org/obo/SO_0001014 intron_domain PMID:11256617 http://purl.obolibrary.org/obo/SO_0001015 A type of non-canonical base pairing, most commonly between G and U, which is important for the secondary structure of RNAs. It has similar thermodynamic stability to the Watson-Crick pairing. Wobble base pairs only have two hydrogen bonds. Other wobble base pair possibilities are I-A, I-U and I-C. wiki http://purl.obolibrary.org/obo/SO_0001015 http://en.wikipedia.org/wiki/Wobble_base_pair http://purl.obolibrary.org/obo/SO_0001015 wobble base pair http://purl.obolibrary.org/obo/SO_0001015 wobble pair http://purl.obolibrary.org/obo/SO_0001015 sequence http://purl.obolibrary.org/obo/SO_0001015 SO:0001015 http://purl.obolibrary.org/obo/SO_0001015 wobble_base_pair SO:cb http://purl.obolibrary.org/obo/SO_0001016 A purine-rich sequence in the group I introns which determines the locations of the splice sites in group I intron splicing and has catalytic activity. http://purl.obolibrary.org/obo/SO_0001016 IGS http://purl.obolibrary.org/obo/SO_0001016 internal guide sequence http://purl.obolibrary.org/obo/SO_0001016 sequence http://purl.obolibrary.org/obo/SO_0001016 SO:0001016 http://purl.obolibrary.org/obo/SO_0001016 internal_guide_sequence SO:ke http://purl.obolibrary.org/obo/SO_0001017 A sequence variant that does not affect protein function. Silent mutations may occur in genic ( CDS, UTR, intron etc) and intergenic regions. Silent mutations may have affects on processes such as splicing and regulation. wiki http://purl.obolibrary.org/obo/SO_0001017 http://en.wikipedia.org/wiki/Silent_mutation Silent http://purl.obolibrary.org/obo/SO_0001017 loinc:LA6700-4 http://purl.obolibrary.org/obo/SO_0001017 silent mutation http://purl.obolibrary.org/obo/SO_0001017 sequence http://purl.obolibrary.org/obo/SO_0001017 SO:0001017 http://purl.obolibrary.org/obo/SO_0001017 Added in March 2007 in after meeting with PharmGKB. Although this term is in common usage, it is better to annotate with the most specific term possible, such as synonymous codon, intron variant etc. http://purl.obolibrary.org/obo/SO_0001017 silent_mutation SO:cb http://en.wikipedia.org/wiki/Epitope http://purl.obolibrary.org/obo/SO_0001018 A binding site that, in the molecule, interacts selectively and non-covalently with antibodies, B cells or T cells. wiki http://purl.obolibrary.org/obo/SO_0001018 http://en.wikipedia.org/wiki/Epitope http://purl.obolibrary.org/obo/SO_0001018 sequence http://purl.obolibrary.org/obo/SO_0001018 SO:0001018 http://purl.obolibrary.org/obo/SO_0001018 Requested by Trish Whetzel. http://purl.obolibrary.org/obo/SO_0001018 epitope SO:ke http://purl.obolibrary.org/obo/SO_0001019 A variation that increases or decreases the copy number of a given region. wiki http://purl.obolibrary.org/obo/SO_0001019 http://en.wikipedia.org/wiki/Copy_number_variation http://purl.obolibrary.org/obo/SO_0001019 CNP http://purl.obolibrary.org/obo/SO_0001019 CNV http://purl.obolibrary.org/obo/SO_0001019 copy number polymorphism http://purl.obolibrary.org/obo/SO_0001019 copy number variation http://purl.obolibrary.org/obo/SO_0001019 sequence http://purl.obolibrary.org/obo/SO_0001019 SO:0001019 http://purl.obolibrary.org/obo/SO_0001019 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001019 copy_number_variation http://purl.obolibrary.org/obo/SO_0001020 SO:0001563 http://purl.obolibrary.org/obo/SO_0001020 mutation affecting copy number http://purl.obolibrary.org/obo/SO_0001020 sequence variant affecting copy number http://purl.obolibrary.org/obo/SO_0001020 sequence http://purl.obolibrary.org/obo/SO_0001020 SO:0001020 http://purl.obolibrary.org/obo/SO_0001020 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_0001020 sequence_variant_affecting_copy_number http://purl.obolibrary.org/obo/SO_0001020 true http://purl.obolibrary.org/obo/SO_0001021 SO:0001242 http://purl.obolibrary.org/obo/SO_0001021 aberration breakpoint http://purl.obolibrary.org/obo/SO_0001021 aberration_junction http://purl.obolibrary.org/obo/SO_0001021 chromosome breakpoint http://purl.obolibrary.org/obo/SO_0001021 sequence http://purl.obolibrary.org/obo/SO_0001021 SO:0001021 http://purl.obolibrary.org/obo/SO_0001021 chromosome_breakpoint SO:cb http://purl.obolibrary.org/obo/SO_0001022 The point within a chromosome where an inversion begins or ends. http://purl.obolibrary.org/obo/SO_0001022 inversion breakpoint http://purl.obolibrary.org/obo/SO_0001022 sequence http://purl.obolibrary.org/obo/SO_0001022 SO:0001022 http://purl.obolibrary.org/obo/SO_0001022 inversion_breakpoint SO:immuno_workshop http://purl.obolibrary.org/obo/SO_0001023 An allele is one of a set of coexisting sequence variants of a gene. wiki http://purl.obolibrary.org/obo/SO_0001023 http://en.wikipedia.org/wiki/Allele http://purl.obolibrary.org/obo/SO_0001023 allelomorph http://purl.obolibrary.org/obo/SO_0001023 sequence http://purl.obolibrary.org/obo/SO_0001023 SO:0001023 http://purl.obolibrary.org/obo/SO_0001023 allele SO:immuno_workshop http://purl.obolibrary.org/obo/SO_0001024 A haplotype is one of a set of coexisting sequence variants of a haplotype block. wiki http://purl.obolibrary.org/obo/SO_0001024 http://en.wikipedia.org/wiki/Haplotype http://purl.obolibrary.org/obo/SO_0001024 sequence http://purl.obolibrary.org/obo/SO_0001024 SO:0001024 http://purl.obolibrary.org/obo/SO_0001024 haplotype SO:immuno_workshop http://purl.obolibrary.org/obo/SO_0001025 A sequence variant that is segregating in one or more natural populations of a species. http://purl.obolibrary.org/obo/SO_0001025 polymorphic sequence variant http://purl.obolibrary.org/obo/SO_0001025 sequence http://purl.obolibrary.org/obo/SO_0001025 SO:0001025 http://purl.obolibrary.org/obo/SO_0001025 polymorphic_sequence_variant SO:immuno_workshop http://purl.obolibrary.org/obo/SO_0001026 A genome is the sum of genetic material within a cell or virion. wiki http://purl.obolibrary.org/obo/SO_0001026 http://en.wikipedia.org/wiki/Genome http://purl.obolibrary.org/obo/SO_0001026 sequence http://purl.obolibrary.org/obo/SO_0001026 SO:0001026 http://purl.obolibrary.org/obo/SO_0001026 genome SO:immuno_workshop http://purl.obolibrary.org/obo/SO_0001027 A genotype is a variant genome, complete or incomplete. wiki http://purl.obolibrary.org/obo/SO_0001027 http://en.wikipedia.org/wiki/Genotype http://purl.obolibrary.org/obo/SO_0001027 sequence http://purl.obolibrary.org/obo/SO_0001027 SO:0001027 http://purl.obolibrary.org/obo/SO_0001027 genotype SO:immuno_workshop http://purl.obolibrary.org/obo/SO_0001028 A diplotype is a pair of haplotypes from a given individual. It is a genotype where the phase is known. http://purl.obolibrary.org/obo/SO_0001028 sequence http://purl.obolibrary.org/obo/SO_0001028 SO:0001028 http://purl.obolibrary.org/obo/SO_0001028 diplotype http://purl.obolibrary.org/obo/SO_0001029 direction attribute http://purl.obolibrary.org/obo/SO_0001029 sequence http://purl.obolibrary.org/obo/SO_0001029 SO:0001029 http://purl.obolibrary.org/obo/SO_0001029 direction_attribute SO:ke http://purl.obolibrary.org/obo/SO_0001030 Forward is an attribute of the feature, where the feature is in the 5' to 3' direction. http://purl.obolibrary.org/obo/SO_0001030 sequence http://purl.obolibrary.org/obo/SO_0001030 SO:0001030 http://purl.obolibrary.org/obo/SO_0001030 forward SO:ke http://purl.obolibrary.org/obo/SO_0001031 Reverse is an attribute of the feature, where the feature is in the 3' to 5' direction. Again could be applied to primer. http://purl.obolibrary.org/obo/SO_0001031 sequence http://purl.obolibrary.org/obo/SO_0001031 SO:0001031 http://purl.obolibrary.org/obo/SO_0001031 reverse wiki http://purl.obolibrary.org/obo/SO_0001032 http://en.wikipedia.org/wiki/Mitochondrial_DNA http://purl.obolibrary.org/obo/SO_0001032 mitochondrial DNA http://purl.obolibrary.org/obo/SO_0001032 mtDNA http://purl.obolibrary.org/obo/SO_0001032 sequence http://purl.obolibrary.org/obo/SO_0001032 SO:0001032 http://purl.obolibrary.org/obo/SO_0001032 This terms is used by MO. http://purl.obolibrary.org/obo/SO_0001032 mitochondrial_DNA http://purl.obolibrary.org/obo/SO_0001033 chloroplast DNA http://purl.obolibrary.org/obo/SO_0001033 sequence http://purl.obolibrary.org/obo/SO_0001033 SO:0001033 http://purl.obolibrary.org/obo/SO_0001033 This term is used by MO. http://purl.obolibrary.org/obo/SO_0001033 chloroplast_DNA PMID:17589500 SO:ma http://purl.obolibrary.org/obo/SO_0001034 A de-branched intron which mimics the structure of pre-miRNA and enters the miRNA processing pathway without Drosha mediated cleavage. http://purl.obolibrary.org/obo/SO_0001034 sequence http://purl.obolibrary.org/obo/SO_0001034 SO:0001034 http://purl.obolibrary.org/obo/SO_0001034 Ruby et al. Nature 448:83 describe a new class of miRNAs that are derived from de-branched introns. http://purl.obolibrary.org/obo/SO_0001034 miRtron SO:ke http://purl.obolibrary.org/obo/SO_0001035 A small non coding RNA, part of a silencing system that prevents the spreading of selfish genetic elements. wiki http://purl.obolibrary.org/obo/SO_0001035 http://en.wikipedia.org/wiki/PiRNA http://purl.obolibrary.org/obo/SO_0001035 piwi-associated RNA http://purl.obolibrary.org/obo/SO_0001035 sequence http://purl.obolibrary.org/obo/SO_0001035 SO:0001035 http://purl.obolibrary.org/obo/SO_0001035 piRNA SO:ke http://purl.obolibrary.org/obo/SO_0001036 A tRNA sequence that has an arginine anticodon, and a 3' arginine binding region. http://purl.obolibrary.org/obo/SO_0001036 arginyl tRNA http://purl.obolibrary.org/obo/SO_0001036 sequence http://purl.obolibrary.org/obo/SO_0001036 SO:0001036 http://purl.obolibrary.org/obo/SO_0001036 arginyl_tRNA PMID:14681355 http://purl.obolibrary.org/obo/SO_0001037 A nucleotide region with either intra-genome or intracellular mobility, of varying length, which often carry the information necessary for transfer and recombination with the host genome. wiki http://purl.obolibrary.org/obo/SO_0001037 http://en.wikipedia.org/wiki/Mobile_genetic_element http://purl.obolibrary.org/obo/SO_0001037 MGE http://purl.obolibrary.org/obo/SO_0001037 mobile genetic element http://purl.obolibrary.org/obo/SO_0001037 sequence http://purl.obolibrary.org/obo/SO_0001037 SO:0001037 http://purl.obolibrary.org/obo/SO_0001037 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001037 mobile_genetic_element SO:ke http://purl.obolibrary.org/obo/SO_0001038 An MGE that is not integrated into the host chromosome. http://purl.obolibrary.org/obo/SO_0001038 extrachromosomal mobile genetic element http://purl.obolibrary.org/obo/SO_0001038 sequence http://purl.obolibrary.org/obo/SO_0001038 SO:0001038 http://purl.obolibrary.org/obo/SO_0001038 extrachromosomal_mobile_genetic_element SO:ke http://purl.obolibrary.org/obo/SO_0001039 An MGE that is integrated into the host chromosome. http://purl.obolibrary.org/obo/SO_0001039 integrated mobile genetic element http://purl.obolibrary.org/obo/SO_0001039 sequence http://purl.obolibrary.org/obo/SO_0001039 SO:0001039 http://purl.obolibrary.org/obo/SO_0001039 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001039 integrated_mobile_genetic_element SO:ke http://purl.obolibrary.org/obo/SO_0001040 A plasmid sequence that is integrated within the host chromosome. http://purl.obolibrary.org/obo/SO_0001040 integrated plasmid http://purl.obolibrary.org/obo/SO_0001040 sequence http://purl.obolibrary.org/obo/SO_0001040 SO:0001040 http://purl.obolibrary.org/obo/SO_0001040 integrated_plasmid SO:ke http://purl.obolibrary.org/obo/SO_0001041 The region of nucleotide sequence of a virus, a submicroscopic particle that replicates by infecting a host cell. http://purl.obolibrary.org/obo/SO_0001041 viral sequence http://purl.obolibrary.org/obo/SO_0001041 virus sequence http://purl.obolibrary.org/obo/SO_0001041 sequence http://purl.obolibrary.org/obo/SO_0001041 SO:0001041 http://purl.obolibrary.org/obo/SO_0001041 The definitions of the children of this term were revised Decemeber 2007 after discussion on song-devel. The resulting definitions are slightly unweildy but hopefully more logically correct. http://purl.obolibrary.org/obo/SO_0001041 viral_sequence SO:ke http://purl.obolibrary.org/obo/SO_0001042 The nucleotide sequence of a virus that infects bacteria. wiki http://purl.obolibrary.org/obo/SO_0001042 http://en.wikipedia.org/wiki/Bacteriophage http://purl.obolibrary.org/obo/SO_0001042 bacteriophage http://purl.obolibrary.org/obo/SO_0001042 phage http://purl.obolibrary.org/obo/SO_0001042 phage sequence http://purl.obolibrary.org/obo/SO_0001042 sequence http://purl.obolibrary.org/obo/SO_0001042 SO:0001042 http://purl.obolibrary.org/obo/SO_0001042 phage_sequence Phigo:at http://purl.obolibrary.org/obo/SO_0001043 An attachment site located on a conjugative transposon and used for site-specific integration of a conjugative transposon. http://purl.obolibrary.org/obo/SO_0001043 attCtn site http://purl.obolibrary.org/obo/SO_0001043 sequence http://purl.obolibrary.org/obo/SO_0001043 SO:0001043 http://purl.obolibrary.org/obo/SO_0001043 attCtn_site SO:xp http://purl.obolibrary.org/obo/SO_0001044 A nuclear pseudogene of either coding or non-coding mitochondria derived sequence. wikipedia http://purl.obolibrary.org/obo/SO_0001044 http://en.wikipedia.org/wiki/Numt http://purl.obolibrary.org/obo/SO_0001044 NUMT http://purl.obolibrary.org/obo/SO_0001044 nuclear mitochondrial pseudogene http://purl.obolibrary.org/obo/SO_0001044 nuclear mt pseudogene http://purl.obolibrary.org/obo/SO_0001044 sequence http://purl.obolibrary.org/obo/SO_0001044 SO:0001044 http://purl.obolibrary.org/obo/SO_0001044 Definition change requested by Val, 3172757. http://purl.obolibrary.org/obo/SO_0001044 nuclear_mt_pseudogene phigo:at http://purl.obolibrary.org/obo/SO_0001045 A MGE region consisting of two fused plasmids resulting from a replicative transposition event. http://purl.obolibrary.org/obo/SO_0001045 cointegrated plasmid http://purl.obolibrary.org/obo/SO_0001045 cointegrated replicon http://purl.obolibrary.org/obo/SO_0001045 sequence http://purl.obolibrary.org/obo/SO_0001045 SO:0001045 http://purl.obolibrary.org/obo/SO_0001045 cointegrated_plasmid Phigo:at http://purl.obolibrary.org/obo/SO_0001046 Component of the inversion site located at the left of a region susceptible to site-specific inversion. http://purl.obolibrary.org/obo/SO_0001046 IRLinv site http://purl.obolibrary.org/obo/SO_0001046 sequence http://purl.obolibrary.org/obo/SO_0001046 SO:0001046 http://purl.obolibrary.org/obo/SO_0001046 IRLinv_site Phigo:at http://purl.obolibrary.org/obo/SO_0001047 Component of the inversion site located at the right of a region susceptible to site-specific inversion. http://purl.obolibrary.org/obo/SO_0001047 IRRinv site http://purl.obolibrary.org/obo/SO_0001047 sequence http://purl.obolibrary.org/obo/SO_0001047 SO:0001047 http://purl.obolibrary.org/obo/SO_0001047 IRRinv_site SO:ke http://purl.obolibrary.org/obo/SO_0001048 A region located within an inversion site. http://purl.obolibrary.org/obo/SO_0001048 inversion site part http://purl.obolibrary.org/obo/SO_0001048 sequence http://purl.obolibrary.org/obo/SO_0001048 SO:0001048 http://purl.obolibrary.org/obo/SO_0001048 A term created to allow the parts of an inversion site have an is_a path back to the root. http://purl.obolibrary.org/obo/SO_0001048 inversion_site_part Phigo:ariane http://purl.obolibrary.org/obo/SO_0001049 An island that contains genes for integration/excision and the gene and site for the initiation of intercellular transfer by conjugation. It can be complemented for transfer by a conjugative transposon. http://purl.obolibrary.org/obo/SO_0001049 defective conjugative transposon http://purl.obolibrary.org/obo/SO_0001049 sequence http://purl.obolibrary.org/obo/SO_0001049 SO:0001049 http://purl.obolibrary.org/obo/SO_0001049 defective_conjugative_transposon SO:ke http://purl.obolibrary.org/obo/SO_0001050 A portion of a repeat, interrupted by the insertion of another element. http://purl.obolibrary.org/obo/SO_0001050 repeat fragment http://purl.obolibrary.org/obo/SO_0001050 sequence http://purl.obolibrary.org/obo/SO_0001050 SO:0001050 http://purl.obolibrary.org/obo/SO_0001050 Requested by Chris Smith, and others at Flybase to help annotate nested repeats. http://purl.obolibrary.org/obo/SO_0001050 repeat_fragment http://purl.obolibrary.org/obo/SO_0001051 sequence http://purl.obolibrary.org/obo/SO_0001051 SO:0001051 http://purl.obolibrary.org/obo/SO_0001051 nested_region http://purl.obolibrary.org/obo/SO_0001051 true http://purl.obolibrary.org/obo/SO_0001052 sequence http://purl.obolibrary.org/obo/SO_0001052 SO:0001052 http://purl.obolibrary.org/obo/SO_0001052 nested_repeat http://purl.obolibrary.org/obo/SO_0001052 true http://purl.obolibrary.org/obo/SO_0001053 sequence http://purl.obolibrary.org/obo/SO_0001053 SO:0001053 http://purl.obolibrary.org/obo/SO_0001053 nested_transposon http://purl.obolibrary.org/obo/SO_0001053 true SO:ke http://purl.obolibrary.org/obo/SO_0001054 A portion of a transposon, interrupted by the insertion of another element. http://purl.obolibrary.org/obo/SO_0001054 transposon fragment http://purl.obolibrary.org/obo/SO_0001054 sequence http://purl.obolibrary.org/obo/SO_0001054 SO:0001054 http://purl.obolibrary.org/obo/SO_0001054 transposon_fragment PMID:9679020 SO:regcreative http://purl.obolibrary.org/obo/SO_0001055 A regulatory_region that modulates the transcription of a gene or genes. http://purl.obolibrary.org/obo/SO_0001055 transcription-control region http://purl.obolibrary.org/obo/SO_0001055 transcriptional cis regulatory region http://purl.obolibrary.org/obo/SO_0001055 sequence http://purl.obolibrary.org/obo/SO_0001055 SO:0001055 http://purl.obolibrary.org/obo/SO_0001055 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001055 transcriptional_cis_regulatory_region SO:ke http://purl.obolibrary.org/obo/SO_0001056 A regulatory_region that modulates splicing. http://purl.obolibrary.org/obo/SO_0001056 splicing regulatory region http://purl.obolibrary.org/obo/SO_0001056 sequence http://purl.obolibrary.org/obo/SO_0001056 SO:0001056 http://purl.obolibrary.org/obo/SO_0001056 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001056 splicing_regulatory_region http://purl.obolibrary.org/obo/SO_0001057 sequence http://purl.obolibrary.org/obo/SO_0001057 SO:0001057 http://purl.obolibrary.org/obo/SO_0001057 enhanceosome http://purl.obolibrary.org/obo/SO_0001057 true SO:regcreative http://purl.obolibrary.org/obo/SO_0001058 A transcriptional_cis_regulatory_region that restricts the activity of a CRM to a single promoter and which functions only when both itself and an insulator are located between the CRM and the promoter. http://purl.obolibrary.org/obo/SO_0001058 promoter targeting sequence http://purl.obolibrary.org/obo/SO_0001058 sequence http://purl.obolibrary.org/obo/SO_0001058 SO:0001058 http://purl.obolibrary.org/obo/SO_0001058 promoter_targeting_sequence SO:ke http://purl.obolibrary.org/obo/SO_0001059 A sequence_alteration is a sequence_feature whose extent is the deviation from another sequence. http://purl.obolibrary.org/obo/SO_0001059 SO:1000004 http://purl.obolibrary.org/obo/SO_0001059 SO:1000007 http://purl.obolibrary.org/obo/SO_0001059 sequence alteration http://purl.obolibrary.org/obo/SO_0001059 partially characterised change in DNA sequence http://purl.obolibrary.org/obo/SO_0001059 partially_characterised_change_in_DNA_sequence http://purl.obolibrary.org/obo/SO_0001059 uncharacterised_change_in_nucleotide_sequence http://purl.obolibrary.org/obo/SO_0001059 sequence http://purl.obolibrary.org/obo/SO_0001059 sequence variation http://purl.obolibrary.org/obo/SO_0001059 SO:0001059 http://purl.obolibrary.org/obo/SO_0001059 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001059 Merged with partially characterized change in nucleotide sequence. http://purl.obolibrary.org/obo/SO_0001059 sequence_alteration SO:ke http://purl.obolibrary.org/obo/SO_0001060 A sequence_variant is a non exact copy of a sequence_feature or genome exhibiting one or more sequence_alteration. http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001060 VAAST:sequence_variant http://purl.obolibrary.org/obo/SO_0001060 sequence variant http://purl.obolibrary.org/obo/SO_0001060 sequence http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001060 ANNOVAR:unknown http://purl.obolibrary.org/obo/SO_0001060 SO:0001060 http://purl.obolibrary.org/obo/SO_0001060 sequence_variant EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001061 The propeptide_cleavage_site is the arginine/lysine boundary on a propeptide where cleavage occurs. http://purl.obolibrary.org/obo/SO_0001061 BS:00063 http://purl.obolibrary.org/obo/SO_0001061 propeptide cleavage site http://purl.obolibrary.org/obo/SO_0001061 sequence http://purl.obolibrary.org/obo/SO_0001061 SO:0001061 http://purl.obolibrary.org/obo/SO_0001061 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001061 Discrete. http://purl.obolibrary.org/obo/SO_0001061 propeptide_cleavage_site EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001062 Part of a peptide chain which is cleaved off during the formation of the mature protein. http://purl.obolibrary.org/obo/SO_0001062 BS:00077 wiki http://purl.obolibrary.org/obo/SO_0001062 http://en.wikipedia.org/wiki/Propeptide http://purl.obolibrary.org/obo/SO_0001062 sequence uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001062 propep http://purl.obolibrary.org/obo/SO_0001062 SO:0001062 http://purl.obolibrary.org/obo/SO_0001062 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001062 Range. http://purl.obolibrary.org/obo/SO_0001062 propeptide EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001063 An immature_peptide_region is the extent of the peptide after it has been translated and before any processing occurs. http://purl.obolibrary.org/obo/SO_0001063 BS:00129 http://purl.obolibrary.org/obo/SO_0001063 immature peptide region http://purl.obolibrary.org/obo/SO_0001063 sequence http://purl.obolibrary.org/obo/SO_0001063 SO:0001063 http://purl.obolibrary.org/obo/SO_0001063 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001063 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001063 Range. http://purl.obolibrary.org/obo/SO_0001063 immature_peptide_region EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001064 Active peptides are proteins which are biologically active, released from a precursor molecule. http://purl.obolibrary.org/obo/SO_0001064 BS:00076 uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001064 peptide wiki http://purl.obolibrary.org/obo/SO_0001064 http://en.wikipedia.org/wiki/Peptide http://purl.obolibrary.org/obo/SO_0001064 active peptide http://purl.obolibrary.org/obo/SO_0001064 sequence http://purl.obolibrary.org/obo/SO_0001064 SO:0001064 http://purl.obolibrary.org/obo/SO_0001064 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001064 Hormones, neuropeptides, antimicrobial peptides, are active peptides. They are typically short (<40 amino acids) in length. http://purl.obolibrary.org/obo/SO_0001064 active_peptide EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001066 Polypeptide region that is rich in a particular amino acid or homopolymeric and greater than three residues in length. http://purl.obolibrary.org/obo/SO_0001066 BS:00068 http://purl.obolibrary.org/obo/SO_0001066 compositionally_biased_region http://purl.obolibrary.org/obo/SO_0001066 sequence uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001066 compbias http://purl.obolibrary.org/obo/SO_0001066 compositional bias http://purl.obolibrary.org/obo/SO_0001066 compositionally biased http://purl.obolibrary.org/obo/SO_0001066 compositionally biased region of peptide http://purl.obolibrary.org/obo/SO_0001066 SO:0001066 http://purl.obolibrary.org/obo/SO_0001066 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001066 Range. http://purl.obolibrary.org/obo/SO_0001066 compositionally_biased_region_of_peptide EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001067 A sequence motif is a short (up to 20 amino acids) region of biological interest. Such motifs, although they are too short to constitute functional domains, share sequence similarities and are conserved in different proteins. They display a common function (protein-binding, subcellular location etc.). http://purl.obolibrary.org/obo/SO_0001067 BS:00032 uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001067 motif http://purl.obolibrary.org/obo/SO_0001067 polypeptide motif http://purl.obolibrary.org/obo/SO_0001067 sequence http://purl.obolibrary.org/obo/SO_0001067 SO:0001067 http://purl.obolibrary.org/obo/SO_0001067 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001067 Range. http://purl.obolibrary.org/obo/SO_0001067 polypeptide_motif EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001068 A polypeptide_repeat is a single copy of an internal sequence repetition. http://purl.obolibrary.org/obo/SO_0001068 BS:00070 http://purl.obolibrary.org/obo/SO_0001068 polypeptide repeat http://purl.obolibrary.org/obo/SO_0001068 sequence uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001068 repeat http://purl.obolibrary.org/obo/SO_0001068 SO:0001068 http://purl.obolibrary.org/obo/SO_0001068 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001068 Range. http://purl.obolibrary.org/obo/SO_0001068 polypeptide_repeat EBIBS:GAR SO:cb http://purl.obolibrary.org/obo/SO_0001070 Region of polypeptide with a given structural property. http://purl.obolibrary.org/obo/SO_0001070 BS:00337 http://purl.obolibrary.org/obo/SO_0001070 polypeptide structural region http://purl.obolibrary.org/obo/SO_0001070 sequence http://purl.obolibrary.org/obo/SO_0001070 structural_region http://purl.obolibrary.org/obo/SO_0001070 SO:0001070 http://purl.obolibrary.org/obo/SO_0001070 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001070 Range. http://purl.obolibrary.org/obo/SO_0001070 polypeptide_structural_region EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001071 Arrangement of the polypeptide with respect to the lipid bilayer. http://purl.obolibrary.org/obo/SO_0001071 BS:00128 http://purl.obolibrary.org/obo/SO_0001071 membrane structure http://purl.obolibrary.org/obo/SO_0001071 sequence http://purl.obolibrary.org/obo/SO_0001071 SO:0001071 http://purl.obolibrary.org/obo/SO_0001071 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001071 Range. http://purl.obolibrary.org/obo/SO_0001071 membrane_structure EBIBS:GAR SO:cb http://purl.obolibrary.org/obo/SO_0001072 Polypeptide region that is localized outside of a lipid bilayer. http://purl.obolibrary.org/obo/SO_0001072 BS:00154 http://purl.obolibrary.org/obo/SO_0001072 extramembrane polypeptide region http://purl.obolibrary.org/obo/SO_0001072 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001072 extramembrane http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001072 extramembrane_region uniprot:feature_type http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001072 topo_dom http://purl.obolibrary.org/obo/SO_0001072 SO:0001072 http://purl.obolibrary.org/obo/SO_0001072 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001072 Range. http://purl.obolibrary.org/obo/SO_0001072 extramembrane_polypeptide_region EBIBS:GAR SO:cb http://purl.obolibrary.org/obo/SO_0001073 Polypeptide region that is localized inside the cytoplasm. http://purl.obolibrary.org/obo/SO_0001073 BS:00145 http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001073 cytoplasm_location http://purl.obolibrary.org/obo/SO_0001073 cytoplasmic polypeptide region http://purl.obolibrary.org/obo/SO_0001073 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001073 inside http://purl.obolibrary.org/obo/SO_0001073 SO:0001073 http://purl.obolibrary.org/obo/SO_0001073 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001073 cytoplasmic_polypeptide_region EBIBS:GAR SO:cb http://purl.obolibrary.org/obo/SO_0001074 Polypeptide region that is localized outside of a lipid bilayer and outside of the cytoplasm. http://purl.obolibrary.org/obo/SO_0001074 BS:00144 http://purl.obolibrary.org/obo/SO_0001074 non cytoplasmic polypeptide region http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001074 non_cytoplasm_location http://purl.obolibrary.org/obo/SO_0001074 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001074 outside http://purl.obolibrary.org/obo/SO_0001074 SO:0001074 http://purl.obolibrary.org/obo/SO_0001074 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001074 This could be inside an organelle within the cell. http://purl.obolibrary.org/obo/SO_0001074 non_cytoplasmic_polypeptide_region EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001075 Polypeptide region present in the lipid bilayer. http://purl.obolibrary.org/obo/SO_0001075 BS:00156 http://purl.obolibrary.org/obo/SO_0001075 intramembrane polypeptide region http://purl.obolibrary.org/obo/SO_0001075 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001075 intramembrane http://purl.obolibrary.org/obo/SO_0001075 SO:0001075 http://purl.obolibrary.org/obo/SO_0001075 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001075 intramembrane_polypeptide_region EBIBS:GAR SO:cb http://purl.obolibrary.org/obo/SO_0001076 Polypeptide region localized within the lipid bilayer where both ends traverse the same membrane. http://purl.obolibrary.org/obo/SO_0001076 BS:00155 http://purl.obolibrary.org/obo/SO_0001076 membrane peptide loop http://purl.obolibrary.org/obo/SO_0001076 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001076 membrane_loop http://purl.obolibrary.org/obo/SO_0001076 SO:0001076 http://purl.obolibrary.org/obo/SO_0001076 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001076 membrane_peptide_loop EBIBS:GAR UniProt:curator_manual http://purl.obolibrary.org/obo/SO_0001077 Polypeptide region traversing the lipid bilayer. http://purl.obolibrary.org/obo/SO_0001077 BS:00158 http://purl.obolibrary.org/obo/SO_0001077 transmembrane polypeptide region http://purl.obolibrary.org/obo/SO_0001077 sequence uniprot:feature_type http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001077 transmem http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001077 transmembrane http://purl.obolibrary.org/obo/SO_0001077 SO:0001077 http://purl.obolibrary.org/obo/SO_0001077 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001077 transmembrane_polypeptide_region EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001078 A region of peptide with secondary structure has hydrogen bonding along the peptide chain that causes a defined conformation of the chain. http://purl.obolibrary.org/obo/SO_0001078 BS:00003 wiki http://purl.obolibrary.org/obo/SO_0001078 http://en.wikipedia.org/wiki/Secondary_structure http://purl.obolibrary.org/obo/SO_0001078 polypeptide secondary structure http://purl.obolibrary.org/obo/SO_0001078 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001078 2nary structure http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001078 secondary structure http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001078 secondary structure region http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001078 secondary_structure http://purl.obolibrary.org/obo/SO_0001078 SO:0001078 http://purl.obolibrary.org/obo/SO_0001078 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001078 Biosapien term was secondary_structure. http://purl.obolibrary.org/obo/SO_0001078 polypeptide_secondary_structure EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001079 Motif is a three-dimensional structural element within the chain, which appears also in a variety of other molecules. Unlike a domain, a motif does not need to form a stable globular unit. http://purl.obolibrary.org/obo/SO_0001079 BS:0000338 wiki http://purl.obolibrary.org/obo/SO_0001079 http://en.wikipedia.org/wiki/Structural_motif http://purl.obolibrary.org/obo/SO_0001079 sequence http://purl.obolibrary.org/obo/SO_0001079 polypeptide structural motif http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001079 structural_motif http://purl.obolibrary.org/obo/SO_0001079 SO:0001079 http://purl.obolibrary.org/obo/SO_0001079 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001079 polypeptide_structural_motif EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001080 A coiled coil is a structural motif in proteins, in which alpha-helices are coiled together like the strands of a rope. http://purl.obolibrary.org/obo/SO_0001080 BS:00041 wiki http://purl.obolibrary.org/obo/SO_0001080 http://en.wikipedia.org/wiki/Coiled_coil http://purl.obolibrary.org/obo/SO_0001080 coiled coil http://purl.obolibrary.org/obo/SO_0001080 sequence uniprot:feature_type http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001080 coiled http://purl.obolibrary.org/obo/SO_0001080 SO:0001080 http://purl.obolibrary.org/obo/SO_0001080 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001080 Range. http://purl.obolibrary.org/obo/SO_0001080 coiled_coil EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001081 A motif comprising two helices separated by a turn. http://purl.obolibrary.org/obo/SO_0001081 BS:00147 http://purl.obolibrary.org/obo/SO_0001081 helix turn helix http://purl.obolibrary.org/obo/SO_0001081 helix-turn-helix http://purl.obolibrary.org/obo/SO_0001081 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001081 HTH http://purl.obolibrary.org/obo/SO_0001081 SO:0001081 http://purl.obolibrary.org/obo/SO_0001081 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001081 helix_turn_helix EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001082 Incompatibility in the sequence due to some experimental problem. http://purl.obolibrary.org/obo/SO_0001082 BS:00125 http://purl.obolibrary.org/obo/SO_0001082 sequencing_information http://purl.obolibrary.org/obo/SO_0001082 sequence http://purl.obolibrary.org/obo/SO_0001082 SO:0001082 http://purl.obolibrary.org/obo/SO_0001082 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001082 Range. http://purl.obolibrary.org/obo/SO_0001082 polypeptide_sequencing_information EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001083 Indicates that two consecutive residues in a fragment sequence are not consecutive in the full-length protein and that there are a number of unsequenced residues between them. http://purl.obolibrary.org/obo/SO_0001083 BS:00182 http://purl.obolibrary.org/obo/SO_0001083 non consecutive uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001083 non_cons http://purl.obolibrary.org/obo/SO_0001083 sequence http://purl.obolibrary.org/obo/SO_0001083 SO:0001083 http://purl.obolibrary.org/obo/SO_0001083 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001083 non_adjacent_residues EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001084 The residue at an extremity of the sequence is not the terminal residue. http://purl.obolibrary.org/obo/SO_0001084 BS:00072 http://purl.obolibrary.org/obo/SO_0001084 non terminal uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001084 non_ter http://purl.obolibrary.org/obo/SO_0001084 sequence http://purl.obolibrary.org/obo/SO_0001084 SO:0001084 http://purl.obolibrary.org/obo/SO_0001084 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001084 Discrete. http://purl.obolibrary.org/obo/SO_0001084 non_terminal_residue EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001085 Different sources report differing sequences. http://purl.obolibrary.org/obo/SO_0001085 BS:00069 uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001085 conflict http://purl.obolibrary.org/obo/SO_0001085 sequence http://purl.obolibrary.org/obo/SO_0001085 SO:0001085 http://purl.obolibrary.org/obo/SO_0001085 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001085 Discrete. http://purl.obolibrary.org/obo/SO_0001085 sequence_conflict EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001086 Describes the positions in a sequence where the authors are unsure about the sequence assignment. http://purl.obolibrary.org/obo/SO_0001086 BS:00181 uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001086 unsure http://purl.obolibrary.org/obo/SO_0001086 sequence http://purl.obolibrary.org/obo/SO_0001086 SO:0001086 http://purl.obolibrary.org/obo/SO_0001086 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001086 sequence_uncertainty EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001087 Posttranslationally formed amino acid bonds. http://purl.obolibrary.org/obo/SO_0001087 BS:00178 http://purl.obolibrary.org/obo/SO_0001087 cross link http://purl.obolibrary.org/obo/SO_0001087 sequence http://purl.obolibrary.org/obo/SO_0001087 crosslink http://purl.obolibrary.org/obo/SO_0001087 SO:0001087 http://purl.obolibrary.org/obo/SO_0001087 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001087 cross_link http://purl.obolibrary.org/obo/SO_0001087 true EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001088 The covalent bond between sulfur atoms that binds two peptide chains or different parts of one peptide chain and is a structural determinant in many protein molecules. http://purl.obolibrary.org/obo/SO_0001088 BS:00028 http://purl.obolibrary.org/obo/SO_0001088 disulphide http://purl.obolibrary.org/obo/SO_0001088 sequence http://purl.obolibrary.org/obo/SO_0001088 disulfid http://purl.obolibrary.org/obo/SO_0001088 disulfide http://purl.obolibrary.org/obo/SO_0001088 disulfide bond http://purl.obolibrary.org/obo/SO_0001088 disulphide bond http://purl.obolibrary.org/obo/SO_0001088 SO:0001088 http://purl.obolibrary.org/obo/SO_0001088 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001088 2 discreet & joined. http://purl.obolibrary.org/obo/SO_0001088 disulfide_bond http://purl.obolibrary.org/obo/SO_0001088 true EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001089 A region where a transformation occurs in a protein after it has been synthesized. This which may regulate, stabilize, crosslink or introduce new chemical functionalities in the protein. http://purl.obolibrary.org/obo/SO_0001089 BS:00052 wiki http://purl.obolibrary.org/obo/SO_0001089 http://en.wikipedia.org/wiki/Post_translational_modification uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001089 mod_res http://purl.obolibrary.org/obo/SO_0001089 modified residue http://purl.obolibrary.org/obo/SO_0001089 post_translational_modification http://purl.obolibrary.org/obo/SO_0001089 sequence http://purl.obolibrary.org/obo/SO_0001089 SO:0001089 http://purl.obolibrary.org/obo/SO_0001089 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001089 Discrete. http://purl.obolibrary.org/obo/SO_0001089 post_translationally_modified_region EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001090 Binding involving a covalent bond. http://purl.obolibrary.org/obo/SO_0001090 BS:00246 http://purl.obolibrary.org/obo/SO_0001090 covalent binding site http://purl.obolibrary.org/obo/SO_0001090 sequence http://purl.obolibrary.org/obo/SO_0001090 SO:0001090 http://purl.obolibrary.org/obo/SO_0001090 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001090 covalent_binding_site http://purl.obolibrary.org/obo/SO_0001090 true EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001091 Binding site for any chemical group (co-enzyme, prosthetic group, etc.). http://purl.obolibrary.org/obo/SO_0001091 BS:00029 http://purl.obolibrary.org/obo/SO_0001091 non covalent binding site http://purl.obolibrary.org/obo/SO_0001091 sequence uniprot:curation http://purl.obolibrary.org/obo/SO_0001091 binding http://purl.obolibrary.org/obo/SO_0001091 binding site http://purl.obolibrary.org/obo/SO_0001091 SO:0001091 http://purl.obolibrary.org/obo/SO_0001091 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001091 Discrete. http://purl.obolibrary.org/obo/SO_0001091 non_covalent_binding_site http://purl.obolibrary.org/obo/SO_0001091 true EBIBS:GAR SO:cb UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001092 A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with metal ions. http://purl.obolibrary.org/obo/SO_0001092 BS:00027 http://purl.obolibrary.org/obo/SO_0001092 sequence http://purl.obolibrary.org/obo/SO_0001092 metal_binding http://purl.obolibrary.org/obo/SO_0001092 SO:0001092 http://purl.obolibrary.org/obo/SO_0001092 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001092 Residue is part of a binding site for a metal ion. http://purl.obolibrary.org/obo/SO_0001092 polypeptide_metal_contact EBIBS:GAR UniProt:Curation_manual http://purl.obolibrary.org/obo/SO_0001093 A binding site that, in the protein molecule, interacts selectively and non-covalently with polypeptide residues. http://purl.obolibrary.org/obo/SO_0001093 BS:00131 wiki http://purl.obolibrary.org/obo/SO_0001093 http://en.wikipedia.org/wiki/Protein_protein_interaction http://purl.obolibrary.org/obo/SO_0001093 protein protein contact http://purl.obolibrary.org/obo/SO_0001093 protein protein contact site http://purl.obolibrary.org/obo/SO_0001093 sequence http://purl.obolibrary.org/obo/SO_0001093 protein_protein_interaction http://purl.obolibrary.org/obo/SO_0001093 SO:0001093 http://purl.obolibrary.org/obo/SO_0001093 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001093 protein_protein_contact EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001094 A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with calcium ions. http://purl.obolibrary.org/obo/SO_0001094 BS:00186 http://purl.obolibrary.org/obo/SO_0001094 Ca_contact_site uniprot:feature_type http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001094 ca_bind http://purl.obolibrary.org/obo/SO_0001094 polypeptide calcium ion contact site http://purl.obolibrary.org/obo/SO_0001094 sequence http://purl.obolibrary.org/obo/SO_0001094 ca bind http://purl.obolibrary.org/obo/SO_0001094 SO:0001094 http://purl.obolibrary.org/obo/SO_0001094 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001094 Residue involved in contact with calcium. http://purl.obolibrary.org/obo/SO_0001094 polypeptide_calcium_ion_contact_site EBIBS:GAR SO:cb http://purl.obolibrary.org/obo/SO_0001095 A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with cobalt ions. http://purl.obolibrary.org/obo/SO_0001095 BS:00136 http://purl.obolibrary.org/obo/SO_0001095 Co_contact_site http://purl.obolibrary.org/obo/SO_0001095 polypeptide cobalt ion contact site http://purl.obolibrary.org/obo/SO_0001095 sequence http://purl.obolibrary.org/obo/SO_0001095 SO:0001095 http://purl.obolibrary.org/obo/SO_0001095 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001095 polypeptide_cobalt_ion_contact_site EBIBS:GAR SO:cb http://purl.obolibrary.org/obo/SO_0001096 A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with copper ions. http://purl.obolibrary.org/obo/SO_0001096 BS:00146 http://purl.obolibrary.org/obo/SO_0001096 Cu_contact_site http://purl.obolibrary.org/obo/SO_0001096 polypeptide copper ion contact site http://purl.obolibrary.org/obo/SO_0001096 sequence http://purl.obolibrary.org/obo/SO_0001096 SO:0001096 http://purl.obolibrary.org/obo/SO_0001096 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001096 polypeptide_copper_ion_contact_site EBIBS:GAR SO:cb http://purl.obolibrary.org/obo/SO_0001097 A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with iron ions. http://purl.obolibrary.org/obo/SO_0001097 BS:00137 http://purl.obolibrary.org/obo/SO_0001097 Fe_contact_site http://purl.obolibrary.org/obo/SO_0001097 polypeptide iron ion contact site http://purl.obolibrary.org/obo/SO_0001097 sequence http://purl.obolibrary.org/obo/SO_0001097 SO:0001097 http://purl.obolibrary.org/obo/SO_0001097 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001097 polypeptide_iron_ion_contact_site EBIBS:GAR SO:cb http://purl.obolibrary.org/obo/SO_0001098 A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with magnesium ions. http://purl.obolibrary.org/obo/SO_0001098 BS:00187 http://purl.obolibrary.org/obo/SO_0001098 Mg_contact_site http://purl.obolibrary.org/obo/SO_0001098 polypeptide magnesium ion contact site http://purl.obolibrary.org/obo/SO_0001098 sequence http://purl.obolibrary.org/obo/SO_0001098 SO:0001098 http://purl.obolibrary.org/obo/SO_0001098 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001098 polypeptide_magnesium_ion_contact_site EBIBS:GAR SO:cb http://purl.obolibrary.org/obo/SO_0001099 A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with manganese ions. http://purl.obolibrary.org/obo/SO_0001099 BS:00140 http://purl.obolibrary.org/obo/SO_0001099 Mn_contact_site http://purl.obolibrary.org/obo/SO_0001099 polypeptide manganese ion contact site http://purl.obolibrary.org/obo/SO_0001099 sequence http://purl.obolibrary.org/obo/SO_0001099 SO:0001099 http://purl.obolibrary.org/obo/SO_0001099 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001099 polypeptide_manganese_ion_contact_site EBIBS:GAR SO:cb http://purl.obolibrary.org/obo/SO_0001100 A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with molybdenum ions. http://purl.obolibrary.org/obo/SO_0001100 BS:00141 http://purl.obolibrary.org/obo/SO_0001100 Mo_contact_site http://purl.obolibrary.org/obo/SO_0001100 polypeptide molybdenum ion contact site http://purl.obolibrary.org/obo/SO_0001100 sequence http://purl.obolibrary.org/obo/SO_0001100 SO:0001100 http://purl.obolibrary.org/obo/SO_0001100 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001100 polypeptide_molybdenum_ion_contact_site EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001101 A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with nickel ions. http://purl.obolibrary.org/obo/SO_0001101 BS:00142 http://purl.obolibrary.org/obo/SO_0001101 Ni_contact_site http://purl.obolibrary.org/obo/SO_0001101 polypeptide nickel ion contact site http://purl.obolibrary.org/obo/SO_0001101 sequence http://purl.obolibrary.org/obo/SO_0001101 SO:0001101 http://purl.obolibrary.org/obo/SO_0001101 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001101 polypeptide_nickel_ion_contact_site EBIBS:GAR SO:cb http://purl.obolibrary.org/obo/SO_0001102 A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with tungsten ions. http://purl.obolibrary.org/obo/SO_0001102 BS:00143 http://purl.obolibrary.org/obo/SO_0001102 W_contact_site http://purl.obolibrary.org/obo/SO_0001102 polypeptide tungsten ion contact site http://purl.obolibrary.org/obo/SO_0001102 sequence http://purl.obolibrary.org/obo/SO_0001102 SO:0001102 http://purl.obolibrary.org/obo/SO_0001102 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001102 polypeptide_tungsten_ion_contact_site EBIBS:GAR SO:cb http://purl.obolibrary.org/obo/SO_0001103 A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with zinc ions. http://purl.obolibrary.org/obo/SO_0001103 BS:00185 http://purl.obolibrary.org/obo/SO_0001103 Zn_contact_site http://purl.obolibrary.org/obo/SO_0001103 polypeptide zinc ion contact site http://purl.obolibrary.org/obo/SO_0001103 sequence http://purl.obolibrary.org/obo/SO_0001103 SO:0001103 http://purl.obolibrary.org/obo/SO_0001103 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001103 polypeptide_zinc_ion_contact_site EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001104 Amino acid involved in the activity of an enzyme. http://purl.obolibrary.org/obo/SO_0001104 BS:00026 http://purl.obolibrary.org/obo/SO_0001104 active site residue http://purl.obolibrary.org/obo/SO_0001104 catalytic residue http://purl.obolibrary.org/obo/SO_0001104 sequence uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001104 act_site http://purl.obolibrary.org/obo/SO_0001104 SO:0001104 http://purl.obolibrary.org/obo/SO_0001104 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001104 Discrete. http://purl.obolibrary.org/obo/SO_0001104 catalytic_residue EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001105 Residues which interact with a ligand. http://purl.obolibrary.org/obo/SO_0001105 BS:00157 http://purl.obolibrary.org/obo/SO_0001105 polypeptide ligand contact http://purl.obolibrary.org/obo/SO_0001105 sequence http://purl.obolibrary.org/obo/SO_0001105 protein-ligand interaction http://purl.obolibrary.org/obo/SO_0001105 SO:0001105 http://purl.obolibrary.org/obo/SO_0001105 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001105 polypeptide_ligand_contact EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001106 A motif of five consecutive residues and two H-bonds in which: Residue(i) is Aspartate or Asparagine (Asx), side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2) or (i+3), main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+3) or (i+4). http://purl.obolibrary.org/obo/SO_0001106 BS:00202 http://purl.obolibrary.org/obo/SO_0001106 asx motif http://purl.obolibrary.org/obo/SO_0001106 sequence http://purl.obolibrary.org/obo/SO_0001106 SO:0001106 http://purl.obolibrary.org/obo/SO_0001106 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001106 asx_motif EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001107 A motif of three residues within a beta-sheet in which the main chains of two consecutive residues are H-bonded to that of the third, and in which the dihedral angles are as follows: Residue(i): -140 degrees < phi(l) -20 degrees , -90 degrees < psi(l) < 40 degrees. Residue (i+1): -180 degrees < phi < -25 degrees or +120 degrees < phi < +180 degrees, +40 degrees < psi < +180 degrees or -180 degrees < psi < -120 degrees. http://purl.obolibrary.org/obo/SO_0001107 BS:00208 wiki http://purl.obolibrary.org/obo/SO_0001107 http://en.wikipedia.org/wiki/Beta_bulge http://purl.obolibrary.org/obo/SO_0001107 beta bulge http://purl.obolibrary.org/obo/SO_0001107 sequence http://purl.obolibrary.org/obo/SO_0001107 SO:0001107 http://purl.obolibrary.org/obo/SO_0001107 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001107 beta_bulge EBIBS:GAR Http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001108 A motif of three residues within a beta-sheet consisting of two H-bonds. Beta bulge loops often occur at the loop ends of beta-hairpins. http://purl.obolibrary.org/obo/SO_0001108 BS:00209 http://purl.obolibrary.org/obo/SO_0001108 beta bulge loop http://purl.obolibrary.org/obo/SO_0001108 sequence http://purl.obolibrary.org/obo/SO_0001108 SO:0001108 http://purl.obolibrary.org/obo/SO_0001108 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001108 beta_bulge_loop EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001109 A motif of three residues within a beta-sheet consisting of two H-bonds in which: the main-chain NH of residue(i) is H-bonded to the main-chain CO of residue(i+4), the main-chain CO of residue i is H-bonded to the main-chain NH of residue(i+3), these loops have an RL nest at residues i+2 and i+3. http://purl.obolibrary.org/obo/SO_0001109 BS:00210 http://purl.obolibrary.org/obo/SO_0001109 beta bulge loop five http://purl.obolibrary.org/obo/SO_0001109 sequence http://purl.obolibrary.org/obo/SO_0001109 SO:0001109 http://purl.obolibrary.org/obo/SO_0001109 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001109 beta_bulge_loop_five EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001110 A motif of three residues within a beta-sheet consisting of two H-bonds in which: the main-chain NH of residue(i) is H-bonded to the main-chain CO of residue(i+5), the main-chain CO of residue i is H-bonded to the main-chain NH of residue(i+4), these loops have an RL nest at residues i+3 and i+4. http://purl.obolibrary.org/obo/SO_0001110 BS:00211 http://purl.obolibrary.org/obo/SO_0001110 beta bulge loop six http://purl.obolibrary.org/obo/SO_0001110 sequence http://purl.obolibrary.org/obo/SO_0001110 SO:0001110 http://purl.obolibrary.org/obo/SO_0001110 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001110 beta_bulge_loop_six EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001111 A beta strand describes a single length of polypeptide chain that forms part of a beta sheet. A single continuous stretch of amino acids adopting an extended conformation of hydrogen bonds between the N-O and the C=O of another part of the peptide. This forms a secondary protein structure in which two or more extended polypeptide regions are hydrogen-bonded to one another in a planar array. http://purl.obolibrary.org/obo/SO_0001111 BS:00042 wiki http://purl.obolibrary.org/obo/SO_0001111 http://en.wikipedia.org/wiki/Beta_sheet http://purl.obolibrary.org/obo/SO_0001111 sequence uniprot:feature_type http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001111 strand http://purl.obolibrary.org/obo/SO_0001111 SO:0001111 http://purl.obolibrary.org/obo/SO_0001111 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001111 Range. http://purl.obolibrary.org/obo/SO_0001111 beta_strand EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001112 A peptide region which hydrogen bonded to another region of peptide running in the oposite direction (one running N-terminal to C-terminal and one running C-terminal to N-terminal). Hydrogen bonding occurs between every other C=O from one strand to every other N-H on the adjacent strand. In this case, if two atoms C-alpha (i) and C-alpha (j) are adjacent in two hydrogen-bonded beta strands, then they form two mutual backbone hydrogen bonds to each other's flanking peptide groups; this is known as a close pair of hydrogen bonds. The peptide backbone dihedral angles (phi, psi) are about (-140 degrees, 135 degrees) in antiparallel sheets. http://purl.obolibrary.org/obo/SO_0001112 BS:0000341 http://purl.obolibrary.org/obo/SO_0001112 antiparallel beta strand http://purl.obolibrary.org/obo/SO_0001112 sequence http://purl.obolibrary.org/obo/SO_0001112 SO:0001112 http://purl.obolibrary.org/obo/SO_0001112 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001112 Range. http://purl.obolibrary.org/obo/SO_0001112 antiparallel_beta_strand EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001113 A peptide region which hydrogen bonded to another region of peptide running in the oposite direction (both running N-terminal to C-terminal). This orientation is slightly less stable because it introduces nonplanarity in the inter-strand hydrogen bonding pattern. Hydrogen bonding occurs between every other C=O from one strand to every other N-H on the adjacent strand. In this case, if two atoms C-alpha (i)and C-alpha (j) are adjacent in two hydrogen-bonded beta strands, then they do not hydrogen bond to each other; rather, one residue forms hydrogen bonds to the residues that flank the other (but not vice versa). For example, residue i may form hydrogen bonds to residues j - 1 and j + 1; this is known as a wide pair of hydrogen bonds. By contrast, residue j may hydrogen-bond to different residues altogether, or to none at all. The dihedral angles (phi, psi) are about (-120 degrees, 115 degrees) in parallel sheets. http://purl.obolibrary.org/obo/SO_0001113 BS:00151 http://purl.obolibrary.org/obo/SO_0001113 parallel beta strand http://purl.obolibrary.org/obo/SO_0001113 sequence http://purl.obolibrary.org/obo/SO_0001113 SO:0001113 http://purl.obolibrary.org/obo/SO_0001113 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001113 Range. http://purl.obolibrary.org/obo/SO_0001113 parallel_beta_strand EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001114 A helix is a secondary_structure conformation where the peptide backbone forms a coil. http://purl.obolibrary.org/obo/SO_0001114 BS:00152 http://purl.obolibrary.org/obo/SO_0001114 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001114 helix http://purl.obolibrary.org/obo/SO_0001114 SO:0001114 http://purl.obolibrary.org/obo/SO_0001114 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001114 Range. http://purl.obolibrary.org/obo/SO_0001114 peptide_helix EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001115 A left handed helix is a region of peptide where the coiled conformation turns in an anticlockwise, left handed screw. http://purl.obolibrary.org/obo/SO_0001115 BS:00222 http://purl.obolibrary.org/obo/SO_0001115 left handed helix http://purl.obolibrary.org/obo/SO_0001115 sequence http://purl.obolibrary.org/obo/SO_0001115 helix-l http://purl.obolibrary.org/obo/SO_0001115 SO:0001115 http://purl.obolibrary.org/obo/SO_0001115 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001115 left_handed_peptide_helix EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001116 A right handed helix is a region of peptide where the coiled conformation turns in a clockwise, right handed screw. http://purl.obolibrary.org/obo/SO_0001116 BS:0000339 http://purl.obolibrary.org/obo/SO_0001116 right handed helix http://purl.obolibrary.org/obo/SO_0001116 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001116 helix http://purl.obolibrary.org/obo/SO_0001116 SO:0001116 http://purl.obolibrary.org/obo/SO_0001116 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001116 right_handed_peptide_helix EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001117 The helix has 3.6 residues per turn which corresponds to a translation of 1.5 angstroms (= 0.15 nm) along the helical axis. Every backbone N-H group donates a hydrogen bond to the backbone C=O group of the amino acid four residues earlier. http://purl.obolibrary.org/obo/SO_0001117 BS:00040 wiki http://purl.obolibrary.org/obo/SO_0001117 http://en.wikipedia.org/wiki/Alpha_helix http://purl.obolibrary.org/obo/SO_0001117 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001117 a-helix uniprot:feature_type http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001117 helix http://purl.obolibrary.org/obo/SO_0001117 SO:0001117 http://purl.obolibrary.org/obo/SO_0001117 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001117 Range. http://purl.obolibrary.org/obo/SO_0001117 alpha_helix EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001118 The pi helix has 4.1 residues per turn and a translation of 1.15 (=0.115 nm) along the helical axis. The N-H group of an amino acid forms a hydrogen bond with the C=O group of the amino acid five residues earlier. http://purl.obolibrary.org/obo/SO_0001118 BS:00153 wiki http://purl.obolibrary.org/obo/SO_0001118 http://en.wikipedia.org/wiki/Pi_helix http://purl.obolibrary.org/obo/SO_0001118 pi helix http://purl.obolibrary.org/obo/SO_0001118 sequence http://purl.obolibrary.org/obo/SO_0001118 SO:0001118 http://purl.obolibrary.org/obo/SO_0001118 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001118 Range. http://purl.obolibrary.org/obo/SO_0001118 pi_helix EBIBS:GAR http://purl.obolibrary.org/obo/SO_0001119 The 3-10 helix has 3 residues per turn with a translation of 2.0 angstroms (=0.2 nm) along the helical axis. The N-H group of an amino acid forms a hydrogen bond with the C=O group of the amino acid three residues earlier. http://purl.obolibrary.org/obo/SO_0001119 BS:0000340 wiki http://purl.obolibrary.org/obo/SO_0001119 http://en.wikipedia.org/wiki/310_helix http://purl.obolibrary.org/obo/SO_0001119 3(10) helix http://purl.obolibrary.org/obo/SO_0001119 3-10 helix http://purl.obolibrary.org/obo/SO_0001119 310 helix http://purl.obolibrary.org/obo/SO_0001119 three ten helix http://purl.obolibrary.org/obo/SO_0001119 sequence http://purl.obolibrary.org/obo/SO_0001119 SO:0001119 http://purl.obolibrary.org/obo/SO_0001119 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001119 Range. http://purl.obolibrary.org/obo/SO_0001119 three_ten_helix EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001120 A motif of two consecutive residues with dihedral angles. Nest should not have Proline as any residue. Nests frequently occur as parts of other motifs such as Schellman loops. http://purl.obolibrary.org/obo/SO_0001120 BS:00223 http://purl.obolibrary.org/obo/SO_0001120 nest_motif http://purl.obolibrary.org/obo/SO_0001120 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001120 nest http://purl.obolibrary.org/obo/SO_0001120 polypeptide nest motif http://purl.obolibrary.org/obo/SO_0001120 SO:0001120 http://purl.obolibrary.org/obo/SO_0001120 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001120 polypeptide_nest_motif EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001121 A motif of two consecutive residues with dihedral angles: Residue(i): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees. Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. http://purl.obolibrary.org/obo/SO_0001121 BS:00224 http://purl.obolibrary.org/obo/SO_0001121 nest_left_right http://purl.obolibrary.org/obo/SO_0001121 nest_lr http://purl.obolibrary.org/obo/SO_0001121 polypeptide nest left right motif http://purl.obolibrary.org/obo/SO_0001121 sequence http://purl.obolibrary.org/obo/SO_0001121 SO:0001121 http://purl.obolibrary.org/obo/SO_0001121 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001121 polypeptide_nest_left_right_motif EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001122 A motif of two consecutive residues with dihedral angles: Residue(i): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. Residue(i+1): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees. http://purl.obolibrary.org/obo/SO_0001122 BS:00225 http://purl.obolibrary.org/obo/SO_0001122 nest_right_left http://purl.obolibrary.org/obo/SO_0001122 nest_rl http://purl.obolibrary.org/obo/SO_0001122 polypeptide nest right left motif http://purl.obolibrary.org/obo/SO_0001122 sequence http://purl.obolibrary.org/obo/SO_0001122 SO:0001122 http://purl.obolibrary.org/obo/SO_0001122 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001122 polypeptide_nest_right_left_motif EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001123 A motif of six or seven consecutive residues that contains two H-bonds. http://purl.obolibrary.org/obo/SO_0001123 BS:00226 http://purl.obolibrary.org/obo/SO_0001123 schellmann loop http://purl.obolibrary.org/obo/SO_0001123 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001123 paperclip http://purl.obolibrary.org/obo/SO_0001123 paperclip loop http://purl.obolibrary.org/obo/SO_0001123 SO:0001123 http://purl.obolibrary.org/obo/SO_0001123 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001123 schellmann_loop EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001124 Wild type: A motif of seven consecutive residues that contains two H-bonds in which: the main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+6), the main-chain CO of residue(i+1) is H-bonded to the main-chain NH of residue(i+5). http://purl.obolibrary.org/obo/SO_0001124 BS:00228 http://purl.obolibrary.org/obo/SO_0001124 schellmann loop seven http://purl.obolibrary.org/obo/SO_0001124 seven-residue schellmann loop http://purl.obolibrary.org/obo/SO_0001124 sequence http://purl.obolibrary.org/obo/SO_0001124 SO:0001124 http://purl.obolibrary.org/obo/SO_0001124 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001124 schellmann_loop_seven EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001125 Common Type: A motif of six consecutive residues that contains two H-bonds in which: the main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+5) the main-chain CO of residue(i+1) is H-bonded to the main-chain NH of residue(i+4). http://purl.obolibrary.org/obo/SO_0001125 BS:00227 http://purl.obolibrary.org/obo/SO_0001125 schellmann loop six http://purl.obolibrary.org/obo/SO_0001125 six-residue schellmann loop http://purl.obolibrary.org/obo/SO_0001125 sequence http://purl.obolibrary.org/obo/SO_0001125 SO:0001125 http://purl.obolibrary.org/obo/SO_0001125 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001125 schellmann_loop_six EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001126 A motif of five consecutive residues and two hydrogen bonds in which: residue(i) is Serine (S) or Threonine (T), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2) or (i+3) , the main-chain CO group of residue(i) is H-bonded to the main-chain NH of residue(i+3) or (i+4). http://purl.obolibrary.org/obo/SO_0001126 BS:00229 http://purl.obolibrary.org/obo/SO_0001126 serine/threonine motif http://purl.obolibrary.org/obo/SO_0001126 st motif http://purl.obolibrary.org/obo/SO_0001126 st_motif http://purl.obolibrary.org/obo/SO_0001126 sequence http://purl.obolibrary.org/obo/SO_0001126 SO:0001126 http://purl.obolibrary.org/obo/SO_0001126 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001126 serine_threonine_motif EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001127 A motif of four or five consecutive residues and one H-bond in which: residue(i) is Serine (S) or Threonine (T), the side-chain OH of residue(i) is H-bonded to the main-chain CO of residue(i3) or (i4), Phi angles of residues(i1), (i2) and (i3) are negative. http://purl.obolibrary.org/obo/SO_0001127 BS:00230 http://purl.obolibrary.org/obo/SO_0001127 serine threonine staple motif http://purl.obolibrary.org/obo/SO_0001127 st_staple http://purl.obolibrary.org/obo/SO_0001127 sequence http://purl.obolibrary.org/obo/SO_0001127 SO:0001127 http://purl.obolibrary.org/obo/SO_0001127 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001127 serine_threonine_staple_motif EBIBS:GAR uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001128 A reversal in the direction of the backbone of a protein that is stabilized by hydrogen bond between backbone NH and CO groups, involving no more than 4 amino acid residues. http://purl.obolibrary.org/obo/SO_0001128 BS:00148 http://purl.obolibrary.org/obo/SO_0001128 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001128 turn http://purl.obolibrary.org/obo/SO_0001128 SO:0001128 http://purl.obolibrary.org/obo/SO_0001128 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001128 Range. http://purl.obolibrary.org/obo/SO_0001128 polypeptide_turn_motif EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001129 Left handed type I (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, -90 degrees < psi +120 degrees < +40 degrees. Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. http://purl.obolibrary.org/obo/SO_0001129 BS:00206 http://purl.obolibrary.org/obo/SO_0001129 asx turn left handed type one http://purl.obolibrary.org/obo/SO_0001129 sequence http://purl.obolibrary.org/obo/SO_0001129 asx_turn_il http://purl.obolibrary.org/obo/SO_0001129 SO:0001129 http://purl.obolibrary.org/obo/SO_0001129 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001129 asx_turn_left_handed_type_one EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001130 Left handed type II (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, +80 degrees < psi +120 degrees < +180 degrees. Residue(i+1): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees. http://purl.obolibrary.org/obo/SO_0001130 BS:00204 http://purl.obolibrary.org/obo/SO_0001130 asx turn left handed type two http://purl.obolibrary.org/obo/SO_0001130 asx_turn_iil http://purl.obolibrary.org/obo/SO_0001130 sequence http://purl.obolibrary.org/obo/SO_0001130 SO:0001130 http://purl.obolibrary.org/obo/SO_0001130 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001130 asx_turn_left_handed_type_two EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001131 Right handed type II (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, +80 degrees < psi +120 degrees < +180 degrees. Residue(i+1): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees. http://purl.obolibrary.org/obo/SO_0001131 BS:00205 http://purl.obolibrary.org/obo/SO_0001131 asx turn right handed type two http://purl.obolibrary.org/obo/SO_0001131 asx_turn_iir http://purl.obolibrary.org/obo/SO_0001131 sequence http://purl.obolibrary.org/obo/SO_0001131 SO:0001131 http://purl.obolibrary.org/obo/SO_0001131 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001131 asx_turn_right_handed_type_two EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001132 Right handed type I (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, -90 degrees < psi +120 degrees < +40 degrees. Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. http://purl.obolibrary.org/obo/SO_0001132 BS:00207 http://purl.obolibrary.org/obo/SO_0001132 asx turn type right handed type one http://purl.obolibrary.org/obo/SO_0001132 asx_turn_ir http://purl.obolibrary.org/obo/SO_0001132 sequence http://purl.obolibrary.org/obo/SO_0001132 SO:0001132 http://purl.obolibrary.org/obo/SO_0001132 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001132 asx_turn_right_handed_type_one EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001133 A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles of the second and third residues, which are the basis for sub-categorization. http://purl.obolibrary.org/obo/SO_0001133 BS:00212 http://purl.obolibrary.org/obo/SO_0001133 beta turn http://purl.obolibrary.org/obo/SO_0001133 sequence http://purl.obolibrary.org/obo/SO_0001133 SO:0001133 http://purl.obolibrary.org/obo/SO_0001133 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001133 beta_turn EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001134 Left handed type I:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles:- Residue(i+1): -140 degrees > phi > -20 degrees, -90 degrees > psi > +40 degrees. Residue(i+2): -140 degrees > phi > -20 degrees, -90 degrees > psi > +40 degrees. http://purl.obolibrary.org/obo/SO_0001134 BS:00215 http://purl.obolibrary.org/obo/SO_0001134 beta turn left handed type one http://purl.obolibrary.org/obo/SO_0001134 beta_turn_il http://purl.obolibrary.org/obo/SO_0001134 type I' beta turn http://purl.obolibrary.org/obo/SO_0001134 type I' turn http://purl.obolibrary.org/obo/SO_0001134 sequence http://purl.obolibrary.org/obo/SO_0001134 SO:0001134 http://purl.obolibrary.org/obo/SO_0001134 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001134 beta_turn_left_handed_type_one EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001135 Left handed type II: A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles: Residue(i+1): -140 degrees > phi > -20 degrees, +80 degrees > psi > +180 degrees. Residue(i+2): +20 degrees > phi > +140 degrees, -40 degrees > psi > +90 degrees. http://purl.obolibrary.org/obo/SO_0001135 BS:00213 http://purl.obolibrary.org/obo/SO_0001135 beta turn left handed type two http://purl.obolibrary.org/obo/SO_0001135 beta_turn_iil http://purl.obolibrary.org/obo/SO_0001135 type II' beta turn http://purl.obolibrary.org/obo/SO_0001135 type II' turn http://purl.obolibrary.org/obo/SO_0001135 sequence http://purl.obolibrary.org/obo/SO_0001135 SO:0001135 http://purl.obolibrary.org/obo/SO_0001135 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001135 beta_turn_left_handed_type_two EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001136 Right handed type I:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles: Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. Residue(i+2): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. http://purl.obolibrary.org/obo/SO_0001136 BS:00216 http://purl.obolibrary.org/obo/SO_0001136 beta turn right handed type one http://purl.obolibrary.org/obo/SO_0001136 beta_turn_ir http://purl.obolibrary.org/obo/SO_0001136 type I beta turn http://purl.obolibrary.org/obo/SO_0001136 type I turn http://purl.obolibrary.org/obo/SO_0001136 sequence http://purl.obolibrary.org/obo/SO_0001136 SO:0001136 http://purl.obolibrary.org/obo/SO_0001136 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001136 beta_turn_right_handed_type_one EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001137 Right handed type II:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles: Residue(i+1): -140 degrees < phi < -20 degrees, +80 degrees < psi < +180 degrees. Residue(i+2): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees. http://purl.obolibrary.org/obo/SO_0001137 BS:00214 http://purl.obolibrary.org/obo/SO_0001137 beta turn right handed type two http://purl.obolibrary.org/obo/SO_0001137 beta_turn_iir http://purl.obolibrary.org/obo/SO_0001137 type II beta turn http://purl.obolibrary.org/obo/SO_0001137 type II turn http://purl.obolibrary.org/obo/SO_0001137 sequence http://purl.obolibrary.org/obo/SO_0001137 SO:0001137 http://purl.obolibrary.org/obo/SO_0001137 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001137 beta_turn_right_handed_type_two EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001138 Gamma turns, defined for 3 residues i,( i+1),( i+2) if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees. http://purl.obolibrary.org/obo/SO_0001138 BS:00219 http://purl.obolibrary.org/obo/SO_0001138 gamma turn http://purl.obolibrary.org/obo/SO_0001138 sequence http://purl.obolibrary.org/obo/SO_0001138 SO:0001138 http://purl.obolibrary.org/obo/SO_0001138 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001138 gamma_turn EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001139 Gamma turns, defined for 3 residues i, i+1, i+2 if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees: phi(i+1)=75.0 - psi(i+1)=-64.0. http://purl.obolibrary.org/obo/SO_0001139 BS:00220 http://purl.obolibrary.org/obo/SO_0001139 classic gamma turn http://purl.obolibrary.org/obo/SO_0001139 gamma turn classic http://purl.obolibrary.org/obo/SO_0001139 sequence http://purl.obolibrary.org/obo/SO_0001139 SO:0001139 http://purl.obolibrary.org/obo/SO_0001139 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001139 gamma_turn_classic EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001140 Gamma turns, defined for 3 residues i, i+1, i+2 if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees: phi(i+1)=-79.0 - psi(i+1)=69.0. http://purl.obolibrary.org/obo/SO_0001140 BS:00221 http://purl.obolibrary.org/obo/SO_0001140 gamma turn inverse http://purl.obolibrary.org/obo/SO_0001140 sequence http://purl.obolibrary.org/obo/SO_0001140 SO:0001140 http://purl.obolibrary.org/obo/SO_0001140 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001140 gamma_turn_inverse EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001141 A motif of three consecutive residues and one H-bond in which: residue(i) is Serine (S) or Threonine (T), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2). http://purl.obolibrary.org/obo/SO_0001141 BS:00231 http://purl.obolibrary.org/obo/SO_0001141 serine/threonine turn http://purl.obolibrary.org/obo/SO_0001141 st_turn http://purl.obolibrary.org/obo/SO_0001141 sequence http://purl.obolibrary.org/obo/SO_0001141 SO:0001141 http://purl.obolibrary.org/obo/SO_0001141 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001141 serine_threonine_turn EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001142 The peptide twists in an anticlockwise, left handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, -90 degrees psi +120 degrees < +40 degrees, residue(i+1): -140 degrees < phi < -20 degrees, -90 < psi < +40 degrees. http://purl.obolibrary.org/obo/SO_0001142 BS:00234 http://purl.obolibrary.org/obo/SO_0001142 st turn left handed type one http://purl.obolibrary.org/obo/SO_0001142 st_turn_il http://purl.obolibrary.org/obo/SO_0001142 sequence http://purl.obolibrary.org/obo/SO_0001142 SO:0001142 http://purl.obolibrary.org/obo/SO_0001142 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001142 st_turn_left_handed_type_one EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001143 The peptide twists in an anticlockwise, left handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, +80 degrees psi +120 degrees < +180 degrees, residue(i+1): +20 degrees < phi < +140 degrees, -40 < psi < +90 degrees. http://purl.obolibrary.org/obo/SO_0001143 BS:00232 http://purl.obolibrary.org/obo/SO_0001143 st turn left handed type two http://purl.obolibrary.org/obo/SO_0001143 st_turn_iil http://purl.obolibrary.org/obo/SO_0001143 sequence http://purl.obolibrary.org/obo/SO_0001143 SO:0001143 http://purl.obolibrary.org/obo/SO_0001143 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001143 st_turn_left_handed_type_two EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001144 The peptide twists in an clockwise, right handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, -90 degrees psi +120 degrees < +40 degrees, residue(i+1): -140 degrees < phi < -20 degrees, -90 < psi < +40 degrees. http://purl.obolibrary.org/obo/SO_0001144 BS:00235 http://purl.obolibrary.org/obo/SO_0001144 st turn right handed type one http://purl.obolibrary.org/obo/SO_0001144 st_turn_ir http://purl.obolibrary.org/obo/SO_0001144 sequence http://purl.obolibrary.org/obo/SO_0001144 SO:0001144 http://purl.obolibrary.org/obo/SO_0001144 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001144 st_turn_right_handed_type_one EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0001145 The peptide twists in an clockwise, right handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, +80 degrees psi +120 degrees < +180 degrees, residue(i+1): +20 degrees < phi < +140 degrees, -40 < psi < +90 degrees. http://purl.obolibrary.org/obo/SO_0001145 BS:00233 http://purl.obolibrary.org/obo/SO_0001145 st turn right handed type two http://purl.obolibrary.org/obo/SO_0001145 st_turn_iir http://purl.obolibrary.org/obo/SO_0001145 sequence http://purl.obolibrary.org/obo/SO_0001145 SO:0001145 http://purl.obolibrary.org/obo/SO_0001145 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001145 st_turn_right_handed_type_two EBIBS:GAR SO:ke http://purl.obolibrary.org/obo/SO_0001146 A site of sequence variation (alteration). Alternative sequence due to naturally occurring events such as polymorphisms and alternative splicing or experimental methods such as site directed mutagenesis. http://purl.obolibrary.org/obo/SO_0001146 BS:00336 http://purl.obolibrary.org/obo/SO_0001146 sequence_variations http://purl.obolibrary.org/obo/SO_0001146 sequence http://purl.obolibrary.org/obo/SO_0001146 SO:0001146 http://purl.obolibrary.org/obo/SO_0001146 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001146 For example, was a substitution natural or mutated as part of an experiment? This term is added to merge the biosapiens term sequence_variations. http://purl.obolibrary.org/obo/SO_0001146 polypeptide_variation_site EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001147 Describes the natural sequence variants due to polymorphisms, disease-associated mutations, RNA editing and variations between strains, isolates or cultivars. http://purl.obolibrary.org/obo/SO_0001147 BS:00071 http://purl.obolibrary.org/obo/SO_0001147 natural_variant http://purl.obolibrary.org/obo/SO_0001147 sequence variation uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001147 variant http://purl.obolibrary.org/obo/SO_0001147 sequence http://purl.obolibrary.org/obo/SO_0001147 SO:0001147 http://purl.obolibrary.org/obo/SO_0001147 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001147 Discrete. http://purl.obolibrary.org/obo/SO_0001147 natural_variant_site EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001148 Site which has been experimentally altered. http://purl.obolibrary.org/obo/SO_0001148 BS:00036 uniprot:feature_type http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001148 mutagen http://purl.obolibrary.org/obo/SO_0001148 mutagenesis http://purl.obolibrary.org/obo/SO_0001148 mutated_site http://purl.obolibrary.org/obo/SO_0001148 sequence http://purl.obolibrary.org/obo/SO_0001148 SO:0001148 http://purl.obolibrary.org/obo/SO_0001148 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001148 Discrete. http://purl.obolibrary.org/obo/SO_0001148 mutated_variant_site EBIBS:GAR UniProt:curation_manual http://purl.obolibrary.org/obo/SO_0001149 Description of sequence variants produced by alternative splicing, alternative promoter usage, alternative initiation and ribosomal frameshifting. http://purl.obolibrary.org/obo/SO_0001149 BS:00073 http://purl.obolibrary.org/obo/SO_0001149 SO:0001065 http://purl.obolibrary.org/obo/SO_0001149 alternative_sequence uniprot:feature_type http://purl.obolibrary.org/obo/SO_0001149 var_seq http://purl.obolibrary.org/obo/SO_0001149 isoform http://purl.obolibrary.org/obo/SO_0001149 sequence variation http://purl.obolibrary.org/obo/SO_0001149 varsplic http://purl.obolibrary.org/obo/SO_0001149 sequence http://purl.obolibrary.org/obo/SO_0001149 SO:0001149 http://purl.obolibrary.org/obo/SO_0001149 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001149 Discrete. http://purl.obolibrary.org/obo/SO_0001149 alternate_sequence_site SO:cb http://purl.obolibrary.org/obo/SO_0001150 A motif of four consecutive peptide resides of type VIa or type VIb and where the i+2 residue is cis-proline. http://purl.obolibrary.org/obo/SO_0001150 beta turn type six http://purl.obolibrary.org/obo/SO_0001150 cis-proline loop http://purl.obolibrary.org/obo/SO_0001150 type VI beta turn http://purl.obolibrary.org/obo/SO_0001150 type VI turn http://purl.obolibrary.org/obo/SO_0001150 sequence http://purl.obolibrary.org/obo/SO_0001150 SO:0001150 http://purl.obolibrary.org/obo/SO_0001150 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001150 beta_turn_type_six PMID:2371257 SO:cb http://purl.obolibrary.org/obo/SO_0001151 A motif of four consecutive peptide residues, of which the i+2 residue is proline, and that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth and is characterized by the dihedral angles: Residue(i+1): phi ~ -60 degrees, psi ~ 120 degrees. Residue(i+2): phi ~ -90 degrees, psi ~ 0 degrees. http://purl.obolibrary.org/obo/SO_0001151 beta turn type six a http://purl.obolibrary.org/obo/SO_0001151 type VIa beta turn http://purl.obolibrary.org/obo/SO_0001151 type VIa turn http://purl.obolibrary.org/obo/SO_0001151 sequence http://purl.obolibrary.org/obo/SO_0001151 SO:0001151 http://purl.obolibrary.org/obo/SO_0001151 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001151 beta_turn_type_six_a http://purl.obolibrary.org/obo/SO_0001152 beta turn type six a one http://purl.obolibrary.org/obo/SO_0001152 type VIa1 beta turn http://purl.obolibrary.org/obo/SO_0001152 type VIa1 turn http://purl.obolibrary.org/obo/SO_0001152 sequence http://purl.obolibrary.org/obo/SO_0001152 SO:0001152 http://purl.obolibrary.org/obo/SO_0001152 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001152 beta_turn_type_six_a_one http://purl.obolibrary.org/obo/SO_0001153 beta turn type six a two http://purl.obolibrary.org/obo/SO_0001153 type VIa2 beta turn http://purl.obolibrary.org/obo/SO_0001153 type VIa2 turn http://purl.obolibrary.org/obo/SO_0001153 sequence http://purl.obolibrary.org/obo/SO_0001153 SO:0001153 http://purl.obolibrary.org/obo/SO_0001153 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001153 beta_turn_type_six_a_two PMID:2371257 SO:cb http://purl.obolibrary.org/obo/SO_0001154 A motif of four consecutive peptide residues, of which the i+2 residue is proline, and that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth and is characterized by the dihedral angles: Residue(i+1): phi ~ -120 degrees, psi ~ 120 degrees. Residue(i+2): phi ~ -60 degrees, psi ~ 0 degrees. http://purl.obolibrary.org/obo/SO_0001154 beta turn type six b http://purl.obolibrary.org/obo/SO_0001154 type VIb beta turn http://purl.obolibrary.org/obo/SO_0001154 type VIb turn http://purl.obolibrary.org/obo/SO_0001154 sequence http://purl.obolibrary.org/obo/SO_0001154 SO:0001154 http://purl.obolibrary.org/obo/SO_0001154 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001154 beta_turn_type_six_b PMID:2371257 SO:cb http://purl.obolibrary.org/obo/SO_0001155 A motif of four consecutive peptide residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth and is characterized by the dihedral angles: Residue(i+1): phi ~ -60 degrees, psi ~ -30 degrees. Residue(i+2): phi ~ -120 degrees, psi ~ 120 degrees. http://purl.obolibrary.org/obo/SO_0001155 beta turn type eight http://purl.obolibrary.org/obo/SO_0001155 type VIII beta turn http://purl.obolibrary.org/obo/SO_0001155 type VIII turn http://purl.obolibrary.org/obo/SO_0001155 sequence http://purl.obolibrary.org/obo/SO_0001155 SO:0001155 http://purl.obolibrary.org/obo/SO_0001155 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0001155 beta_turn_type_eight PMID:12537576 http://purl.obolibrary.org/obo/SO_0001156 A sequence element characteristic of some RNA polymerase II promoters, usually located between -10 and -60 relative to the TSS. Consensus sequence is WATCGATW. http://purl.obolibrary.org/obo/SO_0001156 DRE motif http://purl.obolibrary.org/obo/SO_0001156 NDM4 http://purl.obolibrary.org/obo/SO_0001156 WATCGATW_motif http://purl.obolibrary.org/obo/SO_0001156 sequence http://purl.obolibrary.org/obo/SO_0001156 SO:0001156 http://purl.obolibrary.org/obo/SO_0001156 This consensus sequence was identified computationally using the MEME algorithm within core promoter sequences from -60 to +40, with an E value of 1.7e-183. Tends to co-occur with Motif 7. Tends to not occur with DPE motif (SO:0000015) or motif 10. http://purl.obolibrary.org/obo/SO_0001156 DRE_motif PMID:16827941:12537576 http://purl.obolibrary.org/obo/SO_0001157 A sequence element characteristic of some RNA polymerase II promoters, located immediately upstream of some TATA box elements with respect to the TSS (+1). Consensus sequence is YGGTCACACTR. Marked spatial preference within core promoter; tend to occur near the TSS, although not as tightly as INR (SO:0000014). http://purl.obolibrary.org/obo/SO_0001157 DMv4 http://purl.obolibrary.org/obo/SO_0001157 DMv4 motif http://purl.obolibrary.org/obo/SO_0001157 directional motif v4 http://purl.obolibrary.org/obo/SO_0001157 motif 1 element http://purl.obolibrary.org/obo/SO_0001157 promoter motif 1 http://purl.obolibrary.org/obo/SO_0001157 YGGTCACATR http://purl.obolibrary.org/obo/SO_0001157 sequence http://purl.obolibrary.org/obo/SO_0001157 SO:0001157 http://purl.obolibrary.org/obo/SO_0001157 DMv4_motif PMID:12537576:16827941 http://purl.obolibrary.org/obo/SO_0001158 A sequence element characteristic of some RNA polymerase II promoters, usually located between -60 and +1 relative to the TSS. Consensus sequence is AWCAGCTGWT. Tends to co-occur with DMv2 (SO:0001161). Tends to not occur with DPE motif (SO:0000015). http://purl.obolibrary.org/obo/SO_0001158 E box motif http://purl.obolibrary.org/obo/SO_0001158 generic E box motif http://purl.obolibrary.org/obo/SO_0001158 AWCAGCTGWT http://purl.obolibrary.org/obo/SO_0001158 sequence http://purl.obolibrary.org/obo/SO_0001158 NDM5 http://purl.obolibrary.org/obo/SO_0001158 SO:0001158 http://purl.obolibrary.org/obo/SO_0001158 E_box_motif PMID:12537576:16827941 http://purl.obolibrary.org/obo/SO_0001159 A sequence element characteristic of some RNA polymerase II promoters, usually located between -50 and -10 relative to the TSS. Consensus sequence is KTYRGTATWTTT. Tends to co-occur with DMv4 (SO:0001157) . Tends to not occur with DPE motif (SO:0000015) or MTE (SO:0001162). http://purl.obolibrary.org/obo/SO_0001159 DMv5 http://purl.obolibrary.org/obo/SO_0001159 DMv5 motif http://purl.obolibrary.org/obo/SO_0001159 directional motif v5 http://purl.obolibrary.org/obo/SO_0001159 KTYRGTATWTTT http://purl.obolibrary.org/obo/SO_0001159 sequence http://purl.obolibrary.org/obo/SO_0001159 promoter motif 6 http://purl.obolibrary.org/obo/SO_0001159 SO:0001159 http://purl.obolibrary.org/obo/SO_0001159 DMv5_motif PMID:12537576:16827941 http://purl.obolibrary.org/obo/SO_0001160 A sequence element characteristic of some RNA polymerase II promoters, usually located between -30 and +15 relative to the TSS. Consensus sequence is KNNCAKCNCTRNY. Tends to co-occur with DMv2 (SO:0001161). Tends to not occur with DPE motif (SO:0000015) or MTE (0001162). http://purl.obolibrary.org/obo/SO_0001160 DMv3 http://purl.obolibrary.org/obo/SO_0001160 DMv3 motif http://purl.obolibrary.org/obo/SO_0001160 directional motif v3 http://purl.obolibrary.org/obo/SO_0001160 promoter motif 7 http://purl.obolibrary.org/obo/SO_0001160 KNNCAKCNCTRNY http://purl.obolibrary.org/obo/SO_0001160 sequence http://purl.obolibrary.org/obo/SO_0001160 SO:0001160 http://purl.obolibrary.org/obo/SO_0001160 DMv3_motif PMID:12537576:16827941 http://purl.obolibrary.org/obo/SO_0001161 A sequence element characteristic of some RNA polymerase II promoters, usually located between -60 and -45 relative to the TSS. Consensus sequence is MKSYGGCARCGSYSS. Tends to co-occur with DMv3 (SO:0001160). Tends to not occur with DPE motif (SO:0000015) or MTE (SO:0001162). http://purl.obolibrary.org/obo/SO_0001161 DMv2 http://purl.obolibrary.org/obo/SO_0001161 DMv2 motif http://purl.obolibrary.org/obo/SO_0001161 directional motif v2 http://purl.obolibrary.org/obo/SO_0001161 promoter motif 8 http://purl.obolibrary.org/obo/SO_0001161 MKSYGGCARCGSYSS http://purl.obolibrary.org/obo/SO_0001161 sequence http://purl.obolibrary.org/obo/SO_0001161 SO:0001161 http://purl.obolibrary.org/obo/SO_0001161 DMv2_motif PMID:12537576:15231738 PMID:16858867 http://purl.obolibrary.org/obo/SO_0001162 A sequence element characteristic of some RNA polymerase II promoters, usually located between +20 and +30 relative to the TSS. Consensus sequence is CSARCSSAACGS. Tends to co-occur with INR motif (SO:0000014). Tends to not occur with DPE motif (SO:0000015) or DMv5 (SO:0001159). http://purl.obolibrary.org/obo/SO_0001162 motif ten element http://purl.obolibrary.org/obo/SO_0001162 motif_ten_element http://purl.obolibrary.org/obo/SO_0001162 CSARCSSAACGS http://purl.obolibrary.org/obo/SO_0001162 sequence http://purl.obolibrary.org/obo/SO_0001162 SO:0001162 http://purl.obolibrary.org/obo/SO_0001162 MTE PMID:16827941 http://purl.obolibrary.org/obo/SO_0001163 A promoter motif with consensus sequence TCATTCG. http://purl.obolibrary.org/obo/SO_0001163 DMp3 http://purl.obolibrary.org/obo/SO_0001163 INR1 motif http://purl.obolibrary.org/obo/SO_0001163 directional motif p3 http://purl.obolibrary.org/obo/SO_0001163 directional promoter motif 3 http://purl.obolibrary.org/obo/SO_0001163 sequence http://purl.obolibrary.org/obo/SO_0001163 SO:0001163 http://purl.obolibrary.org/obo/SO_0001163 INR1_motif PMID:16827941 http://purl.obolibrary.org/obo/SO_0001164 A promoter motif with consensus sequence CGGACGT. http://purl.obolibrary.org/obo/SO_0001164 DMp5 http://purl.obolibrary.org/obo/SO_0001164 DPE1 motif http://purl.obolibrary.org/obo/SO_0001164 directional motif 5 http://purl.obolibrary.org/obo/SO_0001164 sequence http://purl.obolibrary.org/obo/SO_0001164 directional promoter motif 5 http://purl.obolibrary.org/obo/SO_0001164 SO:0001164 http://purl.obolibrary.org/obo/SO_0001164 DPE1_motif PMID:16827941 http://purl.obolibrary.org/obo/SO_0001165 A promoter motif with consensus sequence CARCCCT. http://purl.obolibrary.org/obo/SO_0001165 DMv1 motif http://purl.obolibrary.org/obo/SO_0001165 sequence http://purl.obolibrary.org/obo/SO_0001165 DMv1 http://purl.obolibrary.org/obo/SO_0001165 directional promoter motif v1 http://purl.obolibrary.org/obo/SO_0001165 SO:0001165 http://purl.obolibrary.org/obo/SO_0001165 DMv1_motif PMID:16827941 http://purl.obolibrary.org/obo/SO_0001166 A non directional promoter motif with consensus sequence GAGAGCG. http://purl.obolibrary.org/obo/SO_0001166 GAGA http://purl.obolibrary.org/obo/SO_0001166 GAGA motif http://purl.obolibrary.org/obo/SO_0001166 NDM1 http://purl.obolibrary.org/obo/SO_0001166 sequence http://purl.obolibrary.org/obo/SO_0001166 SO:0001166 http://purl.obolibrary.org/obo/SO_0001166 GAGA_motif PMID:16827941 http://purl.obolibrary.org/obo/SO_0001167 A non directional promoter motif with consensus CGMYGYCR. http://purl.obolibrary.org/obo/SO_0001167 NDM2 http://purl.obolibrary.org/obo/SO_0001167 NDM2 motif http://purl.obolibrary.org/obo/SO_0001167 non directional promoter motif 2 http://purl.obolibrary.org/obo/SO_0001167 sequence http://purl.obolibrary.org/obo/SO_0001167 SO:0001167 http://purl.obolibrary.org/obo/SO_0001167 NDM2_motif PMID:16827941 http://purl.obolibrary.org/obo/SO_0001168 A non directional promoter motif with consensus sequence GAAAGCT. http://purl.obolibrary.org/obo/SO_0001168 NDM3 http://purl.obolibrary.org/obo/SO_0001168 NDM3 motif http://purl.obolibrary.org/obo/SO_0001168 non directional motif 3 http://purl.obolibrary.org/obo/SO_0001168 sequence http://purl.obolibrary.org/obo/SO_0001168 SO:0001168 http://purl.obolibrary.org/obo/SO_0001168 NDM3_motif SO:ke http://purl.obolibrary.org/obo/SO_0001169 A ds_RNA_viral_sequence is a viral_sequence that is the sequence of a virus that exists as double stranded RNA. http://purl.obolibrary.org/obo/SO_0001169 double stranded RNA virus sequence http://purl.obolibrary.org/obo/SO_0001169 ds RNA viral sequence http://purl.obolibrary.org/obo/SO_0001169 sequence http://purl.obolibrary.org/obo/SO_0001169 SO:0001169 http://purl.obolibrary.org/obo/SO_0001169 ds_RNA_viral_sequence PMID:16537396 http://purl.obolibrary.org/obo/SO_0001170 A kind of DNA transposon that populates the genomes of protists, fungi, and animals, characterized by a unique set of proteins necessary for their transposition, including a protein-primed DNA polymerase B, retroviral integrase, cysteine protease, and ATPase. Polintons are characterized by 6-bp target site duplications, terminal-inverted repeats that are several hundred nucleotides long, and 5'-AG and TC-3' termini. Polintons exist as autonomous and nonautonomous elements. http://purl.obolibrary.org/obo/SO_0001170 sequence http://purl.obolibrary.org/obo/SO_0001170 maverick element http://purl.obolibrary.org/obo/SO_0001170 SO:0001170 http://purl.obolibrary.org/obo/SO_0001170 polinton RSC:cb http://purl.obolibrary.org/obo/SO_0001171 A component of the large ribosomal subunit in mitochondrial rRNA. http://purl.obolibrary.org/obo/SO_0001171 21S LSU rRNA http://purl.obolibrary.org/obo/SO_0001171 21S rRNA http://purl.obolibrary.org/obo/SO_0001171 21S ribosomal RNA http://purl.obolibrary.org/obo/SO_0001171 rRNA 21S http://purl.obolibrary.org/obo/SO_0001171 sequence http://purl.obolibrary.org/obo/SO_0001171 SO:0001171 http://purl.obolibrary.org/obo/SO_0001171 rRNA_21S RSC:cb http://purl.obolibrary.org/obo/SO_0001172 A region of a tRNA. http://purl.obolibrary.org/obo/SO_0001172 tRNA region http://purl.obolibrary.org/obo/SO_0001172 sequence http://purl.obolibrary.org/obo/SO_0001172 SO:0001172 http://purl.obolibrary.org/obo/SO_0001172 tRNA_region ISBN:0716719207 http://purl.obolibrary.org/obo/SO_0001173 A sequence of seven nucleotide bases in tRNA which contains the anticodon. It has the sequence 5'-pyrimidine-purine-anticodon-modified purine-any base-3. http://purl.obolibrary.org/obo/SO_0001173 anti-codon loop http://purl.obolibrary.org/obo/SO_0001173 anticodon loop http://purl.obolibrary.org/obo/SO_0001173 sequence http://purl.obolibrary.org/obo/SO_0001173 SO:0001173 http://purl.obolibrary.org/obo/SO_0001173 anticodon_loop RSC:cb http://purl.obolibrary.org/obo/SO_0001174 A sequence of three nucleotide bases in tRNA which recognizes a codon in mRNA. wiki http://purl.obolibrary.org/obo/SO_0001174 http://en.wikipedia.org/wiki/Anticodon http://purl.obolibrary.org/obo/SO_0001174 anti-codon http://purl.obolibrary.org/obo/SO_0001174 sequence http://purl.obolibrary.org/obo/SO_0001174 SO:0001174 http://purl.obolibrary.org/obo/SO_0001174 anticodon ISBN:0716719207 http://purl.obolibrary.org/obo/SO_0001175 Base sequence at the 3' end of a tRNA. The 3'-hydroxyl group on the terminal adenosine is the attachment point for the amino acid. http://purl.obolibrary.org/obo/SO_0001175 CCA sequence http://purl.obolibrary.org/obo/SO_0001175 CCA tail http://purl.obolibrary.org/obo/SO_0001175 sequence http://purl.obolibrary.org/obo/SO_0001175 SO:0001175 http://purl.obolibrary.org/obo/SO_0001175 CCA_tail ISBN:071671920 http://purl.obolibrary.org/obo/SO_0001176 Non-base-paired sequence of nucleotide bases in tRNA. It contains several dihydrouracil residues. http://purl.obolibrary.org/obo/SO_0001176 DHU loop http://purl.obolibrary.org/obo/SO_0001176 sequence http://purl.obolibrary.org/obo/SO_0001176 D loop http://purl.obolibrary.org/obo/SO_0001176 SO:0001176 http://purl.obolibrary.org/obo/SO_0001176 DHU_loop ISBN:0716719207 http://purl.obolibrary.org/obo/SO_0001177 Non-base-paired sequence of three nucleotide bases in tRNA. It has sequence T-Psi-C. http://purl.obolibrary.org/obo/SO_0001177 T loop http://purl.obolibrary.org/obo/SO_0001177 TpsiC loop http://purl.obolibrary.org/obo/SO_0001177 sequence http://purl.obolibrary.org/obo/SO_0001177 SO:0001177 http://purl.obolibrary.org/obo/SO_0001177 T_loop RSC:cb http://purl.obolibrary.org/obo/SO_0001178 A primary transcript encoding pyrrolysyl tRNA (SO:0000766). http://purl.obolibrary.org/obo/SO_0001178 pyrrolysine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0001178 sequence http://purl.obolibrary.org/obo/SO_0001178 SO:0001178 http://purl.obolibrary.org/obo/SO_0001178 pyrrolysine_tRNA_primary_transcript http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00012 http://purl.obolibrary.org/obo/SO_0001179 U3 snoRNA is a member of the box C/D class of small nucleolar RNAs. The U3 snoRNA secondary structure is characterised by a small 5' domain (with boxes A and A'), and a larger 3' domain (with boxes B, C, C', and D), the two domains being linked by a single-stranded hinge. Boxes B and C form the B/C motif, which appears to be exclusive to U3 snoRNAs, and boxes C' and D form the C'/D motif. The latter is functionally similar to the C/D motifs found in other snoRNAs. The 5' domain and the hinge region act as a pre-rRNA-binding domain. The 3' domain has conserved protein-binding sites. Both the box B/C and box C'/D motifs are sufficient for nuclear retention of U3 snoRNA. The box C'/D motif is also necessary for nucleolar localization, stability and hypermethylation of U3 snoRNA. Both box B/C and C'/D motifs are involved in specific protein interactions and are necessary for the rRNA processing functions of U3 snoRNA. wiki http://purl.obolibrary.org/obo/SO_0001179 http://en.wikipedia.org/wiki/Small_nucleolar_RNA_U3 http://purl.obolibrary.org/obo/SO_0001179 U3 small nucleolar RNA http://purl.obolibrary.org/obo/SO_0001179 U3 snoRNA http://purl.obolibrary.org/obo/SO_0001179 small nucleolar RNA U3 http://purl.obolibrary.org/obo/SO_0001179 snoRNA U3 http://purl.obolibrary.org/obo/SO_0001179 sequence http://purl.obolibrary.org/obo/SO_0001179 SO:0001179 http://purl.obolibrary.org/obo/SO_0001179 The definition is most of the old definition for snoRNA (SO:0000275). http://purl.obolibrary.org/obo/SO_0001179 U3_snoRNA PMID:7892223 http://purl.obolibrary.org/obo/SO_0001180 A cis-acting element found in the 3' UTR of some mRNA which is rich in AUUUA pentamers. Messenger RNAs bearing multiple AU-rich elements are often unstable. wiki http://purl.obolibrary.org/obo/SO_0001180 http://en.wikipedia.org/wiki/AU-rich_element http://purl.obolibrary.org/obo/SO_0001180 AU rich element http://purl.obolibrary.org/obo/SO_0001180 AU-rich element http://purl.obolibrary.org/obo/SO_0001180 sequence http://purl.obolibrary.org/obo/SO_0001180 ARE http://purl.obolibrary.org/obo/SO_0001180 SO:0001180 http://purl.obolibrary.org/obo/SO_0001180 AU_rich_element PMID:10893231 http://purl.obolibrary.org/obo/SO_0001181 A cis-acting element found in the 3' UTR of some mRNA which is bound by the Drosophila Bruno protein and its homologs. http://purl.obolibrary.org/obo/SO_0001181 Bruno response element http://purl.obolibrary.org/obo/SO_0001181 sequence http://purl.obolibrary.org/obo/SO_0001181 BRE http://purl.obolibrary.org/obo/SO_0001181 SO:0001181 http://purl.obolibrary.org/obo/SO_0001181 Not to be confused with BRE_motif (SO:0000016), which binds transcription factor II B. http://purl.obolibrary.org/obo/SO_0001181 Bruno_response_element PMID:3198610 PMID:8710843 http://purl.obolibrary.org/obo/SO_0001182 A regulatory sequence found in the 5' and 3' UTRs of many mRNAs which encode iron-binding proteins. It has a hairpin structure and is recognized by trans-acting proteins known as iron-regulatory proteins. wiki http://purl.obolibrary.org/obo/SO_0001182 http://en.wikipedia.org/wiki/Iron_responsive_element http://purl.obolibrary.org/obo/SO_0001182 IRE http://purl.obolibrary.org/obo/SO_0001182 iron responsive element http://purl.obolibrary.org/obo/SO_0001182 sequence http://purl.obolibrary.org/obo/SO_0001182 SO:0001182 http://purl.obolibrary.org/obo/SO_0001182 iron_responsive_element RSC:cb http://purl.obolibrary.org/obo/SO_0001183 An attribute describing a sequence composed of nucleobases bound to a morpholino backbone. A morpholino backbone consists of morpholine (CHEBI:34856) rings connected by phosphorodiamidate linkages. wiki http://purl.obolibrary.org/obo/SO_0001183 http://en.wikipedia.org/wiki/Morpholino http://purl.obolibrary.org/obo/SO_0001183 morpholino backbone http://purl.obolibrary.org/obo/SO_0001183 sequence http://purl.obolibrary.org/obo/SO_0001183 SO:0001183 http://purl.obolibrary.org/obo/SO_0001183 Do not use this for feature annotation. Use morpholino_oligo (SO:0000034) instead. http://purl.obolibrary.org/obo/SO_0001183 morpholino_backbone RSC:cb http://purl.obolibrary.org/obo/SO_0001184 An attribute describing a sequence composed of peptide nucleic acid (CHEBI:48021), a chemical consisting of nucleobases bound to a backbone composed of repeating N-(2-aminoethyl)-glycine units linked by peptide bonds. The purine and pyrimidine bases are linked to the backbone by methylene carbonyl bonds. http://purl.obolibrary.org/obo/SO_0001184 sequence http://purl.obolibrary.org/obo/SO_0001184 peptide nucleic acid http://purl.obolibrary.org/obo/SO_0001184 SO:0001184 http://purl.obolibrary.org/obo/SO_0001184 Do not use this term for feature annotation. Use PNA_oligo (SO:0001011) instead. http://purl.obolibrary.org/obo/SO_0001184 PNA RSC:cb http://purl.obolibrary.org/obo/SO_0001185 An attribute describing the sequence of a transcript that has catalytic activity with or without an associated ribonucleoprotein. http://purl.obolibrary.org/obo/SO_0001185 sequence http://purl.obolibrary.org/obo/SO_0001185 SO:0001185 http://purl.obolibrary.org/obo/SO_0001185 Do not use this for feature annotation. Use enzymatic_RNA (SO:0000372) instead. http://purl.obolibrary.org/obo/SO_0001185 enzymatic RSC:cb http://purl.obolibrary.org/obo/SO_0001186 An attribute describing the sequence of a transcript that has catalytic activity even without an associated ribonucleoprotein. http://purl.obolibrary.org/obo/SO_0001186 sequence http://purl.obolibrary.org/obo/SO_0001186 SO:0001186 http://purl.obolibrary.org/obo/SO_0001186 Do not use this for feature annotation. Use ribozyme (SO:0000374) instead. http://purl.obolibrary.org/obo/SO_0001186 ribozymic GOC:mah PMID:12457565 http://purl.obolibrary.org/obo/SO_0001187 A snoRNA that specifies the site of pseudouridylation in an RNA molecule by base pairing with a short sequence around the target residue. http://purl.obolibrary.org/obo/SO_0001187 pseudouridylation guide snoRNA http://purl.obolibrary.org/obo/SO_0001187 sequence http://purl.obolibrary.org/obo/SO_0001187 SO:0001187 http://purl.obolibrary.org/obo/SO_0001187 Has RNA pseudouridylation guide activity (GO:0030558). http://purl.obolibrary.org/obo/SO_0001187 pseudouridylation_guide_snoRNA CHEBI:48010 http://purl.obolibrary.org/obo/SO_0001188 An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of 'locked' deoxyribose rings connected to a phosphate backbone. The deoxyribose unit's conformation is 'locked' by a 2'-C,4'-C-oxymethylene link. http://purl.obolibrary.org/obo/SO_0001188 sequence http://purl.obolibrary.org/obo/SO_0001188 SO:0001188 http://purl.obolibrary.org/obo/SO_0001188 Do not use this term for feature annotation. Use LNA_oligo (SO:0001189) instead. http://purl.obolibrary.org/obo/SO_0001188 LNA RSC:cb http://purl.obolibrary.org/obo/SO_0001189 An oligo composed of LNA residues. wiki http://purl.obolibrary.org/obo/SO_0001189 http://en.wikipedia.org/wiki/Locked_nucleic_acid http://purl.obolibrary.org/obo/SO_0001189 LNA oligo http://purl.obolibrary.org/obo/SO_0001189 locked nucleic acid http://purl.obolibrary.org/obo/SO_0001189 sequence http://purl.obolibrary.org/obo/SO_0001189 SO:0001189 http://purl.obolibrary.org/obo/SO_0001189 LNA_oligo CHEBI:48019 http://purl.obolibrary.org/obo/SO_0001190 An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of threose rings connected to a phosphate backbone. http://purl.obolibrary.org/obo/SO_0001190 sequence http://purl.obolibrary.org/obo/SO_0001190 SO:0001190 http://purl.obolibrary.org/obo/SO_0001190 Do not use this term for feature annotation. Use TNA_oligo (SO:0001191) instead. http://purl.obolibrary.org/obo/SO_0001190 TNA RSC:cb http://purl.obolibrary.org/obo/SO_0001191 An oligo composed of TNA residues. wiki http://purl.obolibrary.org/obo/SO_0001191 http://en.wikipedia.org/wiki/Threose_nucleic_acid http://purl.obolibrary.org/obo/SO_0001191 TNA oligo http://purl.obolibrary.org/obo/SO_0001191 threose nucleic acid http://purl.obolibrary.org/obo/SO_0001191 sequence http://purl.obolibrary.org/obo/SO_0001191 SO:0001191 http://purl.obolibrary.org/obo/SO_0001191 TNA_oligo CHEBI:48015 http://purl.obolibrary.org/obo/SO_0001192 An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of an acyclic three-carbon propylene glycol connected to a phosphate backbone. It has two enantiomeric forms, (R)-GNA and (S)-GNA. http://purl.obolibrary.org/obo/SO_0001192 sequence http://purl.obolibrary.org/obo/SO_0001192 SO:0001192 http://purl.obolibrary.org/obo/SO_0001192 Do not use this term for feature annotation. Use GNA_oligo (SO:0001192) instead. http://purl.obolibrary.org/obo/SO_0001192 GNA RSC:cb http://purl.obolibrary.org/obo/SO_0001193 An oligo composed of GNA residues. wiki http://purl.obolibrary.org/obo/SO_0001193 http://en.wikipedia.org/wiki/Glycerol_nucleic_acid http://purl.obolibrary.org/obo/SO_0001193 GNA oligo http://purl.obolibrary.org/obo/SO_0001193 glycerol nucleic acid http://purl.obolibrary.org/obo/SO_0001193 glycol nucleic acid http://purl.obolibrary.org/obo/SO_0001193 sequence http://purl.obolibrary.org/obo/SO_0001193 SO:0001193 http://purl.obolibrary.org/obo/SO_0001193 GNA_oligo CHEBI:48016 http://purl.obolibrary.org/obo/SO_0001194 An attribute describing a GNA sequence in the (R)-GNA enantiomer. http://purl.obolibrary.org/obo/SO_0001194 R GNA http://purl.obolibrary.org/obo/SO_0001194 sequence http://purl.obolibrary.org/obo/SO_0001194 SO:0001194 http://purl.obolibrary.org/obo/SO_0001194 Do not use this term for feature annotation. Use R_GNA_oligo (SO:0001195) instead. http://purl.obolibrary.org/obo/SO_0001194 R_GNA RSC:cb http://purl.obolibrary.org/obo/SO_0001195 An oligo composed of (R)-GNA residues. http://purl.obolibrary.org/obo/SO_0001195 (R)-glycerol nucleic acid http://purl.obolibrary.org/obo/SO_0001195 (R)-glycol nucleic acid http://purl.obolibrary.org/obo/SO_0001195 R GNA oligo http://purl.obolibrary.org/obo/SO_0001195 sequence http://purl.obolibrary.org/obo/SO_0001195 SO:0001195 http://purl.obolibrary.org/obo/SO_0001195 R_GNA_oligo CHEBI:48017 http://purl.obolibrary.org/obo/SO_0001196 An attribute describing a GNA sequence in the (S)-GNA enantiomer. http://purl.obolibrary.org/obo/SO_0001196 S GNA http://purl.obolibrary.org/obo/SO_0001196 sequence http://purl.obolibrary.org/obo/SO_0001196 SO:0001196 http://purl.obolibrary.org/obo/SO_0001196 Do not use this term for feature annotation. Use S_GNA_oligo (SO:0001197) instead. http://purl.obolibrary.org/obo/SO_0001196 S_GNA RSC:cb http://purl.obolibrary.org/obo/SO_0001197 An oligo composed of (S)-GNA residues. http://purl.obolibrary.org/obo/SO_0001197 (S)-glycerol nucleic acid http://purl.obolibrary.org/obo/SO_0001197 (S)-glycol nucleic acid http://purl.obolibrary.org/obo/SO_0001197 S GNA oligo http://purl.obolibrary.org/obo/SO_0001197 sequence http://purl.obolibrary.org/obo/SO_0001197 SO:0001197 http://purl.obolibrary.org/obo/SO_0001197 S_GNA_oligo SO:ke http://purl.obolibrary.org/obo/SO_0001198 A ds_DNA_viral_sequence is a viral_sequence that is the sequence of a virus that exists as double stranded DNA. http://purl.obolibrary.org/obo/SO_0001198 double stranded DNA virus http://purl.obolibrary.org/obo/SO_0001198 ds DNA viral sequence http://purl.obolibrary.org/obo/SO_0001198 sequence http://purl.obolibrary.org/obo/SO_0001198 SO:0001198 http://purl.obolibrary.org/obo/SO_0001198 ds_DNA_viral_sequence SO:ke http://purl.obolibrary.org/obo/SO_0001199 A ss_RNA_viral_sequence is a viral_sequence that is the sequence of a virus that exists as single stranded RNA. http://purl.obolibrary.org/obo/SO_0001199 single strand RNA virus http://purl.obolibrary.org/obo/SO_0001199 ss RNA viral sequence http://purl.obolibrary.org/obo/SO_0001199 sequence http://purl.obolibrary.org/obo/SO_0001199 SO:0001199 http://purl.obolibrary.org/obo/SO_0001199 ss_RNA_viral_sequence SO:ke http://purl.obolibrary.org/obo/SO_0001200 A negative_sense_RNA_viral_sequence is a ss_RNA_viral_sequence that is the sequence of a single stranded RNA virus that is complementary to mRNA and must be converted to positive sense RNA by RNA polymerase before translation. http://purl.obolibrary.org/obo/SO_0001200 negative sense ssRNA viral sequence http://purl.obolibrary.org/obo/SO_0001200 sequence http://purl.obolibrary.org/obo/SO_0001200 negative sense single stranded RNA virus http://purl.obolibrary.org/obo/SO_0001200 SO:0001200 http://purl.obolibrary.org/obo/SO_0001200 negative_sense_ssRNA_viral_sequence SO:ke http://purl.obolibrary.org/obo/SO_0001201 A positive_sense_RNA_viral_sequence is a ss_RNA_viral_sequence that is the sequence of a single stranded RNA virus that can be immediately translated by the host. http://purl.obolibrary.org/obo/SO_0001201 positive sense ssRNA viral sequence http://purl.obolibrary.org/obo/SO_0001201 sequence http://purl.obolibrary.org/obo/SO_0001201 positive sense single stranded RNA virus http://purl.obolibrary.org/obo/SO_0001201 SO:0001201 http://purl.obolibrary.org/obo/SO_0001201 positive_sense_ssRNA_viral_sequence SO:ke http://purl.obolibrary.org/obo/SO_0001202 A ambisense_RNA_virus is a ss_RNA_viral_sequence that is the sequence of a single stranded RNA virus with both messenger and anti messenger polarity. http://purl.obolibrary.org/obo/SO_0001202 ambisense single stranded RNA virus http://purl.obolibrary.org/obo/SO_0001202 ambisense ssRNA viral sequence http://purl.obolibrary.org/obo/SO_0001202 sequence http://purl.obolibrary.org/obo/SO_0001202 SO:0001202 http://purl.obolibrary.org/obo/SO_0001202 ambisense_ssRNA_viral_sequence xenbase:jb http://purl.obolibrary.org/obo/SO_0001203 A region (DNA) to which RNA polymerase binds, to begin transcription. http://purl.obolibrary.org/obo/SO_0001203 RNA polymerase promoter http://purl.obolibrary.org/obo/SO_0001203 sequence http://purl.obolibrary.org/obo/SO_0001203 SO:0001203 http://purl.obolibrary.org/obo/SO_0001203 RNA_polymerase_promoter xenbase:jb http://purl.obolibrary.org/obo/SO_0001204 A region (DNA) to which Bacteriophage RNA polymerase binds, to begin transcription. http://purl.obolibrary.org/obo/SO_0001204 Phage RNA Polymerase Promoter http://purl.obolibrary.org/obo/SO_0001204 sequence http://purl.obolibrary.org/obo/SO_0001204 SO:0001204 http://purl.obolibrary.org/obo/SO_0001204 Phage_RNA_Polymerase_Promoter xenbase:jb http://purl.obolibrary.org/obo/SO_0001205 A region (DNA) to which the SP6 RNA polymerase binds, to begin transcription. http://purl.obolibrary.org/obo/SO_0001205 SP6 RNA Polymerase Promoter http://purl.obolibrary.org/obo/SO_0001205 sequence http://purl.obolibrary.org/obo/SO_0001205 SO:0001205 http://purl.obolibrary.org/obo/SO_0001205 SP6_RNA_Polymerase_Promoter xenbase:jb http://purl.obolibrary.org/obo/SO_0001206 A DNA sequence to which the T3 RNA polymerase binds, to begin transcription. http://purl.obolibrary.org/obo/SO_0001206 T3 RNA Polymerase Promoter http://purl.obolibrary.org/obo/SO_0001206 sequence http://purl.obolibrary.org/obo/SO_0001206 SO:0001206 http://purl.obolibrary.org/obo/SO_0001206 T3_RNA_Polymerase_Promoter xenbase:jb http://purl.obolibrary.org/obo/SO_0001207 A region (DNA) to which the T7 RNA polymerase binds, to begin transcription. http://purl.obolibrary.org/obo/SO_0001207 T7 RNA Polymerase Promoter http://purl.obolibrary.org/obo/SO_0001207 sequence http://purl.obolibrary.org/obo/SO_0001207 SO:0001207 http://purl.obolibrary.org/obo/SO_0001207 T7_RNA_Polymerase_Promoter http://www.ncbi.nlm.nih.gov/About/primer/est.html http://purl.obolibrary.org/obo/SO_0001208 An EST read from the 5' end of a transcript that usually codes for a protein. These regions tend to be conserved across species and do not change much within a gene family. http://purl.obolibrary.org/obo/SO_0001208 5' EST http://purl.obolibrary.org/obo/SO_0001208 five prime EST http://purl.obolibrary.org/obo/SO_0001208 sequence http://purl.obolibrary.org/obo/SO_0001208 SO:0001208 http://purl.obolibrary.org/obo/SO_0001208 five_prime_EST http://www.ncbi.nlm.nih.gov/About/primer/est.html http://purl.obolibrary.org/obo/SO_0001209 An EST read from the 3' end of a transcript. They are more likely to fall within non-coding, or untranslated regions(UTRs). http://purl.obolibrary.org/obo/SO_0001209 3' EST http://purl.obolibrary.org/obo/SO_0001209 three prime EST http://purl.obolibrary.org/obo/SO_0001209 sequence http://purl.obolibrary.org/obo/SO_0001209 SO:0001209 http://purl.obolibrary.org/obo/SO_0001209 three_prime_EST SO:ke http://purl.obolibrary.org/obo/SO_0001210 The region of mRNA (not divisible by 3 bases) that is skipped during the process of translational frameshifting (GO:0006452), causing the reading frame to be different. wiki http://purl.obolibrary.org/obo/SO_0001210 http://en.wikipedia.org/wiki/Translational_frameshift http://purl.obolibrary.org/obo/SO_0001210 ribosomal frameshift http://purl.obolibrary.org/obo/SO_0001210 translational frameshift http://purl.obolibrary.org/obo/SO_0001210 sequence http://purl.obolibrary.org/obo/SO_0001210 SO:0001210 http://purl.obolibrary.org/obo/SO_0001210 translational_frameshift SO:ke http://purl.obolibrary.org/obo/SO_0001211 The region of mRNA 1 base long that is skipped during the process of translational frameshifting (GO:0006452), causing the reading frame to be different. http://purl.obolibrary.org/obo/SO_0001211 plus 1 ribosomal frameshift http://purl.obolibrary.org/obo/SO_0001211 plus 1 translational frameshift http://purl.obolibrary.org/obo/SO_0001211 sequence http://purl.obolibrary.org/obo/SO_0001211 SO:0001211 http://purl.obolibrary.org/obo/SO_0001211 plus_1_translational_frameshift SO:ke http://purl.obolibrary.org/obo/SO_0001212 The region of mRNA 2 bases long that is skipped during the process of translational frameshifting (GO:0006452), causing the reading frame to be different. http://purl.obolibrary.org/obo/SO_0001212 plus 2 ribosomal frameshift http://purl.obolibrary.org/obo/SO_0001212 plus 2 translational frameshift http://purl.obolibrary.org/obo/SO_0001212 sequence http://purl.obolibrary.org/obo/SO_0001212 SO:0001212 http://purl.obolibrary.org/obo/SO_0001212 plus_2_translational_frameshift PMID:11377794 http://purl.obolibrary.org/obo/SO_0001213 Group III introns are introns found in the mRNA of the plastids of euglenoid protists. They are spliced by a two step transesterification with bulged adenosine as initiating nucleophile. wiki http://purl.obolibrary.org/obo/SO_0001213 http://en.wikipedia.org/wiki/Group_III_intron http://purl.obolibrary.org/obo/SO_0001213 group III intron http://purl.obolibrary.org/obo/SO_0001213 sequence http://purl.obolibrary.org/obo/SO_0001213 SO:0001213 http://purl.obolibrary.org/obo/SO_0001213 GO:0000374. http://purl.obolibrary.org/obo/SO_0001213 group_III_intron SO:ke http://purl.obolibrary.org/obo/SO_0001214 The maximal intersection of exon and UTR. http://purl.obolibrary.org/obo/SO_0001214 noncoding region of exon http://purl.obolibrary.org/obo/SO_0001214 sequence http://purl.obolibrary.org/obo/SO_0001214 SO:0001214 http://purl.obolibrary.org/obo/SO_0001214 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001214 An exon either containing but not starting with a start codon or containing but not ending with a stop codon will be partially coding and partially non coding. http://purl.obolibrary.org/obo/SO_0001214 noncoding_region_of_exon SO:ke http://purl.obolibrary.org/obo/SO_0001215 The region of an exon that encodes for protein sequence. http://purl.obolibrary.org/obo/SO_0001215 coding region of exon http://purl.obolibrary.org/obo/SO_0001215 sequence http://purl.obolibrary.org/obo/SO_0001215 SO:0001215 http://purl.obolibrary.org/obo/SO_0001215 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001215 An exon containing either a start or stop codon will be partially coding and partially non coding. http://purl.obolibrary.org/obo/SO_0001215 coding_region_of_exon SO:ke http://purl.obolibrary.org/obo/SO_0001216 An intron that spliced via endonucleolytic cleavage and ligation rather than transesterification. http://purl.obolibrary.org/obo/SO_0001216 endonuclease spliced intron http://purl.obolibrary.org/obo/SO_0001216 sequence http://purl.obolibrary.org/obo/SO_0001216 SO:0001216 http://purl.obolibrary.org/obo/SO_0001216 endonuclease_spliced_intron http://purl.obolibrary.org/obo/SO_0001217 protein coding gene http://purl.obolibrary.org/obo/SO_0001217 sequence http://purl.obolibrary.org/obo/SO_0001217 SO:0001217 http://purl.obolibrary.org/obo/SO_0001217 protein_coding_gene SO:bm http://purl.obolibrary.org/obo/SO_0001218 An insertion that derives from another organism, via the use of recombinant DNA technology. http://purl.obolibrary.org/obo/SO_0001218 transgenic insertion http://purl.obolibrary.org/obo/SO_0001218 sequence http://purl.obolibrary.org/obo/SO_0001218 SO:0001218 http://purl.obolibrary.org/obo/SO_0001218 transgenic_insertion http://purl.obolibrary.org/obo/SO_0001219 sequence http://purl.obolibrary.org/obo/SO_0001219 SO:0001219 http://purl.obolibrary.org/obo/SO_0001219 retrogene RSC:cb http://purl.obolibrary.org/obo/SO_0001220 An attribute describing an epigenetic process where a gene is inactivated by RNA interference. http://purl.obolibrary.org/obo/SO_0001220 silenced by RNA interference http://purl.obolibrary.org/obo/SO_0001220 sequence http://purl.obolibrary.org/obo/SO_0001220 SO:0001220 http://purl.obolibrary.org/obo/SO_0001220 RNA interference is GO:0016246. http://purl.obolibrary.org/obo/SO_0001220 silenced_by_RNA_interference RSC:cb http://purl.obolibrary.org/obo/SO_0001221 An attribute describing an epigenetic process where a gene is inactivated by histone modification. http://purl.obolibrary.org/obo/SO_0001221 silenced by histone modification http://purl.obolibrary.org/obo/SO_0001221 sequence http://purl.obolibrary.org/obo/SO_0001221 SO:0001221 http://purl.obolibrary.org/obo/SO_0001221 Histone modification is GO:0016570. http://purl.obolibrary.org/obo/SO_0001221 silenced_by_histone_modification RSC:cb http://purl.obolibrary.org/obo/SO_0001222 An attribute describing an epigenetic process where a gene is inactivated by histone methylation. http://purl.obolibrary.org/obo/SO_0001222 silenced by histone methylation http://purl.obolibrary.org/obo/SO_0001222 sequence http://purl.obolibrary.org/obo/SO_0001222 SO:0001222 http://purl.obolibrary.org/obo/SO_0001222 Histone methylation is GO:0016571. http://purl.obolibrary.org/obo/SO_0001222 silenced_by_histone_methylation RSC:cb http://purl.obolibrary.org/obo/SO_0001223 An attribute describing an epigenetic process where a gene is inactivated by histone deacetylation. http://purl.obolibrary.org/obo/SO_0001223 silenced by histone deacetylation http://purl.obolibrary.org/obo/SO_0001223 sequence http://purl.obolibrary.org/obo/SO_0001223 SO:0001223 http://purl.obolibrary.org/obo/SO_0001223 Histone deacetylation is GO:0016573. http://purl.obolibrary.org/obo/SO_0001223 silenced_by_histone_deacetylation SO:xp http://purl.obolibrary.org/obo/SO_0001224 A gene that is silenced by RNA interference. http://purl.obolibrary.org/obo/SO_0001224 RNA interference silenced gene http://purl.obolibrary.org/obo/SO_0001224 RNAi silenced gene http://purl.obolibrary.org/obo/SO_0001224 gene silenced by RNA interference http://purl.obolibrary.org/obo/SO_0001224 sequence http://purl.obolibrary.org/obo/SO_0001224 SO:0001224 http://purl.obolibrary.org/obo/SO_0001224 gene_silenced_by_RNA_interference SO:xp http://purl.obolibrary.org/obo/SO_0001225 A gene that is silenced by histone modification. http://purl.obolibrary.org/obo/SO_0001225 gene silenced by histone modification http://purl.obolibrary.org/obo/SO_0001225 sequence http://purl.obolibrary.org/obo/SO_0001225 SO:0001225 http://purl.obolibrary.org/obo/SO_0001225 gene_silenced_by_histone_modification SO:xp http://purl.obolibrary.org/obo/SO_0001226 A gene that is silenced by histone methylation. http://purl.obolibrary.org/obo/SO_0001226 gene silenced by histone methylation http://purl.obolibrary.org/obo/SO_0001226 sequence http://purl.obolibrary.org/obo/SO_0001226 SO:0001226 http://purl.obolibrary.org/obo/SO_0001226 gene_silenced_by_histone_methylation SO:xp http://purl.obolibrary.org/obo/SO_0001227 A gene that is silenced by histone deacetylation. http://purl.obolibrary.org/obo/SO_0001227 gene silenced by histone deacetylation http://purl.obolibrary.org/obo/SO_0001227 sequence http://purl.obolibrary.org/obo/SO_0001227 SO:0001227 http://purl.obolibrary.org/obo/SO_0001227 gene_silenced_by_histone_deacetylation RSC:cb http://purl.obolibrary.org/obo/SO_0001228 A modified RNA base in which the 5,6-dihydrouracil is bound to the ribose ring. http://purl.obolibrary.org/obo/SO_0001228 RNAMOD:051 wiki http://purl.obolibrary.org/obo/SO_0001228 http://en.wikipedia.org/wiki/Dihydrouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001228 D http://purl.obolibrary.org/obo/SO_0001228 sequence http://purl.obolibrary.org/obo/SO_0001228 SO:0001228 http://purl.obolibrary.org/obo/SO_0001228 dihydrouridine RSC:cb http://purl.obolibrary.org/obo/SO_0001229 A modified RNA base in which the 5- position of the uracil is bound to the ribose ring instead of the 4- position. http://purl.obolibrary.org/obo/SO_0001229 RNAMOD:050 wiki http://purl.obolibrary.org/obo/SO_0001229 http://en.wikipedia.org/wiki/Pseudouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001229 Y http://purl.obolibrary.org/obo/SO_0001229 sequence http://purl.obolibrary.org/obo/SO_0001229 SO:0001229 http://purl.obolibrary.org/obo/SO_0001229 The free molecule is CHEBI:17802. http://purl.obolibrary.org/obo/SO_0001229 pseudouridine RSC:cb http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001230 A modified RNA base in which hypoxanthine is bound to the ribose ring. wiki http://purl.obolibrary.org/obo/SO_0001230 http://en.wikipedia.org/wiki/Inosine http://purl.obolibrary.org/obo/SO_0001230 sequence http://purl.obolibrary.org/obo/SO_0001230 I http://purl.obolibrary.org/obo/SO_0001230 RNAMOD:017 http://purl.obolibrary.org/obo/SO_0001230 SO:0001230 http://purl.obolibrary.org/obo/SO_0001230 The free molecule is CHEBI:17596. http://purl.obolibrary.org/obo/SO_0001230 inosine RSC:cb http://purl.obolibrary.org/obo/SO_0001231 A modified RNA base in which guanine is methylated at the 7- position. http://purl.obolibrary.org/obo/SO_0001231 7-methylguanine http://purl.obolibrary.org/obo/SO_0001231 seven methylguanine http://purl.obolibrary.org/obo/SO_0001231 sequence http://purl.obolibrary.org/obo/SO_0001231 SO:0001231 http://purl.obolibrary.org/obo/SO_0001231 The free molecule is CHEBI:2274. http://purl.obolibrary.org/obo/SO_0001231 seven_methylguanine RSC:cb http://purl.obolibrary.org/obo/SO_0001232 A modified RNA base in which thymine is bound to the ribose ring. http://purl.obolibrary.org/obo/SO_0001232 sequence http://purl.obolibrary.org/obo/SO_0001232 SO:0001232 http://purl.obolibrary.org/obo/SO_0001232 The free molecule is CHEBI:30832. http://purl.obolibrary.org/obo/SO_0001232 ribothymidine RSC:cb http://purl.obolibrary.org/obo/SO_0001233 A modified RNA base in which methylhypoxanthine is bound to the ribose ring. http://purl.obolibrary.org/obo/SO_0001233 sequence http://purl.obolibrary.org/obo/SO_0001233 SO:0001233 http://purl.obolibrary.org/obo/SO_0001233 methylinosine RSC:cb http://purl.obolibrary.org/obo/SO_0001234 An attribute describing a feature that has either intra-genome or intracellular mobility. wiki http://purl.obolibrary.org/obo/SO_0001234 http://en.wikipedia.org/wiki/Mobile http://purl.obolibrary.org/obo/SO_0001234 sequence http://purl.obolibrary.org/obo/SO_0001234 SO:0001234 http://purl.obolibrary.org/obo/SO_0001234 mobile ISBN:0716719207 http://purl.obolibrary.org/obo/SO_0001235 A region containing at least one unique origin of replication and a unique termination site. wiki http://purl.obolibrary.org/obo/SO_0001235 http://en.wikipedia.org/wiki/Replicon_(genetics) http://purl.obolibrary.org/obo/SO_0001235 sequence http://purl.obolibrary.org/obo/SO_0001235 SO:0001235 http://purl.obolibrary.org/obo/SO_0001235 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001235 replicon SO:ke http://purl.obolibrary.org/obo/SO_0001236 A base is a sequence feature that corresponds to a single unit of a nucleotide polymer. wiki http://purl.obolibrary.org/obo/SO_0001236 http://en.wikipedia.org/wiki/Nucleobase http://purl.obolibrary.org/obo/SO_0001236 sequence http://purl.obolibrary.org/obo/SO_0001236 SO:0001236 http://purl.obolibrary.org/obo/SO_0001236 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001236 base RSC:cb http://purl.obolibrary.org/obo/SO_0001237 A sequence feature that corresponds to a single amino acid residue in a polypeptide. wiki http://purl.obolibrary.org/obo/SO_0001237 http://en.wikipedia.org/wiki/Amino_acid http://purl.obolibrary.org/obo/SO_0001237 amino acid http://purl.obolibrary.org/obo/SO_0001237 sequence http://purl.obolibrary.org/obo/SO_0001237 SO:0001237 http://purl.obolibrary.org/obo/SO_0001237 Probably in the future this will cross reference to Chebi. http://purl.obolibrary.org/obo/SO_0001237 amino_acid http://purl.obolibrary.org/obo/SO_0001238 major TSS http://purl.obolibrary.org/obo/SO_0001238 major transcription start site http://purl.obolibrary.org/obo/SO_0001238 sequence http://purl.obolibrary.org/obo/SO_0001238 SO:0001238 http://purl.obolibrary.org/obo/SO_0001238 major_TSS http://purl.obolibrary.org/obo/SO_0001239 minor TSS http://purl.obolibrary.org/obo/SO_0001239 sequence http://purl.obolibrary.org/obo/SO_0001239 SO:0001239 http://purl.obolibrary.org/obo/SO_0001239 minor_TSS BBOP:nw http://purl.obolibrary.org/obo/SO_0001240 The region of a gene from the 5' most TSS to the 3' TSS. http://purl.obolibrary.org/obo/SO_0001240 TSS region http://purl.obolibrary.org/obo/SO_0001240 sequence http://purl.obolibrary.org/obo/SO_0001240 SO:0001240 http://purl.obolibrary.org/obo/SO_0001240 TSS_region http://purl.obolibrary.org/obo/SO_0001241 encodes alternate transcription start sites http://purl.obolibrary.org/obo/SO_0001241 sequence http://purl.obolibrary.org/obo/SO_0001241 SO:0001241 http://purl.obolibrary.org/obo/SO_0001241 encodes_alternate_transcription_start_sites SO:ke http://purl.obolibrary.org/obo/SO_0001243 A part of an miRNA primary_transcript. http://purl.obolibrary.org/obo/SO_0001243 miRNA primary transcript region http://purl.obolibrary.org/obo/SO_0001243 sequence http://purl.obolibrary.org/obo/SO_0001243 SO:0001243 http://purl.obolibrary.org/obo/SO_0001243 miRNA_primary_transcript_region SO:ke http://purl.obolibrary.org/obo/SO_0001244 The 60-70 nucleotide region remain after Drosha processing of the primary transcript, that folds back upon itself to form a hairpin structure. http://purl.obolibrary.org/obo/SO_0001244 pre-miRNA http://purl.obolibrary.org/obo/SO_0001244 sequence http://purl.obolibrary.org/obo/SO_0001244 SO:0001244 http://purl.obolibrary.org/obo/SO_0001244 pre_miRNA SO:ke http://purl.obolibrary.org/obo/SO_0001245 The stem of the hairpin loop formed by folding of the pre-miRNA. http://purl.obolibrary.org/obo/SO_0001245 miRNA stem http://purl.obolibrary.org/obo/SO_0001245 sequence http://purl.obolibrary.org/obo/SO_0001245 SO:0001245 http://purl.obolibrary.org/obo/SO_0001245 miRNA_stem SO:ke http://purl.obolibrary.org/obo/SO_0001246 The loop of the hairpin loop formed by folding of the pre-miRNA. http://purl.obolibrary.org/obo/SO_0001246 miRNA loop http://purl.obolibrary.org/obo/SO_0001246 sequence http://purl.obolibrary.org/obo/SO_0001246 SO:0001246 http://purl.obolibrary.org/obo/SO_0001246 miRNA_loop SO:ke http://purl.obolibrary.org/obo/SO_0001247 An oligo composed of synthetic nucleotides. http://purl.obolibrary.org/obo/SO_0001247 synthetic oligo http://purl.obolibrary.org/obo/SO_0001247 sequence http://purl.obolibrary.org/obo/SO_0001247 SO:0001247 http://purl.obolibrary.org/obo/SO_0001247 synthetic_oligo SO:ke http://purl.obolibrary.org/obo/SO_0001248 A region of the genome of known length that is composed by ordering and aligning two or more different regions. wiki http://purl.obolibrary.org/obo/SO_0001248 http://en.wikipedia.org/wiki/Genome_assembly#Genome_assembly http://purl.obolibrary.org/obo/SO_0001248 sequence http://purl.obolibrary.org/obo/SO_0001248 SO:0001248 http://purl.obolibrary.org/obo/SO_0001248 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001248 assembly SO:ke http://purl.obolibrary.org/obo/SO_0001249 A fragment assembly is a genome assembly that orders overlapping fragments of the genome based on landmark sequences. The base pair distance between the landmarks is known allowing additivity of lengths. http://purl.obolibrary.org/obo/SO_0001249 fragment assembly http://purl.obolibrary.org/obo/SO_0001249 physical map http://purl.obolibrary.org/obo/SO_0001249 sequence http://purl.obolibrary.org/obo/SO_0001249 SO:0001249 http://purl.obolibrary.org/obo/SO_0001249 fragment_assembly SO:ke http://purl.obolibrary.org/obo/SO_0001250 A fingerprint_map is a physical map composed of restriction fragments. http://purl.obolibrary.org/obo/SO_0001250 BACmap http://purl.obolibrary.org/obo/SO_0001250 FPC http://purl.obolibrary.org/obo/SO_0001250 FPCmap http://purl.obolibrary.org/obo/SO_0001250 fingerprint map http://purl.obolibrary.org/obo/SO_0001250 restriction map http://purl.obolibrary.org/obo/SO_0001250 sequence http://purl.obolibrary.org/obo/SO_0001250 SO:0001250 http://purl.obolibrary.org/obo/SO_0001250 fingerprint_map SO:ke http://purl.obolibrary.org/obo/SO_0001251 An STS map is a physical map organized by the unique STS landmarks. http://purl.obolibrary.org/obo/SO_0001251 STS map http://purl.obolibrary.org/obo/SO_0001251 sequence http://purl.obolibrary.org/obo/SO_0001251 SO:0001251 http://purl.obolibrary.org/obo/SO_0001251 STS_map SO:ke http://purl.obolibrary.org/obo/SO_0001252 A radiation hybrid map is a physical map. http://purl.obolibrary.org/obo/SO_0001252 RH map http://purl.obolibrary.org/obo/SO_0001252 radiation hybrid map http://purl.obolibrary.org/obo/SO_0001252 sequence http://purl.obolibrary.org/obo/SO_0001252 SO:0001252 http://purl.obolibrary.org/obo/SO_0001252 RH_map SO:ke http://purl.obolibrary.org/obo/SO_0001253 A DNA fragment generated by sonication. Sonication is a technique used to sheer DNA into smaller fragments. http://purl.obolibrary.org/obo/SO_0001253 sonicate fragment http://purl.obolibrary.org/obo/SO_0001253 sequence http://purl.obolibrary.org/obo/SO_0001253 SO:0001253 http://purl.obolibrary.org/obo/SO_0001253 sonicate_fragment SO:ke http://purl.obolibrary.org/obo/SO_0001254 A kind of chromosome variation where the chromosome complement is an exact multiple of the haploid number and is greater than the diploid number. wiki http://purl.obolibrary.org/obo/SO_0001254 http://en.wikipedia.org/wiki/Polyploid http://purl.obolibrary.org/obo/SO_0001254 sequence http://purl.obolibrary.org/obo/SO_0001254 SO:0001254 http://purl.obolibrary.org/obo/SO_0001254 polyploid SO:ke http://purl.obolibrary.org/obo/SO_0001255 A polyploid where the multiple chromosome set was derived from the same organism. wiki http://purl.obolibrary.org/obo/SO_0001255 http://en.wikipedia.org/wiki/Autopolyploid http://purl.obolibrary.org/obo/SO_0001255 sequence http://purl.obolibrary.org/obo/SO_0001255 SO:0001255 http://purl.obolibrary.org/obo/SO_0001255 autopolyploid SO:ke http://purl.obolibrary.org/obo/SO_0001256 A polyploid where the multiple chromosome set was derived from a different organism. wiki http://purl.obolibrary.org/obo/SO_0001256 http://en.wikipedia.org/wiki/Allopolyploid http://purl.obolibrary.org/obo/SO_0001256 sequence http://purl.obolibrary.org/obo/SO_0001256 SO:0001256 http://purl.obolibrary.org/obo/SO_0001256 allopolyploid SO:ke http://purl.obolibrary.org/obo/SO_0001257 The binding site (recognition site) of a homing endonuclease. The binding site is typically large. http://purl.obolibrary.org/obo/SO_0001257 homing endonuclease binding site http://purl.obolibrary.org/obo/SO_0001257 sequence http://purl.obolibrary.org/obo/SO_0001257 SO:0001257 http://purl.obolibrary.org/obo/SO_0001257 homing_endonuclease_binding_site GOC:dh PMID:3095662 http://purl.obolibrary.org/obo/SO_0001258 A sequence element characteristic of some RNA polymerase II promoters with sequence ATTGCAT that binds Pou-domain transcription factors. http://purl.obolibrary.org/obo/SO_0001258 octamer motif http://purl.obolibrary.org/obo/SO_0001258 sequence http://purl.obolibrary.org/obo/SO_0001258 SO:0001258 http://purl.obolibrary.org/obo/SO_0001258 Nature. 1986 Oct 16-22;323(6089):640-3. http://purl.obolibrary.org/obo/SO_0001258 octamer_motif SO:xp http://purl.obolibrary.org/obo/SO_0001259 A chromosome originating in an apicoplast. http://purl.obolibrary.org/obo/SO_0001259 apicoplast chromosome http://purl.obolibrary.org/obo/SO_0001259 sequence http://purl.obolibrary.org/obo/SO_0001259 SO:0001259 http://purl.obolibrary.org/obo/SO_0001259 apicoplast_chromosome SO:ke http://purl.obolibrary.org/obo/SO_0001260 A collection of discontinuous sequences. http://purl.obolibrary.org/obo/SO_0001260 sequence collection http://purl.obolibrary.org/obo/SO_0001260 sequence http://purl.obolibrary.org/obo/SO_0001260 SO:0001260 http://purl.obolibrary.org/obo/SO_0001260 sequence_collection SO:ke http://purl.obolibrary.org/obo/SO_0001261 A continuous region of sequence composed of the overlapping of multiple sequence_features, which ultimately provides evidence for another sequence_feature. http://purl.obolibrary.org/obo/SO_0001261 overlapping feature set http://purl.obolibrary.org/obo/SO_0001261 sequence http://purl.obolibrary.org/obo/SO_0001261 SO:0001261 http://purl.obolibrary.org/obo/SO_0001261 This feature was requested by Nicole, tracker id 1911479. It is required to gather evidence together for annotation. An example would be overlapping ESTs that support an mRNA. http://purl.obolibrary.org/obo/SO_0001261 overlapping_feature_set SO:ke http://purl.obolibrary.org/obo/SO_0001262 A continous experimental result region extending the length of multiple overlapping EST's. http://purl.obolibrary.org/obo/SO_0001262 overlapping EST set http://purl.obolibrary.org/obo/SO_0001262 sequence http://purl.obolibrary.org/obo/SO_0001262 SO:0001262 http://purl.obolibrary.org/obo/SO_0001262 overlapping_EST_set http://purl.obolibrary.org/obo/SO_0001263 ncRNA gen http://purl.obolibrary.org/obo/SO_0001263 ncRNA gene http://purl.obolibrary.org/obo/SO_0001263 sequence http://purl.obolibrary.org/obo/SO_0001263 non-coding RNA gene http://purl.obolibrary.org/obo/SO_0001263 SO:0001263 http://purl.obolibrary.org/obo/SO_0001263 ncRNA_gene http://purl.obolibrary.org/obo/SO_0001264 gRNA gene http://purl.obolibrary.org/obo/SO_0001264 sequence http://purl.obolibrary.org/obo/SO_0001264 SO:0001264 http://purl.obolibrary.org/obo/SO_0001264 gRNA_gene http://purl.obolibrary.org/obo/SO_0001265 SO:0001270 http://purl.obolibrary.org/obo/SO_0001265 miRNA gene http://purl.obolibrary.org/obo/SO_0001265 stRNA gene http://purl.obolibrary.org/obo/SO_0001265 stRNA_gene http://purl.obolibrary.org/obo/SO_0001265 sequence http://purl.obolibrary.org/obo/SO_0001265 SO:0001265 http://purl.obolibrary.org/obo/SO_0001265 miRNA_gene http://purl.obolibrary.org/obo/SO_0001266 scRNA gene http://purl.obolibrary.org/obo/SO_0001266 sequence http://purl.obolibrary.org/obo/SO_0001266 SO:0001266 http://purl.obolibrary.org/obo/SO_0001266 scRNA_gene http://purl.obolibrary.org/obo/SO_0001267 snoRNA gene http://purl.obolibrary.org/obo/SO_0001267 sequence http://purl.obolibrary.org/obo/SO_0001267 SO:0001267 http://purl.obolibrary.org/obo/SO_0001267 snoRNA_gene http://purl.obolibrary.org/obo/SO_0001268 snRNA gene http://purl.obolibrary.org/obo/SO_0001268 sequence http://purl.obolibrary.org/obo/SO_0001268 SO:0001268 http://purl.obolibrary.org/obo/SO_0001268 snRNA_gene http://purl.obolibrary.org/obo/SO_0001269 SRP RNA gene http://purl.obolibrary.org/obo/SO_0001269 sequence http://purl.obolibrary.org/obo/SO_0001269 SO:0001269 http://purl.obolibrary.org/obo/SO_0001269 SRP_RNA_gene http://purl.obolibrary.org/obo/SO_0001271 tmRNA gene http://purl.obolibrary.org/obo/SO_0001271 sequence http://purl.obolibrary.org/obo/SO_0001271 SO:0001271 http://purl.obolibrary.org/obo/SO_0001271 tmRNA_gene http://purl.obolibrary.org/obo/SO_0001272 tRNA gene http://purl.obolibrary.org/obo/SO_0001272 sequence http://purl.obolibrary.org/obo/SO_0001272 SO:0001272 http://purl.obolibrary.org/obo/SO_0001272 tRNA_gene SO:ke http://purl.obolibrary.org/obo/SO_0001273 A modified adenine is an adenine base feature that has been altered. http://purl.obolibrary.org/obo/SO_0001273 modified adenosine http://purl.obolibrary.org/obo/SO_0001273 sequence http://purl.obolibrary.org/obo/SO_0001273 SO:0001273 http://purl.obolibrary.org/obo/SO_0001273 modified_adenosine SO:ke http://purl.obolibrary.org/obo/SO_0001274 A modified inosine is an inosine base feature that has been altered. http://purl.obolibrary.org/obo/SO_0001274 modified inosine http://purl.obolibrary.org/obo/SO_0001274 sequence http://purl.obolibrary.org/obo/SO_0001274 SO:0001274 http://purl.obolibrary.org/obo/SO_0001274 modified_inosine SO:ke http://purl.obolibrary.org/obo/SO_0001275 A modified cytidine is a cytidine base feature which has been altered. http://purl.obolibrary.org/obo/SO_0001275 modified cytidine http://purl.obolibrary.org/obo/SO_0001275 sequence http://purl.obolibrary.org/obo/SO_0001275 SO:0001275 http://purl.obolibrary.org/obo/SO_0001275 modified_cytidine http://purl.obolibrary.org/obo/SO_0001276 modified guanosine http://purl.obolibrary.org/obo/SO_0001276 sequence http://purl.obolibrary.org/obo/SO_0001276 SO:0001276 http://purl.obolibrary.org/obo/SO_0001276 modified_guanosine http://purl.obolibrary.org/obo/SO_0001277 modified uridine http://purl.obolibrary.org/obo/SO_0001277 sequence http://purl.obolibrary.org/obo/SO_0001277 SO:0001277 http://purl.obolibrary.org/obo/SO_0001277 modified_uridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001278 1-methylinosine is a modified inosine. http://purl.obolibrary.org/obo/SO_0001278 RNAMOD:018 http://purl.obolibrary.org/obo/SO_0001278 1-methylinosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001278 m1I http://purl.obolibrary.org/obo/SO_0001278 one methylinosine http://purl.obolibrary.org/obo/SO_0001278 sequence http://purl.obolibrary.org/obo/SO_0001278 SO:0001278 http://purl.obolibrary.org/obo/SO_0001278 one_methylinosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001279 1,2'-O-dimethylinosine is a modified inosine. http://purl.obolibrary.org/obo/SO_0001279 RNAMOD:019 http://purl.obolibrary.org/obo/SO_0001279 1,2'-O-dimethylinosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001279 m'Im http://purl.obolibrary.org/obo/SO_0001279 one two prime O dimethylinosine http://purl.obolibrary.org/obo/SO_0001279 sequence http://purl.obolibrary.org/obo/SO_0001279 SO:0001279 http://purl.obolibrary.org/obo/SO_0001279 one_two_prime_O_dimethylinosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001280 2'-O-methylinosine is a modified inosine. http://purl.obolibrary.org/obo/SO_0001280 RNAMOD:081 http://purl.obolibrary.org/obo/SO_0001280 2'-O-methylinosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001280 Im http://purl.obolibrary.org/obo/SO_0001280 two prime O methylinosine http://purl.obolibrary.org/obo/SO_0001280 sequence http://purl.obolibrary.org/obo/SO_0001280 SO:0001280 http://purl.obolibrary.org/obo/SO_0001280 two_prime_O_methylinosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001281 3-methylcytidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001281 RNAMOD:020 http://purl.obolibrary.org/obo/SO_0001281 3-methylcytidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001281 m3C http://purl.obolibrary.org/obo/SO_0001281 three methylcytidine http://purl.obolibrary.org/obo/SO_0001281 sequence http://purl.obolibrary.org/obo/SO_0001281 SO:0001281 http://purl.obolibrary.org/obo/SO_0001281 three_methylcytidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001282 5-methylcytidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001282 RNAMOD:021 http://purl.obolibrary.org/obo/SO_0001282 5-methylcytidine http://purl.obolibrary.org/obo/SO_0001282 five methylcytidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001282 m5C http://purl.obolibrary.org/obo/SO_0001282 sequence http://purl.obolibrary.org/obo/SO_0001282 SO:0001282 http://purl.obolibrary.org/obo/SO_0001282 five_methylcytidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001283 2'-O-methylcytidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001283 RNAMOD:022 http://purl.obolibrary.org/obo/SO_0001283 2'-O-methylcytidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001283 Cm http://purl.obolibrary.org/obo/SO_0001283 two prime O methylcytidine http://purl.obolibrary.org/obo/SO_0001283 sequence http://purl.obolibrary.org/obo/SO_0001283 SO:0001283 http://purl.obolibrary.org/obo/SO_0001283 two_prime_O_methylcytidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001284 2-thiocytidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001284 RNAMOD:023 http://purl.obolibrary.org/obo/SO_0001284 2-thiocytidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001284 s2C http://purl.obolibrary.org/obo/SO_0001284 two thiocytidine http://purl.obolibrary.org/obo/SO_0001284 sequence http://purl.obolibrary.org/obo/SO_0001284 SO:0001284 http://purl.obolibrary.org/obo/SO_0001284 two_thiocytidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001285 N4-acetylcytidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001285 RNAMOD:024 http://purl.obolibrary.org/obo/SO_0001285 N4 acetylcytidine http://purl.obolibrary.org/obo/SO_0001285 N4-acetylcytidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001285 ac4C http://purl.obolibrary.org/obo/SO_0001285 sequence http://purl.obolibrary.org/obo/SO_0001285 SO:0001285 http://purl.obolibrary.org/obo/SO_0001285 N4_acetylcytidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001286 5-formylcytidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001286 RNAMOD:025 http://purl.obolibrary.org/obo/SO_0001286 5-formylcytidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001286 f5C http://purl.obolibrary.org/obo/SO_0001286 five formylcytidine http://purl.obolibrary.org/obo/SO_0001286 sequence http://purl.obolibrary.org/obo/SO_0001286 SO:0001286 http://purl.obolibrary.org/obo/SO_0001286 five_formylcytidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001287 5,2'-O-dimethylcytidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001287 RNAMOD:026 http://purl.obolibrary.org/obo/SO_0001287 5,2'-O-dimethylcytidine http://purl.obolibrary.org/obo/SO_0001287 five two prime O dimethylcytidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001287 m5Cm http://purl.obolibrary.org/obo/SO_0001287 sequence http://purl.obolibrary.org/obo/SO_0001287 SO:0001287 http://purl.obolibrary.org/obo/SO_0001287 five_two_prime_O_dimethylcytidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001288 N4-acetyl-2'-O-methylcytidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001288 RNAMOD:027 http://purl.obolibrary.org/obo/SO_0001288 N4 acetyl 2 prime O methylcytidine http://purl.obolibrary.org/obo/SO_0001288 N4-acetyl-2'-O-methylcytidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001288 ac4Cm http://purl.obolibrary.org/obo/SO_0001288 sequence http://purl.obolibrary.org/obo/SO_0001288 SO:0001288 http://purl.obolibrary.org/obo/SO_0001288 N4_acetyl_2_prime_O_methylcytidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001289 Lysidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001289 RNAMOD:028 wiki http://purl.obolibrary.org/obo/SO_0001289 http://en.wikipedia.org/wiki/Lysidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001289 k2C http://purl.obolibrary.org/obo/SO_0001289 sequence http://purl.obolibrary.org/obo/SO_0001289 SO:0001289 http://purl.obolibrary.org/obo/SO_0001289 lysidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001290 N4-methylcytidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001290 RNAMOD:082 http://purl.obolibrary.org/obo/SO_0001290 N4 methylcytidine http://purl.obolibrary.org/obo/SO_0001290 N4-methylcytidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001290 m4C http://purl.obolibrary.org/obo/SO_0001290 sequence http://purl.obolibrary.org/obo/SO_0001290 SO:0001290 http://purl.obolibrary.org/obo/SO_0001290 N4_methylcytidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001291 N4,2'-O-dimethylcytidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001291 RNAMOD:083 http://purl.obolibrary.org/obo/SO_0001291 N4 2 prime O dimethylcytidine http://purl.obolibrary.org/obo/SO_0001291 N4,2'-O-dimethylcytidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001291 m4Cm http://purl.obolibrary.org/obo/SO_0001291 sequence http://purl.obolibrary.org/obo/SO_0001291 SO:0001291 http://purl.obolibrary.org/obo/SO_0001291 N4_2_prime_O_dimethylcytidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001292 5-hydroxymethylcytidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001292 RNAMOD:084 http://purl.obolibrary.org/obo/SO_0001292 5-hydroxymethylcytidine http://purl.obolibrary.org/obo/SO_0001292 five hydroxymethylcytidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001292 hm5C http://purl.obolibrary.org/obo/SO_0001292 sequence http://purl.obolibrary.org/obo/SO_0001292 SO:0001292 http://purl.obolibrary.org/obo/SO_0001292 five_hydroxymethylcytidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001293 5-formyl-2'-O-methylcytidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001293 RNAMOD:095 http://purl.obolibrary.org/obo/SO_0001293 5-formyl-2'-O-methylcytidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001293 f5Cm http://purl.obolibrary.org/obo/SO_0001293 five formyl two prime O methylcytidine http://purl.obolibrary.org/obo/SO_0001293 sequence http://purl.obolibrary.org/obo/SO_0001293 SO:0001293 http://purl.obolibrary.org/obo/SO_0001293 five_formyl_two_prime_O_methylcytidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001294 N4_N4_2_prime_O_trimethylcytidine is a modified cytidine. http://purl.obolibrary.org/obo/SO_0001294 RNAMOD:107 http://purl.obolibrary.org/obo/SO_0001294 N4,N4,2'-O-trimethylcytidine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001294 m42Cm http://purl.obolibrary.org/obo/SO_0001294 sequence http://purl.obolibrary.org/obo/SO_0001294 SO:0001294 http://purl.obolibrary.org/obo/SO_0001294 N4_N4_2_prime_O_trimethylcytidine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001295 1_methyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001295 RNAMOD:001 http://purl.obolibrary.org/obo/SO_0001295 1-methyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001295 m1A http://purl.obolibrary.org/obo/SO_0001295 one methyladenosine http://purl.obolibrary.org/obo/SO_0001295 sequence http://purl.obolibrary.org/obo/SO_0001295 SO:0001295 http://purl.obolibrary.org/obo/SO_0001295 one_methyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001296 2_methyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001296 RNAMOD:002 http://purl.obolibrary.org/obo/SO_0001296 2-methyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001296 m2A http://purl.obolibrary.org/obo/SO_0001296 two methyladenosine http://purl.obolibrary.org/obo/SO_0001296 sequence http://purl.obolibrary.org/obo/SO_0001296 SO:0001296 http://purl.obolibrary.org/obo/SO_0001296 two_methyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001297 N6_methyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001297 RNAMOD:003 http://purl.obolibrary.org/obo/SO_0001297 N6 methyladenosine http://purl.obolibrary.org/obo/SO_0001297 N6-methyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001297 m6A http://purl.obolibrary.org/obo/SO_0001297 sequence http://purl.obolibrary.org/obo/SO_0001297 SO:0001297 http://purl.obolibrary.org/obo/SO_0001297 N6_methyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001298 2prime_O_methyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001298 RNAMOD:004 http://purl.obolibrary.org/obo/SO_0001298 2'-O-methyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001298 Am http://purl.obolibrary.org/obo/SO_0001298 two prime O methyladenosine http://purl.obolibrary.org/obo/SO_0001298 sequence http://purl.obolibrary.org/obo/SO_0001298 SO:0001298 http://purl.obolibrary.org/obo/SO_0001298 two_prime_O_methyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001299 2_methylthio_N6_methyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001299 RNAMOD:005 http://purl.obolibrary.org/obo/SO_0001299 2-methylthio-N6-methyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001299 ms2m6A http://purl.obolibrary.org/obo/SO_0001299 two methylthio N6 methyladenosine http://purl.obolibrary.org/obo/SO_0001299 sequence http://purl.obolibrary.org/obo/SO_0001299 SO:0001299 http://purl.obolibrary.org/obo/SO_0001299 two_methylthio_N6_methyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001300 N6_isopentenyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001300 RNAMOD:006 http://purl.obolibrary.org/obo/SO_0001300 N6 isopentenyladenosine http://purl.obolibrary.org/obo/SO_0001300 N6-isopentenyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001300 i6A http://purl.obolibrary.org/obo/SO_0001300 sequence http://purl.obolibrary.org/obo/SO_0001300 SO:0001300 http://purl.obolibrary.org/obo/SO_0001300 N6_isopentenyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001301 2_methylthio_N6_isopentenyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001301 RNAMOD:007 http://purl.obolibrary.org/obo/SO_0001301 2-methylthio-N6-isopentenyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001301 ms2i6A http://purl.obolibrary.org/obo/SO_0001301 two methylthio N6 isopentenyladenosine http://purl.obolibrary.org/obo/SO_0001301 sequence http://purl.obolibrary.org/obo/SO_0001301 SO:0001301 http://purl.obolibrary.org/obo/SO_0001301 two_methylthio_N6_isopentenyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001302 N6_cis_hydroxyisopentenyl_adenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001302 RNAMOD:008 http://purl.obolibrary.org/obo/SO_0001302 N6 cis hydroxyisopentenyl adenosine http://purl.obolibrary.org/obo/SO_0001302 N6-(cis-hydroxyisopentenyl)adenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001302 io6A http://purl.obolibrary.org/obo/SO_0001302 sequence http://purl.obolibrary.org/obo/SO_0001302 SO:0001302 http://purl.obolibrary.org/obo/SO_0001302 N6_cis_hydroxyisopentenyl_adenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001303 2_methylthio_N6_cis_hydroxyisopentenyl_adenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001303 RNAMOD:009 http://purl.obolibrary.org/obo/SO_0001303 2-methylthio-N6-(cis-hydroxyisopentenyl) adenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001303 ms2io6A http://purl.obolibrary.org/obo/SO_0001303 two methylthio N6 cis hydroxyisopentenyl adenosine http://purl.obolibrary.org/obo/SO_0001303 sequence http://purl.obolibrary.org/obo/SO_0001303 SO:0001303 http://purl.obolibrary.org/obo/SO_0001303 two_methylthio_N6_cis_hydroxyisopentenyl_adenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001304 N6_glycinylcarbamoyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001304 RNAMOD:010 http://purl.obolibrary.org/obo/SO_0001304 N6 glycinylcarbamoyladenosine http://purl.obolibrary.org/obo/SO_0001304 N6-glycinylcarbamoyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001304 g6A http://purl.obolibrary.org/obo/SO_0001304 sequence http://purl.obolibrary.org/obo/SO_0001304 SO:0001304 http://purl.obolibrary.org/obo/SO_0001304 N6_glycinylcarbamoyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001305 N6_threonylcarbamoyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001305 RNAMOD:011 http://purl.obolibrary.org/obo/SO_0001305 N6 threonylcarbamoyladenosine http://purl.obolibrary.org/obo/SO_0001305 N6-threonylcarbamoyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001305 t6A http://purl.obolibrary.org/obo/SO_0001305 sequence http://purl.obolibrary.org/obo/SO_0001305 SO:0001305 http://purl.obolibrary.org/obo/SO_0001305 N6_threonylcarbamoyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001306 2_methylthio_N6_threonyl_carbamoyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001306 RNAMOD:012 http://purl.obolibrary.org/obo/SO_0001306 2-methylthio-N6-threonyl carbamoyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001306 ms2t6A http://purl.obolibrary.org/obo/SO_0001306 two methylthio N6 threonyl carbamoyladenosine http://purl.obolibrary.org/obo/SO_0001306 sequence http://purl.obolibrary.org/obo/SO_0001306 SO:0001306 http://purl.obolibrary.org/obo/SO_0001306 two_methylthio_N6_threonyl_carbamoyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001307 N6_methyl_N6_threonylcarbamoyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001307 RNAMOD:013 http://purl.obolibrary.org/obo/SO_0001307 N6 methyl N6 threonylcarbamoyladenosine http://purl.obolibrary.org/obo/SO_0001307 N6-methyl-N6-threonylcarbamoyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001307 m6t6A http://purl.obolibrary.org/obo/SO_0001307 sequence http://purl.obolibrary.org/obo/SO_0001307 SO:0001307 http://purl.obolibrary.org/obo/SO_0001307 N6_methyl_N6_threonylcarbamoyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001308 N6_hydroxynorvalylcarbamoyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001308 RNAMOD:014 http://purl.obolibrary.org/obo/SO_0001308 N6 hydroxynorvalylcarbamoyladenosine http://purl.obolibrary.org/obo/SO_0001308 N6-hydroxynorvalylcarbamoyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001308 hn6A http://purl.obolibrary.org/obo/SO_0001308 sequence http://purl.obolibrary.org/obo/SO_0001308 SO:0001308 http://purl.obolibrary.org/obo/SO_0001308 N6_hydroxynorvalylcarbamoyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001309 2_methylthio_N6_hydroxynorvalyl_carbamoyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001309 RNAMOD:015 http://purl.obolibrary.org/obo/SO_0001309 2-methylthio-N6-hydroxynorvalyl carbamoyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001309 ms2hn6A http://purl.obolibrary.org/obo/SO_0001309 two methylthio N6 hydroxynorvalyl carbamoyladenosine http://purl.obolibrary.org/obo/SO_0001309 sequence http://purl.obolibrary.org/obo/SO_0001309 SO:0001309 http://purl.obolibrary.org/obo/SO_0001309 two_methylthio_N6_hydroxynorvalyl_carbamoyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001310 2prime_O_ribosyladenosine_phosphate is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001310 RNAMOD:016 http://purl.obolibrary.org/obo/SO_0001310 2'-O-ribosyladenosine (phosphate) http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001310 Ar(p) http://purl.obolibrary.org/obo/SO_0001310 two prime O ribosyladenosine phosphate http://purl.obolibrary.org/obo/SO_0001310 sequence http://purl.obolibrary.org/obo/SO_0001310 SO:0001310 http://purl.obolibrary.org/obo/SO_0001310 two_prime_O_ribosyladenosine_phosphate http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001311 N6_N6_dimethyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001311 RNAMOD:080 http://purl.obolibrary.org/obo/SO_0001311 N6,N6-dimethyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001311 m62A http://purl.obolibrary.org/obo/SO_0001311 sequence http://purl.obolibrary.org/obo/SO_0001311 SO:0001311 http://purl.obolibrary.org/obo/SO_0001311 N6_N6_dimethyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001312 N6_2prime_O_dimethyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001312 RNAMOD:088 http://purl.obolibrary.org/obo/SO_0001312 N6 2 prime O dimethyladenosine http://purl.obolibrary.org/obo/SO_0001312 N6,2'-O-dimethyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001312 m6Am http://purl.obolibrary.org/obo/SO_0001312 sequence http://purl.obolibrary.org/obo/SO_0001312 SO:0001312 http://purl.obolibrary.org/obo/SO_0001312 N6_2_prime_O_dimethyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001313 N6_N6_2prime_O_trimethyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001313 RNAMOD:089 http://purl.obolibrary.org/obo/SO_0001313 N6,N6,2'-O-trimethyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001313 m62Am http://purl.obolibrary.org/obo/SO_0001313 sequence http://purl.obolibrary.org/obo/SO_0001313 SO:0001313 http://purl.obolibrary.org/obo/SO_0001313 N6_N6_2_prime_O_trimethyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001314 1,2'-O-dimethyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001314 RNAMOD:097 http://purl.obolibrary.org/obo/SO_0001314 1,2'-O-dimethyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001314 m1Am http://purl.obolibrary.org/obo/SO_0001314 one two prime O dimethyladenosine http://purl.obolibrary.org/obo/SO_0001314 sequence http://purl.obolibrary.org/obo/SO_0001314 SO:0001314 http://purl.obolibrary.org/obo/SO_0001314 one_two_prime_O_dimethyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001315 N6_acetyladenosine is a modified adenosine. http://purl.obolibrary.org/obo/SO_0001315 RNAMOD:102 http://purl.obolibrary.org/obo/SO_0001315 N6 acetyladenosine http://purl.obolibrary.org/obo/SO_0001315 N6-acetyladenosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001315 ac6A http://purl.obolibrary.org/obo/SO_0001315 sequence http://purl.obolibrary.org/obo/SO_0001315 SO:0001315 http://purl.obolibrary.org/obo/SO_0001315 N6_acetyladenosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001316 7-deazaguanosine is a modified guanosine. http://purl.obolibrary.org/obo/SO_0001316 seven deazaguanosine http://purl.obolibrary.org/obo/SO_0001316 sequence http://purl.obolibrary.org/obo/SO_0001316 7-deazaguanosine http://purl.obolibrary.org/obo/SO_0001316 SO:0001316 http://purl.obolibrary.org/obo/SO_0001316 seven_deazaguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001317 Queuosine is a modified 7-deazoguanosine. http://purl.obolibrary.org/obo/SO_0001317 RNAMOD:043 wiki http://purl.obolibrary.org/obo/SO_0001317 http://en.wikipedia.org/wiki/Queuosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001317 Q http://purl.obolibrary.org/obo/SO_0001317 sequence http://purl.obolibrary.org/obo/SO_0001317 SO:0001317 http://purl.obolibrary.org/obo/SO_0001317 queuosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001318 Epoxyqueuosine is a modified 7-deazoguanosine. http://purl.obolibrary.org/obo/SO_0001318 RNAMOD:044 http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001318 eQ http://purl.obolibrary.org/obo/SO_0001318 sequence http://purl.obolibrary.org/obo/SO_0001318 SO:0001318 http://purl.obolibrary.org/obo/SO_0001318 epoxyqueuosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001319 Galactosyl_queuosine is a modified 7-deazoguanosine. http://purl.obolibrary.org/obo/SO_0001319 RNAMOD:045 http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001319 galQ http://purl.obolibrary.org/obo/SO_0001319 galactosyl queuosine http://purl.obolibrary.org/obo/SO_0001319 galactosyl-queuosine http://purl.obolibrary.org/obo/SO_0001319 sequence http://purl.obolibrary.org/obo/SO_0001319 SO:0001319 http://purl.obolibrary.org/obo/SO_0001319 galactosyl_queuosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001320 Mannosyl_queuosine is a modified 7-deazoguanosine. http://purl.obolibrary.org/obo/SO_0001320 RNAMOD:046 http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001320 manQ http://purl.obolibrary.org/obo/SO_0001320 mannosyl queuosine http://purl.obolibrary.org/obo/SO_0001320 mannosyl-queuosine http://purl.obolibrary.org/obo/SO_0001320 sequence http://purl.obolibrary.org/obo/SO_0001320 SO:0001320 http://purl.obolibrary.org/obo/SO_0001320 mannosyl_queuosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001321 7_cyano_7_deazaguanosine is a modified 7-deazoguanosine. http://purl.obolibrary.org/obo/SO_0001321 RNAMOD:047 http://purl.obolibrary.org/obo/SO_0001321 7-cyano-7-deazaguanosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001321 preQ0 http://purl.obolibrary.org/obo/SO_0001321 seven cyano seven deazaguanosine http://purl.obolibrary.org/obo/SO_0001321 sequence http://purl.obolibrary.org/obo/SO_0001321 SO:0001321 http://purl.obolibrary.org/obo/SO_0001321 seven_cyano_seven_deazaguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001322 7_aminomethyl_7_deazaguanosine is a modified 7-deazoguanosine. http://purl.obolibrary.org/obo/SO_0001322 RNAMOD:048 http://purl.obolibrary.org/obo/SO_0001322 7-aminomethyl-7-deazaguanosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001322 preQ1 http://purl.obolibrary.org/obo/SO_0001322 seven aminomethyl seven deazaguanosine http://purl.obolibrary.org/obo/SO_0001322 sequence http://purl.obolibrary.org/obo/SO_0001322 SO:0001322 http://purl.obolibrary.org/obo/SO_0001322 seven_aminomethyl_seven_deazaguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001323 Archaeosine is a modified 7-deazoguanosine. http://purl.obolibrary.org/obo/SO_0001323 RNAMOD:049 http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001323 G+ http://purl.obolibrary.org/obo/SO_0001323 sequence http://purl.obolibrary.org/obo/SO_0001323 SO:0001323 http://purl.obolibrary.org/obo/SO_0001323 archaeosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001324 1_methylguanosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001324 RNAMOD:029 http://purl.obolibrary.org/obo/SO_0001324 1-methylguanosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001324 m1G http://purl.obolibrary.org/obo/SO_0001324 one methylguanosine http://purl.obolibrary.org/obo/SO_0001324 sequence http://purl.obolibrary.org/obo/SO_0001324 SO:0001324 http://purl.obolibrary.org/obo/SO_0001324 one_methylguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001325 N2_methylguanosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001325 RNAMOD:030 http://purl.obolibrary.org/obo/SO_0001325 N2 methylguanosine http://purl.obolibrary.org/obo/SO_0001325 N2-methylguanosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001325 m2G http://purl.obolibrary.org/obo/SO_0001325 sequence http://purl.obolibrary.org/obo/SO_0001325 SO:0001325 http://purl.obolibrary.org/obo/SO_0001325 N2_methylguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001326 7_methylguanosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001326 RNAMOD:031 http://purl.obolibrary.org/obo/SO_0001326 7-methylguanosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001326 m7G http://purl.obolibrary.org/obo/SO_0001326 seven methylguanosine http://purl.obolibrary.org/obo/SO_0001326 sequence http://purl.obolibrary.org/obo/SO_0001326 SO:0001326 http://purl.obolibrary.org/obo/SO_0001326 seven_methylguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001327 2prime_O_methylguanosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001327 RNAMOD:032 http://purl.obolibrary.org/obo/SO_0001327 2'-O-methylguanosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001327 Gm http://purl.obolibrary.org/obo/SO_0001327 two prime O methylguanosine http://purl.obolibrary.org/obo/SO_0001327 sequence http://purl.obolibrary.org/obo/SO_0001327 SO:0001327 http://purl.obolibrary.org/obo/SO_0001327 two_prime_O_methylguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001328 N2_N2_dimethylguanosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001328 RNAMOD:033 http://purl.obolibrary.org/obo/SO_0001328 N2,N2-dimethylguanosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001328 m22G http://purl.obolibrary.org/obo/SO_0001328 sequence http://purl.obolibrary.org/obo/SO_0001328 SO:0001328 http://purl.obolibrary.org/obo/SO_0001328 N2_N2_dimethylguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001329 N2_2prime_O_dimethylguanosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001329 RNAMOD:034 http://purl.obolibrary.org/obo/SO_0001329 N2 2 prime O dimethylguanosine http://purl.obolibrary.org/obo/SO_0001329 N2,2'-O-dimethylguanosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001329 m2Gm http://purl.obolibrary.org/obo/SO_0001329 sequence http://purl.obolibrary.org/obo/SO_0001329 SO:0001329 http://purl.obolibrary.org/obo/SO_0001329 N2_2_prime_O_dimethylguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001330 N2_N2_2prime_O_trimethylguanosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001330 RNAMOD:035 http://purl.obolibrary.org/obo/SO_0001330 N2,N2,2'-O-trimethylguanosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001330 m22Gmv http://purl.obolibrary.org/obo/SO_0001330 sequence http://purl.obolibrary.org/obo/SO_0001330 SO:0001330 http://purl.obolibrary.org/obo/SO_0001330 N2_N2_2_prime_O_trimethylguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001331 2prime_O_ribosylguanosine_phosphate is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001331 RNAMOD:036 http://purl.obolibrary.org/obo/SO_0001331 2'-O-ribosylguanosine (phosphate) http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001331 Gr(p) http://purl.obolibrary.org/obo/SO_0001331 two prime O ribosylguanosine phosphate http://purl.obolibrary.org/obo/SO_0001331 sequence http://purl.obolibrary.org/obo/SO_0001331 SO:0001331 http://purl.obolibrary.org/obo/SO_0001331 two_prime_O_ribosylguanosine_phosphate http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001332 Wybutosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001332 RNAMOD:037 http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001332 yW http://purl.obolibrary.org/obo/SO_0001332 sequence http://purl.obolibrary.org/obo/SO_0001332 SO:0001332 http://purl.obolibrary.org/obo/SO_0001332 wybutosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001333 Peroxywybutosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001333 RNAMOD:038 http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001333 o2yW http://purl.obolibrary.org/obo/SO_0001333 sequence http://purl.obolibrary.org/obo/SO_0001333 SO:0001333 http://purl.obolibrary.org/obo/SO_0001333 peroxywybutosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001334 Hydroxywybutosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001334 RNAMOD:039 http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001334 OHyW http://purl.obolibrary.org/obo/SO_0001334 sequence http://purl.obolibrary.org/obo/SO_0001334 SO:0001334 http://purl.obolibrary.org/obo/SO_0001334 hydroxywybutosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001335 Undermodified_hydroxywybutosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001335 RNAMOD:040 http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001335 OHyW* http://purl.obolibrary.org/obo/SO_0001335 undermodified hydroxywybutosine http://purl.obolibrary.org/obo/SO_0001335 sequence http://purl.obolibrary.org/obo/SO_0001335 SO:0001335 http://purl.obolibrary.org/obo/SO_0001335 undermodified_hydroxywybutosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001336 Wyosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001336 RNAMOD:041 http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001336 IMG http://purl.obolibrary.org/obo/SO_0001336 sequence http://purl.obolibrary.org/obo/SO_0001336 SO:0001336 http://purl.obolibrary.org/obo/SO_0001336 wyosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001337 Methylwyosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001337 RNAMOD:042 http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001337 mimG http://purl.obolibrary.org/obo/SO_0001337 sequence http://purl.obolibrary.org/obo/SO_0001337 SO:0001337 http://purl.obolibrary.org/obo/SO_0001337 methylwyosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001338 N2_7_dimethylguanosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001338 RNAMOD:090 http://purl.obolibrary.org/obo/SO_0001338 N2 7 dimethylguanosine http://purl.obolibrary.org/obo/SO_0001338 N2,7-dimethylguanosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001338 m2,7G http://purl.obolibrary.org/obo/SO_0001338 sequence http://purl.obolibrary.org/obo/SO_0001338 SO:0001338 http://purl.obolibrary.org/obo/SO_0001338 N2_7_dimethylguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001339 N2_N2_7_trimethylguanosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001339 RNAMOD:091 http://purl.obolibrary.org/obo/SO_0001339 N2,N2,7-trimethylguanosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001339 m2,2,7G http://purl.obolibrary.org/obo/SO_0001339 sequence http://purl.obolibrary.org/obo/SO_0001339 SO:0001339 http://purl.obolibrary.org/obo/SO_0001339 N2_N2_7_trimethylguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001340 1_2prime_O_dimethylguanosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001340 RNAMOD:096 http://purl.obolibrary.org/obo/SO_0001340 1,2'-O-dimethylguanosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001340 m1Gm http://purl.obolibrary.org/obo/SO_0001340 one two prime O dimethylguanosine http://purl.obolibrary.org/obo/SO_0001340 sequence http://purl.obolibrary.org/obo/SO_0001340 SO:0001340 http://purl.obolibrary.org/obo/SO_0001340 one_two_prime_O_dimethylguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001341 4_demethylwyosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001341 RNAMOD:100 http://purl.obolibrary.org/obo/SO_0001341 4-demethylwyosine http://purl.obolibrary.org/obo/SO_0001341 four demethylwyosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001341 imG-14 http://purl.obolibrary.org/obo/SO_0001341 sequence http://purl.obolibrary.org/obo/SO_0001341 SO:0001341 http://purl.obolibrary.org/obo/SO_0001341 four_demethylwyosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001342 Isowyosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001342 RNAMOD:101 http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001342 imG2 http://purl.obolibrary.org/obo/SO_0001342 sequence http://purl.obolibrary.org/obo/SO_0001342 SO:0001342 http://purl.obolibrary.org/obo/SO_0001342 isowyosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001343 N2_7_2prirme_O_trimethylguanosine is a modified guanosine base feature. http://purl.obolibrary.org/obo/SO_0001343 RNAMOD:106 http://purl.obolibrary.org/obo/SO_0001343 N2 7 2prirme O trimethylguanosine http://purl.obolibrary.org/obo/SO_0001343 N2,7,2'-O-trimethylguanosine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001343 m2,7Gm http://purl.obolibrary.org/obo/SO_0001343 sequence http://purl.obolibrary.org/obo/SO_0001343 SO:0001343 http://purl.obolibrary.org/obo/SO_0001343 N2_7_2prirme_O_trimethylguanosine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001344 5_methyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001344 RNAMOD:052 wiki http://purl.obolibrary.org/obo/SO_0001344 http://en.wikipedia.org/wiki/5-methyluridine http://purl.obolibrary.org/obo/SO_0001344 5-methyluridine http://purl.obolibrary.org/obo/SO_0001344 five methyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001344 m5U http://purl.obolibrary.org/obo/SO_0001344 sequence http://purl.obolibrary.org/obo/SO_0001344 SO:0001344 http://purl.obolibrary.org/obo/SO_0001344 five_methyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001345 2prime_O_methyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001345 RNAMOD:053 http://purl.obolibrary.org/obo/SO_0001345 2'-O-methyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001345 Um http://purl.obolibrary.org/obo/SO_0001345 two prime O methyluridine http://purl.obolibrary.org/obo/SO_0001345 sequence http://purl.obolibrary.org/obo/SO_0001345 SO:0001345 http://purl.obolibrary.org/obo/SO_0001345 two_prime_O_methyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001346 5_2_prime_O_dimethyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001346 RNAMOD:054 http://purl.obolibrary.org/obo/SO_0001346 5,2'-O-dimethyluridine http://purl.obolibrary.org/obo/SO_0001346 five two prime O dimethyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001346 m5Um http://purl.obolibrary.org/obo/SO_0001346 sequence http://purl.obolibrary.org/obo/SO_0001346 SO:0001346 http://purl.obolibrary.org/obo/SO_0001346 five_two_prime_O_dimethyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001347 1_methylpseudouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001347 RNAMOD:055 http://purl.obolibrary.org/obo/SO_0001347 1-methylpseudouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001347 m1Y http://purl.obolibrary.org/obo/SO_0001347 one methylpseudouridine http://purl.obolibrary.org/obo/SO_0001347 sequence http://purl.obolibrary.org/obo/SO_0001347 SO:0001347 http://purl.obolibrary.org/obo/SO_0001347 one_methylpseudouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001348 2prime_O_methylpseudouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001348 RNAMOD:056 http://purl.obolibrary.org/obo/SO_0001348 2'-O-methylpseudouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001348 Ym http://purl.obolibrary.org/obo/SO_0001348 two prime O methylpseudouridine http://purl.obolibrary.org/obo/SO_0001348 sequence http://purl.obolibrary.org/obo/SO_0001348 SO:0001348 http://purl.obolibrary.org/obo/SO_0001348 two_prime_O_methylpseudouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001349 2_thiouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001349 RNAMOD:057 http://purl.obolibrary.org/obo/SO_0001349 2-thiouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001349 s2U http://purl.obolibrary.org/obo/SO_0001349 two thiouridine http://purl.obolibrary.org/obo/SO_0001349 sequence http://purl.obolibrary.org/obo/SO_0001349 SO:0001349 http://purl.obolibrary.org/obo/SO_0001349 two_thiouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001350 4_thiouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001350 RNAMOD:058 http://purl.obolibrary.org/obo/SO_0001350 4-thiouridine http://purl.obolibrary.org/obo/SO_0001350 four thiouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001350 s4U http://purl.obolibrary.org/obo/SO_0001350 sequence http://purl.obolibrary.org/obo/SO_0001350 SO:0001350 http://purl.obolibrary.org/obo/SO_0001350 four_thiouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001351 5_methyl_2_thiouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001351 RNAMOD:059 http://purl.obolibrary.org/obo/SO_0001351 5-methyl-2-thiouridine http://purl.obolibrary.org/obo/SO_0001351 five methyl 2 thiouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001351 m5s2U http://purl.obolibrary.org/obo/SO_0001351 sequence http://purl.obolibrary.org/obo/SO_0001351 SO:0001351 http://purl.obolibrary.org/obo/SO_0001351 five_methyl_2_thiouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001352 2_thio_2prime_O_methyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001352 RNAMOD:060 http://purl.obolibrary.org/obo/SO_0001352 2-thio-2'-O-methyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001352 s2Um http://purl.obolibrary.org/obo/SO_0001352 two thio two prime O methyluridine http://purl.obolibrary.org/obo/SO_0001352 sequence http://purl.obolibrary.org/obo/SO_0001352 SO:0001352 http://purl.obolibrary.org/obo/SO_0001352 two_thio_two_prime_O_methyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001353 3_3_amino_3_carboxypropyl_uridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001353 RNAMOD:061 http://purl.obolibrary.org/obo/SO_0001353 3-(3-amino-3-carboxypropyl)uridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001353 acp3U http://purl.obolibrary.org/obo/SO_0001353 sequence http://purl.obolibrary.org/obo/SO_0001353 SO:0001353 http://purl.obolibrary.org/obo/SO_0001353 three_three_amino_three_carboxypropyl_uridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001354 5_hydroxyuridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001354 RNAMOD:060 http://purl.obolibrary.org/obo/SO_0001354 5-hydroxyuridine http://purl.obolibrary.org/obo/SO_0001354 five hydroxyuridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001354 ho5U http://purl.obolibrary.org/obo/SO_0001354 sequence http://purl.obolibrary.org/obo/SO_0001354 SO:0001354 http://purl.obolibrary.org/obo/SO_0001354 five_hydroxyuridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001355 5_methoxyuridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001355 RNAMOD:063 http://purl.obolibrary.org/obo/SO_0001355 5-methoxyuridine http://purl.obolibrary.org/obo/SO_0001355 five methoxyuridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001355 mo5U http://purl.obolibrary.org/obo/SO_0001355 sequence http://purl.obolibrary.org/obo/SO_0001355 SO:0001355 http://purl.obolibrary.org/obo/SO_0001355 five_methoxyuridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001356 Uridine_5_oxyacetic_acid is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001356 RNAMOD:064 http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001356 cmo5U http://purl.obolibrary.org/obo/SO_0001356 uridine 5-oxyacetic acid http://purl.obolibrary.org/obo/SO_0001356 uridine five oxyacetic acid http://purl.obolibrary.org/obo/SO_0001356 sequence http://purl.obolibrary.org/obo/SO_0001356 SO:0001356 http://purl.obolibrary.org/obo/SO_0001356 uridine_five_oxyacetic_acid http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001357 Uridine_5_oxyacetic_acid_methyl_ester is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001357 RNAMOD:065 http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001357 mcmo5U http://purl.obolibrary.org/obo/SO_0001357 uridine 5-oxyacetic acid methyl ester http://purl.obolibrary.org/obo/SO_0001357 uridine five oxyacetic acid methyl ester http://purl.obolibrary.org/obo/SO_0001357 sequence http://purl.obolibrary.org/obo/SO_0001357 SO:0001357 http://purl.obolibrary.org/obo/SO_0001357 uridine_five_oxyacetic_acid_methyl_ester http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001358 5_carboxyhydroxymethyl_uridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001358 RNAMOD:066 http://purl.obolibrary.org/obo/SO_0001358 5-(carboxyhydroxymethyl)uridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001358 chm5U http://purl.obolibrary.org/obo/SO_0001358 five carboxyhydroxymethyl uridine http://purl.obolibrary.org/obo/SO_0001358 sequence http://purl.obolibrary.org/obo/SO_0001358 SO:0001358 http://purl.obolibrary.org/obo/SO_0001358 five_carboxyhydroxymethyl_uridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001359 5_carboxyhydroxymethyl_uridine_methyl_ester is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001359 RNAMOD:067 http://purl.obolibrary.org/obo/SO_0001359 5-(carboxyhydroxymethyl)uridine methyl ester http://purl.obolibrary.org/obo/SO_0001359 five carboxyhydroxymethyl uridine methyl ester http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001359 mchm5U http://purl.obolibrary.org/obo/SO_0001359 sequence http://purl.obolibrary.org/obo/SO_0001359 SO:0001359 http://purl.obolibrary.org/obo/SO_0001359 five_carboxyhydroxymethyl_uridine_methyl_ester http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001360 Five_methoxycarbonylmethyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001360 RNAMOD:068 http://purl.obolibrary.org/obo/SO_0001360 5-methoxycarbonylmethyluridine http://purl.obolibrary.org/obo/SO_0001360 five methoxycarbonylmethyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001360 mcm5U http://purl.obolibrary.org/obo/SO_0001360 sequence http://purl.obolibrary.org/obo/SO_0001360 SO:0001360 http://purl.obolibrary.org/obo/SO_0001360 five_methoxycarbonylmethyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001361 Five_methoxycarbonylmethyl_2_prime_O_methyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001361 RNAMOD:069 http://purl.obolibrary.org/obo/SO_0001361 5-methoxycarbonylmethyl-2'-O-methyluridine http://purl.obolibrary.org/obo/SO_0001361 five methoxycarbonylmethyl two prime O methyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001361 mcm5Um http://purl.obolibrary.org/obo/SO_0001361 sequence http://purl.obolibrary.org/obo/SO_0001361 SO:0001361 http://purl.obolibrary.org/obo/SO_0001361 five_methoxycarbonylmethyl_two_prime_O_methyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001362 5_methoxycarbonylmethyl_2_thiouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001362 RNAMOD:070 http://purl.obolibrary.org/obo/SO_0001362 5-methoxycarbonylmethyl-2-thiouridine http://purl.obolibrary.org/obo/SO_0001362 five methoxycarbonylmethyl two thiouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001362 mcm5s2U http://purl.obolibrary.org/obo/SO_0001362 sequence http://purl.obolibrary.org/obo/SO_0001362 SO:0001362 http://purl.obolibrary.org/obo/SO_0001362 five_methoxycarbonylmethyl_two_thiouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001363 5_aminomethyl_2_thiouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001363 RNAMOD:071 http://purl.obolibrary.org/obo/SO_0001363 5-aminomethyl-2-thiouridine http://purl.obolibrary.org/obo/SO_0001363 five aminomethyl two thiouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001363 nm5s2U http://purl.obolibrary.org/obo/SO_0001363 sequence http://purl.obolibrary.org/obo/SO_0001363 SO:0001363 http://purl.obolibrary.org/obo/SO_0001363 five_aminomethyl_two_thiouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001364 5_methylaminomethyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001364 RNAMOD:072 http://purl.obolibrary.org/obo/SO_0001364 5-methylaminomethyluridine http://purl.obolibrary.org/obo/SO_0001364 five methylaminomethyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001364 mnm5U http://purl.obolibrary.org/obo/SO_0001364 sequence http://purl.obolibrary.org/obo/SO_0001364 SO:0001364 http://purl.obolibrary.org/obo/SO_0001364 five_methylaminomethyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001365 5_methylaminomethyl_2_thiouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001365 RNAMOD:073 http://purl.obolibrary.org/obo/SO_0001365 5-methylaminomethyl-2-thiouridine http://purl.obolibrary.org/obo/SO_0001365 five methylaminomethyl two thiouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001365 mnm5s2U http://purl.obolibrary.org/obo/SO_0001365 sequence http://purl.obolibrary.org/obo/SO_0001365 SO:0001365 http://purl.obolibrary.org/obo/SO_0001365 five_methylaminomethyl_two_thiouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001366 5_methylaminomethyl_2_selenouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001366 RNAMOD:074 http://purl.obolibrary.org/obo/SO_0001366 5-methylaminomethyl-2-selenouridine http://purl.obolibrary.org/obo/SO_0001366 five methylaminomethyl two selenouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001366 mnm5se2U http://purl.obolibrary.org/obo/SO_0001366 sequence http://purl.obolibrary.org/obo/SO_0001366 SO:0001366 http://purl.obolibrary.org/obo/SO_0001366 five_methylaminomethyl_two_selenouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001367 5_carbamoylmethyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001367 RNAMOD:075 http://purl.obolibrary.org/obo/SO_0001367 5-carbamoylmethyluridine http://purl.obolibrary.org/obo/SO_0001367 five carbamoylmethyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001367 ncm5U http://purl.obolibrary.org/obo/SO_0001367 sequence http://purl.obolibrary.org/obo/SO_0001367 SO:0001367 http://purl.obolibrary.org/obo/SO_0001367 five_carbamoylmethyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001368 5_carbamoylmethyl_2_prime_O_methyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001368 RNAMOD:076 http://purl.obolibrary.org/obo/SO_0001368 5-carbamoylmethyl-2'-O-methyluridine http://purl.obolibrary.org/obo/SO_0001368 five carbamoylmethyl two prime O methyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001368 ncm5Um http://purl.obolibrary.org/obo/SO_0001368 sequence http://purl.obolibrary.org/obo/SO_0001368 SO:0001368 http://purl.obolibrary.org/obo/SO_0001368 five_carbamoylmethyl_two_prime_O_methyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001369 5_carboxymethylaminomethyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001369 RNAMOD:077 http://purl.obolibrary.org/obo/SO_0001369 5-carboxymethylaminomethyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001369 cmnm5U http://purl.obolibrary.org/obo/SO_0001369 five carboxymethylaminomethyluridine http://purl.obolibrary.org/obo/SO_0001369 sequence http://purl.obolibrary.org/obo/SO_0001369 SO:0001369 http://purl.obolibrary.org/obo/SO_0001369 five_carboxymethylaminomethyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001370 5_carboxymethylaminomethyl_2_prime_O_methyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001370 RNAMOD:078 http://purl.obolibrary.org/obo/SO_0001370 5-carboxymethylaminomethyl- 2'-O-methyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001370 cmnm5Um http://purl.obolibrary.org/obo/SO_0001370 five carboxymethylaminomethyl two prime O methyluridine http://purl.obolibrary.org/obo/SO_0001370 sequence http://purl.obolibrary.org/obo/SO_0001370 SO:0001370 http://purl.obolibrary.org/obo/SO_0001370 five_carboxymethylaminomethyl_two_prime_O_methyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001371 5_carboxymethylaminomethyl_2_thiouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001371 RNAMOD:079 http://purl.obolibrary.org/obo/SO_0001371 5-carboxymethylaminomethyl-2-thiouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001371 cmnm5s2U http://purl.obolibrary.org/obo/SO_0001371 five carboxymethylaminomethyl two thiouridine http://purl.obolibrary.org/obo/SO_0001371 sequence http://purl.obolibrary.org/obo/SO_0001371 SO:0001371 http://purl.obolibrary.org/obo/SO_0001371 five_carboxymethylaminomethyl_two_thiouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001372 3_methyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001372 RNAMOD:085 http://purl.obolibrary.org/obo/SO_0001372 3-methyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001372 m3U http://purl.obolibrary.org/obo/SO_0001372 three methyluridine http://purl.obolibrary.org/obo/SO_0001372 sequence http://purl.obolibrary.org/obo/SO_0001372 SO:0001372 http://purl.obolibrary.org/obo/SO_0001372 three_methyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001373 1_methyl_3_3_amino_3_carboxypropyl_pseudouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001373 RNAMOD:086 http://purl.obolibrary.org/obo/SO_0001373 1-methyl-3-(3-amino-3-carboxypropyl) pseudouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001373 m1acp3Y http://purl.obolibrary.org/obo/SO_0001373 sequence http://purl.obolibrary.org/obo/SO_0001373 SO:0001373 http://purl.obolibrary.org/obo/SO_0001373 one_methyl_three_three_amino_three_carboxypropyl_pseudouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001374 5_carboxymethyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001374 RNAMOD:087 http://purl.obolibrary.org/obo/SO_0001374 5-carboxymethyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001374 cm5U http://purl.obolibrary.org/obo/SO_0001374 five carboxymethyluridine http://purl.obolibrary.org/obo/SO_0001374 sequence http://purl.obolibrary.org/obo/SO_0001374 SO:0001374 http://purl.obolibrary.org/obo/SO_0001374 five_carboxymethyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001375 3_2prime_O_dimethyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001375 RNAMOD:092 http://purl.obolibrary.org/obo/SO_0001375 3,2'-O-dimethyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001375 m3Um http://purl.obolibrary.org/obo/SO_0001375 three two prime O dimethyluridine http://purl.obolibrary.org/obo/SO_0001375 sequence http://purl.obolibrary.org/obo/SO_0001375 SO:0001375 http://purl.obolibrary.org/obo/SO_0001375 three_two_prime_O_dimethyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001376 5_methyldihydrouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001376 RNAMOD:093 http://purl.obolibrary.org/obo/SO_0001376 5-methyldihydrouridine http://purl.obolibrary.org/obo/SO_0001376 five methyldihydrouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001376 m5D http://purl.obolibrary.org/obo/SO_0001376 sequence http://purl.obolibrary.org/obo/SO_0001376 SO:0001376 http://purl.obolibrary.org/obo/SO_0001376 five_methyldihydrouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001377 3_methylpseudouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001377 RNAMOD:094 http://purl.obolibrary.org/obo/SO_0001377 3-methylpseudouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001377 m3Y http://purl.obolibrary.org/obo/SO_0001377 three methylpseudouridine http://purl.obolibrary.org/obo/SO_0001377 sequence http://purl.obolibrary.org/obo/SO_0001377 SO:0001377 http://purl.obolibrary.org/obo/SO_0001377 three_methylpseudouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001378 5_taurinomethyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001378 RNAMOD:098 http://purl.obolibrary.org/obo/SO_0001378 5-taurinomethyluridine http://purl.obolibrary.org/obo/SO_0001378 five taurinomethyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001378 tm5U http://purl.obolibrary.org/obo/SO_0001378 sequence http://purl.obolibrary.org/obo/SO_0001378 SO:0001378 http://purl.obolibrary.org/obo/SO_0001378 five_taurinomethyluridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001379 5_taurinomethyl_2_thiouridineis a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001379 RNAMOD:099 http://purl.obolibrary.org/obo/SO_0001379 5-taurinomethyl-2-thiouridine http://purl.obolibrary.org/obo/SO_0001379 five taurinomethyl two thiouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001379 tm5s2U http://purl.obolibrary.org/obo/SO_0001379 sequence http://purl.obolibrary.org/obo/SO_0001379 SO:0001379 http://purl.obolibrary.org/obo/SO_0001379 five_taurinomethyl_two_thiouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001380 5_isopentenylaminomethyl_uridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001380 RNAMOD:103 http://purl.obolibrary.org/obo/SO_0001380 5-(isopentenylaminomethyl)uridine http://purl.obolibrary.org/obo/SO_0001380 five isopentenylaminomethyl uridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001380 inm5U http://purl.obolibrary.org/obo/SO_0001380 sequence http://purl.obolibrary.org/obo/SO_0001380 SO:0001380 http://purl.obolibrary.org/obo/SO_0001380 five_isopentenylaminomethyl_uridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001381 5_isopentenylaminomethyl_2_thiouridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001381 RNAMOD:104 http://purl.obolibrary.org/obo/SO_0001381 5-(isopentenylaminomethyl)- 2-thiouridine http://purl.obolibrary.org/obo/SO_0001381 five isopentenylaminomethyl two thiouridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001381 inm5s2U http://purl.obolibrary.org/obo/SO_0001381 sequence http://purl.obolibrary.org/obo/SO_0001381 SO:0001381 http://purl.obolibrary.org/obo/SO_0001381 five_isopentenylaminomethyl_two_thiouridine http://library.med.utah.edu/RNAmods/ http://purl.obolibrary.org/obo/SO_0001382 5_isopentenylaminomethyl_2prime_O_methyluridine is a modified uridine base feature. http://purl.obolibrary.org/obo/SO_0001382 RNAMOD:105 http://purl.obolibrary.org/obo/SO_0001382 5-(isopentenylaminomethyl)- 2'-O-methyluridine http://purl.obolibrary.org/obo/SO_0001382 five isopentenylaminomethyl two prime O methyluridine http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://purl.obolibrary.org/obo/SO_0001382 inm5Um http://purl.obolibrary.org/obo/SO_0001382 sequence http://purl.obolibrary.org/obo/SO_0001382 SO:0001382 http://purl.obolibrary.org/obo/SO_0001382 five_isopentenylaminomethyl_two_prime_O_methyluridine SO:ke http://purl.obolibrary.org/obo/SO_0001383 A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues of a histone. http://purl.obolibrary.org/obo/SO_0001383 histone binding site http://purl.obolibrary.org/obo/SO_0001383 sequence http://purl.obolibrary.org/obo/SO_0001383 SO:0001383 http://purl.obolibrary.org/obo/SO_0001383 histone_binding_site http://purl.obolibrary.org/obo/SO_0001384 CDS fragment http://purl.obolibrary.org/obo/SO_0001384 incomplete CDS http://purl.obolibrary.org/obo/SO_0001384 sequence http://purl.obolibrary.org/obo/SO_0001384 SO:0001384 http://purl.obolibrary.org/obo/SO_0001384 CDS_fragment SO:ke http://purl.obolibrary.org/obo/SO_0001385 A post translationally modified amino acid feature. http://purl.obolibrary.org/obo/SO_0001385 modified amino acid feature http://purl.obolibrary.org/obo/SO_0001385 sequence http://purl.obolibrary.org/obo/SO_0001385 SO:0001385 http://purl.obolibrary.org/obo/SO_0001385 modified_amino_acid_feature SO:ke http://purl.obolibrary.org/obo/SO_0001386 A post translationally modified glycine amino acid feature. http://purl.obolibrary.org/obo/SO_0001386 MOD:00908 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001386 ModGly http://purl.obolibrary.org/obo/SO_0001386 modified glycine http://purl.obolibrary.org/obo/SO_0001386 sequence http://purl.obolibrary.org/obo/SO_0001386 SO:0001386 http://purl.obolibrary.org/obo/SO_0001386 modified_glycine SO:ke http://purl.obolibrary.org/obo/SO_0001387 A post translationally modified alanine amino acid feature. http://purl.obolibrary.org/obo/SO_0001387 MOD:00901 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001387 ModAla http://purl.obolibrary.org/obo/SO_0001387 modified L alanine http://purl.obolibrary.org/obo/SO_0001387 modified L-alanine http://purl.obolibrary.org/obo/SO_0001387 sequence http://purl.obolibrary.org/obo/SO_0001387 SO:0001387 http://purl.obolibrary.org/obo/SO_0001387 modified_L_alanine SO:ke http://purl.obolibrary.org/obo/SO_0001388 A post translationally modified asparagine amino acid feature. http://purl.obolibrary.org/obo/SO_0001388 MOD:00903 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001388 ModAsn http://purl.obolibrary.org/obo/SO_0001388 modified L asparagine http://purl.obolibrary.org/obo/SO_0001388 modified L-asparagine http://purl.obolibrary.org/obo/SO_0001388 sequence http://purl.obolibrary.org/obo/SO_0001388 SO:0001388 http://purl.obolibrary.org/obo/SO_0001388 modified_L_asparagine SO:ke http://purl.obolibrary.org/obo/SO_0001389 A post translationally modified aspartic acid amino acid feature. http://purl.obolibrary.org/obo/SO_0001389 MOD:00904 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001389 ModAsp http://purl.obolibrary.org/obo/SO_0001389 modified L aspartic acid http://purl.obolibrary.org/obo/SO_0001389 modified L-aspartic acid http://purl.obolibrary.org/obo/SO_0001389 sequence http://purl.obolibrary.org/obo/SO_0001389 SO:0001389 http://purl.obolibrary.org/obo/SO_0001389 modified_L_aspartic_acid SO:ke http://purl.obolibrary.org/obo/SO_0001390 A post translationally modified cysteine amino acid feature. http://purl.obolibrary.org/obo/SO_0001390 MOD:00905 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001390 ModCys http://purl.obolibrary.org/obo/SO_0001390 modified L cysteine http://purl.obolibrary.org/obo/SO_0001390 modified L-cysteine http://purl.obolibrary.org/obo/SO_0001390 sequence http://purl.obolibrary.org/obo/SO_0001390 SO:0001390 http://purl.obolibrary.org/obo/SO_0001390 modified_L_cysteine http://purl.obolibrary.org/obo/SO_0001391 MOD:00906 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001391 ModGlu http://purl.obolibrary.org/obo/SO_0001391 modified L glutamic acid http://purl.obolibrary.org/obo/SO_0001391 modified L-glutamic acid http://purl.obolibrary.org/obo/SO_0001391 sequence http://purl.obolibrary.org/obo/SO_0001391 SO:0001391 http://purl.obolibrary.org/obo/SO_0001391 modified_L_glutamic_acid SO:ke http://purl.obolibrary.org/obo/SO_0001392 A post translationally modified threonine amino acid feature. http://purl.obolibrary.org/obo/SO_0001392 MOD:00917 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001392 ModThr http://purl.obolibrary.org/obo/SO_0001392 modified L threonine http://purl.obolibrary.org/obo/SO_0001392 modified L-threonine http://purl.obolibrary.org/obo/SO_0001392 sequence http://purl.obolibrary.org/obo/SO_0001392 SO:0001392 http://purl.obolibrary.org/obo/SO_0001392 modified_L_threonine SO:ke http://purl.obolibrary.org/obo/SO_0001393 A post translationally modified tryptophan amino acid feature. http://purl.obolibrary.org/obo/SO_0001393 MOD:00918 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001393 ModTrp http://purl.obolibrary.org/obo/SO_0001393 modified L tryptophan http://purl.obolibrary.org/obo/SO_0001393 modified L-tryptophan http://purl.obolibrary.org/obo/SO_0001393 sequence http://purl.obolibrary.org/obo/SO_0001393 SO:0001393 http://purl.obolibrary.org/obo/SO_0001393 modified_L_tryptophan SO:ke http://purl.obolibrary.org/obo/SO_0001394 A post translationally modified glutamine amino acid feature. http://purl.obolibrary.org/obo/SO_0001394 MOD:00907 http://purl.obolibrary.org/obo/SO_0001394 ModGln http://purl.obolibrary.org/obo/SO_0001394 modified L glutamine http://purl.obolibrary.org/obo/SO_0001394 modified L-glutamine http://purl.obolibrary.org/obo/SO_0001394 sequence http://purl.obolibrary.org/obo/SO_0001394 SO:0001394 http://purl.obolibrary.org/obo/SO_0001394 modified_L_glutamine SO:ke http://purl.obolibrary.org/obo/SO_0001395 A post translationally modified methionine amino acid feature. http://purl.obolibrary.org/obo/SO_0001395 MOD:00913 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001395 ModMet http://purl.obolibrary.org/obo/SO_0001395 modified L methionine http://purl.obolibrary.org/obo/SO_0001395 modified L-methionine http://purl.obolibrary.org/obo/SO_0001395 sequence http://purl.obolibrary.org/obo/SO_0001395 SO:0001395 http://purl.obolibrary.org/obo/SO_0001395 modified_L_methionine SO:ke http://purl.obolibrary.org/obo/SO_0001396 A post translationally modified isoleucine amino acid feature. http://purl.obolibrary.org/obo/SO_0001396 MOD:00910 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001396 ModIle http://purl.obolibrary.org/obo/SO_0001396 modified L isoleucine http://purl.obolibrary.org/obo/SO_0001396 modified L-isoleucine http://purl.obolibrary.org/obo/SO_0001396 sequence http://purl.obolibrary.org/obo/SO_0001396 SO:0001396 http://purl.obolibrary.org/obo/SO_0001396 modified_L_isoleucine SO:ke http://purl.obolibrary.org/obo/SO_0001397 A post translationally modified phenylalanine amino acid feature. http://purl.obolibrary.org/obo/SO_0001397 MOD:00914 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001397 ModPhe http://purl.obolibrary.org/obo/SO_0001397 modified L phenylalanine http://purl.obolibrary.org/obo/SO_0001397 modified L-phenylalanine http://purl.obolibrary.org/obo/SO_0001397 sequence http://purl.obolibrary.org/obo/SO_0001397 SO:0001397 http://purl.obolibrary.org/obo/SO_0001397 modified_L_phenylalanine SO:ke http://purl.obolibrary.org/obo/SO_0001398 A post translationally modified histidine amino acid feature. http://purl.obolibrary.org/obo/SO_0001398 MOD:00909 http://purl.obolibrary.org/obo/SO_0001398 ModHis http://purl.obolibrary.org/obo/SO_0001398 modified L histidine http://purl.obolibrary.org/obo/SO_0001398 modified L-histidine http://purl.obolibrary.org/obo/SO_0001398 sequence http://purl.obolibrary.org/obo/SO_0001398 SO:0001398 http://purl.obolibrary.org/obo/SO_0001398 modified_L_histidine SO:ke http://purl.obolibrary.org/obo/SO_0001399 A post translationally modified serine amino acid feature. http://www.psidev.info/index.php?q=node/104 http://purl.obolibrary.org/obo/SO_0001399 MOD:00916 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001399 MosSer http://purl.obolibrary.org/obo/SO_0001399 modified L serine http://purl.obolibrary.org/obo/SO_0001399 modified L-serine http://purl.obolibrary.org/obo/SO_0001399 sequence http://purl.obolibrary.org/obo/SO_0001399 SO:0001399 http://purl.obolibrary.org/obo/SO_0001399 modified_L_serine SO:ke http://purl.obolibrary.org/obo/SO_0001400 A post translationally modified lysine amino acid feature. http://purl.obolibrary.org/obo/SO_0001400 MOD:00912 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001400 ModLys http://purl.obolibrary.org/obo/SO_0001400 modified L lysine http://purl.obolibrary.org/obo/SO_0001400 modified L-lysine http://purl.obolibrary.org/obo/SO_0001400 sequence http://purl.obolibrary.org/obo/SO_0001400 SO:0001400 http://purl.obolibrary.org/obo/SO_0001400 modified_L_lysine SO:ke http://purl.obolibrary.org/obo/SO_0001401 A post translationally modified leucine amino acid feature. http://purl.obolibrary.org/obo/SO_0001401 MOD:00911 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001401 ModLeu http://purl.obolibrary.org/obo/SO_0001401 modified L leucine http://purl.obolibrary.org/obo/SO_0001401 modified L-leucine http://purl.obolibrary.org/obo/SO_0001401 sequence http://purl.obolibrary.org/obo/SO_0001401 SO:0001401 http://purl.obolibrary.org/obo/SO_0001401 modified_L_leucine SO:ke http://purl.obolibrary.org/obo/SO_0001402 A post translationally modified selenocysteine amino acid feature. http://purl.obolibrary.org/obo/SO_0001402 MOD:01158 http://purl.obolibrary.org/obo/SO_0001402 modified L selenocysteine http://purl.obolibrary.org/obo/SO_0001402 modified L-selenocysteine http://purl.obolibrary.org/obo/SO_0001402 sequence http://purl.obolibrary.org/obo/SO_0001402 SO:0001402 http://purl.obolibrary.org/obo/SO_0001402 modified_L_selenocysteine SO:ke http://purl.obolibrary.org/obo/SO_0001403 A post translationally modified valine amino acid feature. http://purl.obolibrary.org/obo/SO_0001403 MOD:00920 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001403 ModVal http://purl.obolibrary.org/obo/SO_0001403 modified L valine http://purl.obolibrary.org/obo/SO_0001403 modified L-valine http://purl.obolibrary.org/obo/SO_0001403 sequence http://purl.obolibrary.org/obo/SO_0001403 SO:0001403 http://purl.obolibrary.org/obo/SO_0001403 modified_L_valine SO:ke http://purl.obolibrary.org/obo/SO_0001404 A post translationally modified proline amino acid feature. http://purl.obolibrary.org/obo/SO_0001404 MOD:00915 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001404 ModPro http://purl.obolibrary.org/obo/SO_0001404 modified L proline http://purl.obolibrary.org/obo/SO_0001404 modified L-proline http://purl.obolibrary.org/obo/SO_0001404 sequence http://purl.obolibrary.org/obo/SO_0001404 SO:0001404 http://purl.obolibrary.org/obo/SO_0001404 modified_L_proline SO:ke http://purl.obolibrary.org/obo/SO_0001405 A post translationally modified tyrosine amino acid feature. http://purl.obolibrary.org/obo/SO_0001405 MOD:00919 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001405 ModTry http://purl.obolibrary.org/obo/SO_0001405 modified L tyrosine http://purl.obolibrary.org/obo/SO_0001405 modified L-tyrosine http://purl.obolibrary.org/obo/SO_0001405 sequence http://purl.obolibrary.org/obo/SO_0001405 SO:0001405 http://purl.obolibrary.org/obo/SO_0001405 modified_L_tyrosine SO:ke http://purl.obolibrary.org/obo/SO_0001406 A post translationally modified arginine amino acid feature. http://purl.obolibrary.org/obo/SO_0001406 MOD:00902 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD http://purl.obolibrary.org/obo/SO_0001406 ModArg http://purl.obolibrary.org/obo/SO_0001406 modified L arginine http://purl.obolibrary.org/obo/SO_0001406 modified L-arginine http://purl.obolibrary.org/obo/SO_0001406 sequence http://purl.obolibrary.org/obo/SO_0001406 SO:0001406 http://purl.obolibrary.org/obo/SO_0001406 modified_L_arginine SO:ke http://purl.obolibrary.org/obo/SO_0001407 An attribute describing the nature of a proteinaceous polymer, where by the amino acid units are joined by peptide bonds. http://purl.obolibrary.org/obo/SO_0001407 sequence http://purl.obolibrary.org/obo/SO_0001407 SO:0001407 http://purl.obolibrary.org/obo/SO_0001407 peptidyl EBI:rh http://purl.obolibrary.org/obo/SO_0001408 The C-terminal residues of a polypeptide which are exchanged for a GPI-anchor. http://purl.obolibrary.org/obo/SO_0001408 cleaved for gpi anchor region http://purl.obolibrary.org/obo/SO_0001408 sequence http://purl.obolibrary.org/obo/SO_0001408 SO:0001408 http://purl.obolibrary.org/obo/SO_0001408 cleaved_for_gpi_anchor_region SO:cb http://purl.obolibrary.org/obo/SO_0001409 A region which is intended for use in an experiment. http://purl.obolibrary.org/obo/SO_0001409 biomaterial region http://purl.obolibrary.org/obo/SO_0001409 sequence http://purl.obolibrary.org/obo/SO_0001409 SO:0001409 http://purl.obolibrary.org/obo/SO_0001409 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001409 biomaterial_region SO:cb http://purl.obolibrary.org/obo/SO_0001410 A region which is the result of some arbitrary experimental procedure. The procedure may be carried out with biological material or inside a computer. http://purl.obolibrary.org/obo/SO_0001410 experimental output artefact http://purl.obolibrary.org/obo/SO_0001410 experimental_output_artefact http://purl.obolibrary.org/obo/SO_0001410 sequence http://purl.obolibrary.org/obo/SO_0001410 analysis feature http://purl.obolibrary.org/obo/SO_0001410 SO:0001410 http://purl.obolibrary.org/obo/SO_0001410 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001410 experimental_feature SO:cb http://purl.obolibrary.org/obo/SO_0001411 A region defined by its disposition to be involved in a biological process. http://purl.obolibrary.org/obo/SO_0001411 biological region http://purl.obolibrary.org/obo/SO_0001411 sequence http://purl.obolibrary.org/obo/SO_0001411 SO:0001411 http://purl.obolibrary.org/obo/SO_0001411 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001411 biological_region SO:cb http://purl.obolibrary.org/obo/SO_0001412 A region that is defined according to its relations with other regions within the same sequence. http://purl.obolibrary.org/obo/SO_0001412 topologically defined region http://purl.obolibrary.org/obo/SO_0001412 sequence http://purl.obolibrary.org/obo/SO_0001412 SO:0001412 http://purl.obolibrary.org/obo/SO_0001412 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001412 topologically_defined_region SO:cb http://purl.obolibrary.org/obo/SO_0001413 The point within a chromosome where a translocation begins or ends. http://purl.obolibrary.org/obo/SO_0001413 translocation breakpoint http://purl.obolibrary.org/obo/SO_0001413 sequence http://purl.obolibrary.org/obo/SO_0001413 SO:0001413 http://purl.obolibrary.org/obo/SO_0001413 translocation_breakpoint SO:cb http://purl.obolibrary.org/obo/SO_0001414 The point within a chromosome where a insertion begins or ends. http://purl.obolibrary.org/obo/SO_0001414 insertion breakpoint http://purl.obolibrary.org/obo/SO_0001414 sequence http://purl.obolibrary.org/obo/SO_0001414 SO:0001414 http://purl.obolibrary.org/obo/SO_0001414 insertion_breakpoint SO:cb http://purl.obolibrary.org/obo/SO_0001415 The point within a chromosome where a deletion begins or ends. http://purl.obolibrary.org/obo/SO_0001415 deletion breakpoint http://purl.obolibrary.org/obo/SO_0001415 sequence http://purl.obolibrary.org/obo/SO_0001415 SO:0001415 http://purl.obolibrary.org/obo/SO_0001415 deletion_breakpoint SO:chado http://purl.obolibrary.org/obo/SO_0001416 A flanking region located five prime of a specific region. http://purl.obolibrary.org/obo/SO_0001416 five prime flanking region http://purl.obolibrary.org/obo/SO_0001416 sequence http://purl.obolibrary.org/obo/SO_0001416 5' flanking region http://purl.obolibrary.org/obo/SO_0001416 SO:0001416 http://purl.obolibrary.org/obo/SO_0001416 five_prime_flanking_region SO:chado http://purl.obolibrary.org/obo/SO_0001417 A flanking region located three prime of a specific region. http://purl.obolibrary.org/obo/SO_0001417 three prime flanking region http://purl.obolibrary.org/obo/SO_0001417 sequence http://purl.obolibrary.org/obo/SO_0001417 3' flanking region http://purl.obolibrary.org/obo/SO_0001417 SO:0001417 http://purl.obolibrary.org/obo/SO_0001417 three_prime_flanking_region SO:ke http://purl.obolibrary.org/obo/SO_0001418 An experimental region, defined by a tiling array experiment to be transcribed at some level. http://purl.obolibrary.org/obo/SO_0001418 transcribed fragment http://purl.obolibrary.org/obo/SO_0001418 sequence http://purl.obolibrary.org/obo/SO_0001418 transfrag http://purl.obolibrary.org/obo/SO_0001418 SO:0001418 http://purl.obolibrary.org/obo/SO_0001418 Term requested by the MODencode group. http://purl.obolibrary.org/obo/SO_0001418 transcribed_fragment SO:cjm SO:ke http://purl.obolibrary.org/obo/SO_0001419 Intronic 2 bp region bordering exon. A splice_site that adjacent_to exon and overlaps intron. http://purl.obolibrary.org/obo/SO_0001419 cis splice site http://purl.obolibrary.org/obo/SO_0001419 sequence http://purl.obolibrary.org/obo/SO_0001419 SO:0001419 http://purl.obolibrary.org/obo/SO_0001419 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001419 cis_splice_site SO:ke http://purl.obolibrary.org/obo/SO_0001420 Primary transcript region bordering trans-splice junction. http://purl.obolibrary.org/obo/SO_0001420 trans splice site http://purl.obolibrary.org/obo/SO_0001420 sequence http://purl.obolibrary.org/obo/SO_0001420 SO:0001420 http://purl.obolibrary.org/obo/SO_0001420 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001420 trans_splice_site SO:ke http://purl.obolibrary.org/obo/SO_0001421 The boundary between an intron and an exon. http://purl.obolibrary.org/obo/SO_0001421 splice boundary http://purl.obolibrary.org/obo/SO_0001421 splice junction http://purl.obolibrary.org/obo/SO_0001421 sequence http://purl.obolibrary.org/obo/SO_0001421 SO:0001421 http://purl.obolibrary.org/obo/SO_0001421 splice_junction SO:ke http://purl.obolibrary.org/obo/SO_0001422 A region of a polypeptide, involved in the transition from one conformational state to another. http://purl.obolibrary.org/obo/SO_0001422 polypeptide conformational switch http://purl.obolibrary.org/obo/SO_0001422 sequence http://purl.obolibrary.org/obo/SO_0001422 SO:0001422 http://purl.obolibrary.org/obo/SO_0001422 MM Young, K Kirshenbaum, KA Dill & S Highsmith. Predicting conformational switches in proteins. Protein Science, 1999, 8, 1752-64. K. Kirshenbaum, M.M. Young and S. Highsmith. Predicting Allosteric Switches in Myosins. Protein Science 8(9):1806-1815. 1999. http://purl.obolibrary.org/obo/SO_0001422 conformational_switch SO:ke http://purl.obolibrary.org/obo/SO_0001423 A read produced by the dye terminator method of sequencing. http://purl.obolibrary.org/obo/SO_0001423 sequence http://purl.obolibrary.org/obo/SO_0001423 dye terminator read http://purl.obolibrary.org/obo/SO_0001423 SO:0001423 http://purl.obolibrary.org/obo/SO_0001423 dye_terminator_read SO:ke http://purl.obolibrary.org/obo/SO_0001424 A read produced by pyrosequencing technology. http://purl.obolibrary.org/obo/SO_0001424 sequence http://purl.obolibrary.org/obo/SO_0001424 pyorsequenced read http://purl.obolibrary.org/obo/SO_0001424 SO:0001424 http://purl.obolibrary.org/obo/SO_0001424 An example is a read produced by Roche 454 technology. http://purl.obolibrary.org/obo/SO_0001424 pyrosequenced_read SO:ke http://purl.obolibrary.org/obo/SO_0001425 A read produced by ligation based sequencing technologies. http://purl.obolibrary.org/obo/SO_0001425 sequence http://purl.obolibrary.org/obo/SO_0001425 ligation based read http://purl.obolibrary.org/obo/SO_0001425 SO:0001425 http://purl.obolibrary.org/obo/SO_0001425 An example of this kind of read is one produced by ABI SOLiD. http://purl.obolibrary.org/obo/SO_0001425 ligation_based_read SO:ke http://purl.obolibrary.org/obo/SO_0001426 A read produced by the polymerase based sequence by synthesis method. http://purl.obolibrary.org/obo/SO_0001426 sequence http://purl.obolibrary.org/obo/SO_0001426 polymerase synthesis read http://purl.obolibrary.org/obo/SO_0001426 SO:0001426 http://purl.obolibrary.org/obo/SO_0001426 An example is a read produced by Illumina technology. http://purl.obolibrary.org/obo/SO_0001426 polymerase_synthesis_read RFAM:jd http://purl.obolibrary.org/obo/SO_0001427 A structural region in an RNA molecule which promotes ribosomal frameshifting of cis coding sequence. http://purl.obolibrary.org/obo/SO_0001427 cis regulatory frameshift element http://purl.obolibrary.org/obo/SO_0001427 sequence http://purl.obolibrary.org/obo/SO_0001427 SO:0001427 http://purl.obolibrary.org/obo/SO_0001427 cis_regulatory_frameshift_element SO:ke http://purl.obolibrary.org/obo/SO_0001428 A sequence assembly derived from expressed sequences. http://purl.obolibrary.org/obo/SO_0001428 expressed sequence assembly http://purl.obolibrary.org/obo/SO_0001428 sequence http://purl.obolibrary.org/obo/SO_0001428 SO:0001428 http://purl.obolibrary.org/obo/SO_0001428 From tracker [ 2372385 ] expressed_sequence_assembly. http://purl.obolibrary.org/obo/SO_0001428 expressed_sequence_assembly SO:ke http://purl.obolibrary.org/obo/SO_0001429 A binding site that, in the molecule, interacts selectively and non-covalently with DNA. http://purl.obolibrary.org/obo/SO_0001429 DNA binding site http://purl.obolibrary.org/obo/SO_0001429 sequence http://purl.obolibrary.org/obo/SO_0001429 SO:0001429 http://purl.obolibrary.org/obo/SO_0001429 DNA_binding_site SO:ke http://purl.obolibrary.org/obo/SO_0001431 A gene that is not transcribed under normal conditions and is not critical to normal cellular functioning. http://purl.obolibrary.org/obo/SO_0001431 cryptic gene http://purl.obolibrary.org/obo/SO_0001431 sequence http://purl.obolibrary.org/obo/SO_0001431 SO:0001431 http://purl.obolibrary.org/obo/SO_0001431 cryptic_gene http://purl.obolibrary.org/obo/SO_0001432 SO:0001545 http://purl.obolibrary.org/obo/SO_0001432 sequence variant affecting polyadenylation http://purl.obolibrary.org/obo/SO_0001432 sequence http://purl.obolibrary.org/obo/SO_0001432 mutation affecting polyadenylation http://purl.obolibrary.org/obo/SO_0001432 SO:0001432 http://purl.obolibrary.org/obo/SO_0001432 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_0001432 sequence_variant_affecting_polyadenylation http://purl.obolibrary.org/obo/SO_0001432 true modENCODE:nlw http://purl.obolibrary.org/obo/SO_0001433 A three prime RACE (Rapid Amplification of cDNA Ends) clone is a cDNA clone copied from the 3' end of an mRNA (using a poly-dT primer to capture the polyA tail and a gene-specific or randomly primed 5' primer), and spliced into a vector for propagation in a suitable host. http://purl.obolibrary.org/obo/SO_0001433 sequence http://purl.obolibrary.org/obo/SO_0001433 3' RACE clone http://purl.obolibrary.org/obo/SO_0001433 SO:0001433 http://purl.obolibrary.org/obo/SO_0001433 three_prime_RACE_clone SO:ke http://purl.obolibrary.org/obo/SO_0001434 A cassette pseudogene is a kind of gene in an inactive form which may recombine at a telomeric locus to form a functional copy. http://purl.obolibrary.org/obo/SO_0001434 cassette pseudogene http://purl.obolibrary.org/obo/SO_0001434 sequence http://purl.obolibrary.org/obo/SO_0001434 cassette type psedogene http://purl.obolibrary.org/obo/SO_0001434 SO:0001434 http://purl.obolibrary.org/obo/SO_0001434 Requested by the Trypanosome community. http://purl.obolibrary.org/obo/SO_0001434 cassette_pseudogene http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001435 A http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001435 Ala http://purl.obolibrary.org/obo/SO_0001435 sequence http://purl.obolibrary.org/obo/SO_0001435 SO:0001435 http://purl.obolibrary.org/obo/SO_0001435 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001435 alanine http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001436 V http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001436 Val http://purl.obolibrary.org/obo/SO_0001436 sequence http://purl.obolibrary.org/obo/SO_0001436 SO:0001436 http://purl.obolibrary.org/obo/SO_0001436 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001436 valine http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001437 L http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001437 Leu http://purl.obolibrary.org/obo/SO_0001437 sequence http://purl.obolibrary.org/obo/SO_0001437 SO:0001437 http://purl.obolibrary.org/obo/SO_0001437 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001437 leucine http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001438 I http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001438 Ile http://purl.obolibrary.org/obo/SO_0001438 sequence http://purl.obolibrary.org/obo/SO_0001438 SO:0001438 http://purl.obolibrary.org/obo/SO_0001438 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001438 isoleucine http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001439 P http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001439 Pro http://purl.obolibrary.org/obo/SO_0001439 sequence http://purl.obolibrary.org/obo/SO_0001439 SO:0001439 http://purl.obolibrary.org/obo/SO_0001439 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001439 proline http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001440 Trp http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001440 W http://purl.obolibrary.org/obo/SO_0001440 sequence http://purl.obolibrary.org/obo/SO_0001440 SO:0001440 http://purl.obolibrary.org/obo/SO_0001440 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001440 tryptophan http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001441 F http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001441 Phe http://purl.obolibrary.org/obo/SO_0001441 sequence http://purl.obolibrary.org/obo/SO_0001441 SO:0001441 http://purl.obolibrary.org/obo/SO_0001441 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001441 phenylalanine http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001442 M http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001442 Met http://purl.obolibrary.org/obo/SO_0001442 sequence http://purl.obolibrary.org/obo/SO_0001442 SO:0001442 http://purl.obolibrary.org/obo/SO_0001442 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001442 methionine http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001443 G http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001443 Gly http://purl.obolibrary.org/obo/SO_0001443 sequence http://purl.obolibrary.org/obo/SO_0001443 SO:0001443 http://purl.obolibrary.org/obo/SO_0001443 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001443 glycine http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001444 S http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001444 Ser http://purl.obolibrary.org/obo/SO_0001444 sequence http://purl.obolibrary.org/obo/SO_0001444 SO:0001444 http://purl.obolibrary.org/obo/SO_0001444 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001444 serine http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001445 T http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001445 Thr http://purl.obolibrary.org/obo/SO_0001445 sequence http://purl.obolibrary.org/obo/SO_0001445 SO:0001445 http://purl.obolibrary.org/obo/SO_0001445 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001445 threonine http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001446 Tyr http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001446 Y http://purl.obolibrary.org/obo/SO_0001446 sequence http://purl.obolibrary.org/obo/SO_0001446 SO:0001446 http://purl.obolibrary.org/obo/SO_0001446 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001446 tyrosine http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001447 C http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001447 Cys http://purl.obolibrary.org/obo/SO_0001447 sequence http://purl.obolibrary.org/obo/SO_0001447 SO:0001447 http://purl.obolibrary.org/obo/SO_0001447 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001447 cysteine http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001448 Gln http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001448 Q http://purl.obolibrary.org/obo/SO_0001448 sequence http://purl.obolibrary.org/obo/SO_0001448 SO:0001448 http://purl.obolibrary.org/obo/SO_0001448 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001448 glutamine http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001449 Asn http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001449 N http://purl.obolibrary.org/obo/SO_0001449 sequence http://purl.obolibrary.org/obo/SO_0001449 SO:0001449 http://purl.obolibrary.org/obo/SO_0001449 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001449 asparagine http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001450 K http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001450 Lys http://purl.obolibrary.org/obo/SO_0001450 sequence http://purl.obolibrary.org/obo/SO_0001450 SO:0001450 http://purl.obolibrary.org/obo/SO_0001450 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001450 lysine http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001451 Arg http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001451 R http://purl.obolibrary.org/obo/SO_0001451 sequence http://purl.obolibrary.org/obo/SO_0001451 SO:0001451 http://purl.obolibrary.org/obo/SO_0001451 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001451 arginine http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001452 H http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001452 His http://purl.obolibrary.org/obo/SO_0001452 sequence http://purl.obolibrary.org/obo/SO_0001452 SO:0001452 http://purl.obolibrary.org/obo/SO_0001452 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001452 histidine http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001453 Asp http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001453 D http://purl.obolibrary.org/obo/SO_0001453 aspartic acid http://purl.obolibrary.org/obo/SO_0001453 sequence http://purl.obolibrary.org/obo/SO_0001453 SO:0001453 http://purl.obolibrary.org/obo/SO_0001453 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001453 aspartic_acid http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001454 E http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001454 Glu http://purl.obolibrary.org/obo/SO_0001454 glutamic acid http://purl.obolibrary.org/obo/SO_0001454 sequence http://purl.obolibrary.org/obo/SO_0001454 SO:0001454 http://purl.obolibrary.org/obo/SO_0001454 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001454 glutamic_acid http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001455 Sec http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001455 U http://purl.obolibrary.org/obo/SO_0001455 sequence http://purl.obolibrary.org/obo/SO_0001455 SO:0001455 http://purl.obolibrary.org/obo/SO_0001455 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001455 selenocysteine http://purl.obolibrary.org/obo/so-xp.obo#aa1 http://purl.obolibrary.org/obo/SO_0001456 O http://purl.obolibrary.org/obo/so-xp.obo#aa3 http://purl.obolibrary.org/obo/SO_0001456 Pyl http://purl.obolibrary.org/obo/SO_0001456 sequence http://purl.obolibrary.org/obo/SO_0001456 SO:0001456 http://purl.obolibrary.org/obo/SO_0001456 A place holder for a cross product with chebi. http://purl.obolibrary.org/obo/SO_0001456 pyrrolysine SO:ke http://purl.obolibrary.org/obo/SO_0001457 A region defined by a set of transcribed sequences from the same gene or expressed pseudogene. http://purl.obolibrary.org/obo/SO_0001457 transcribed cluster http://purl.obolibrary.org/obo/SO_0001457 sequence http://purl.obolibrary.org/obo/SO_0001457 unigene cluster http://purl.obolibrary.org/obo/SO_0001457 SO:0001457 http://purl.obolibrary.org/obo/SO_0001457 This term was requested by Jeff Bowes, using the tracker, ID = 2594157. http://purl.obolibrary.org/obo/SO_0001457 transcribed_cluster SO:ke http://purl.obolibrary.org/obo/SO_0001458 A kind of transcribed_cluster defined by a set of transcribed sequences from the a unique gene. http://purl.obolibrary.org/obo/SO_0001458 sequence http://purl.obolibrary.org/obo/SO_0001458 unigene cluster http://purl.obolibrary.org/obo/SO_0001458 SO:0001458 http://purl.obolibrary.org/obo/SO_0001458 This term was requested by Jeff Bowes, using the tracker, ID = 2594157. http://purl.obolibrary.org/obo/SO_0001458 unigene_cluster RFAM:jd http://purl.obolibrary.org/obo/SO_0001459 Clustered Palindromic Repeats interspersed with bacteriophage derived spacer sequences. http://purl.obolibrary.org/obo/SO_0001459 http:en.wikipedia.org/wiki/CRISPR http://purl.obolibrary.org/obo/SO_0001459 CRISPR element http://purl.obolibrary.org/obo/SO_0001459 Clustered_Regularly_Interspaced_Short_Palindromic_Repeat http://purl.obolibrary.org/obo/SO_0001459 sequence http://purl.obolibrary.org/obo/SO_0001459 SO:0001459 http://purl.obolibrary.org/obo/SO_0001459 CRISPR SO:ke http://purl.obolibrary.org/obo/SO_0001460 A binding site that, in an insulator region of a nucleotide molecule, interacts selectively and non-covalently with polypeptide residues. http://purl.obolibrary.org/obo/SO_0001460 sequence http://purl.obolibrary.org/obo/SO_0001460 insulator binding site http://purl.obolibrary.org/obo/SO_0001460 SO:0001460 http://purl.obolibrary.org/obo/SO_0001460 See tracker ID 2060908. http://purl.obolibrary.org/obo/SO_0001460 insulator_binding_site SO:ke http://purl.obolibrary.org/obo/SO_0001461 A binding site that, in the enhancer region of a nucleotide molecule, interacts selectively and non-covalently with polypeptide residues. http://purl.obolibrary.org/obo/SO_0001461 sequence http://purl.obolibrary.org/obo/SO_0001461 enhancer binding site http://purl.obolibrary.org/obo/SO_0001461 SO:0001461 http://purl.obolibrary.org/obo/SO_0001461 enhancer_binding_site SO:ke http://purl.obolibrary.org/obo/SO_0001462 A collection of contigs. http://purl.obolibrary.org/obo/SO_0001462 contig collection http://purl.obolibrary.org/obo/SO_0001462 sequence http://purl.obolibrary.org/obo/SO_0001462 SO:0001462 http://purl.obolibrary.org/obo/SO_0001462 See tracker ID: 2138359. http://purl.obolibrary.org/obo/SO_0001462 contig_collection PMID:19182780 SO:ke http://purl.obolibrary.org/obo/SO_0001463 A multiexonic non-coding RNA transcribed by RNA polymerase II. http://purl.obolibrary.org/obo/SO_0001463 large intervening non-coding RNA http://purl.obolibrary.org/obo/SO_0001463 long intergenic non-coding RNA http://purl.obolibrary.org/obo/SO_0001463 sequence http://purl.obolibrary.org/obo/SO_0001463 SO:0001463 http://purl.obolibrary.org/obo/SO_0001463 lincRNA SO:nlw http://purl.obolibrary.org/obo/SO_0001464 An EST spanning part or all of the untranslated regions of a protein-coding transcript. http://purl.obolibrary.org/obo/SO_0001464 UTR sequence tag http://purl.obolibrary.org/obo/SO_0001464 sequence http://purl.obolibrary.org/obo/SO_0001464 SO:0001464 http://purl.obolibrary.org/obo/SO_0001464 UST SO:nlw http://purl.obolibrary.org/obo/SO_0001465 A UST located in the 3'UTR of a protein-coding transcript. http://purl.obolibrary.org/obo/SO_0001465 sequence http://purl.obolibrary.org/obo/SO_0001465 3' UST http://purl.obolibrary.org/obo/SO_0001465 SO:0001465 http://purl.obolibrary.org/obo/SO_0001465 three_prime_UST SO:nlw http://purl.obolibrary.org/obo/SO_0001466 An UST located in the 5'UTR of a protein-coding transcript. http://purl.obolibrary.org/obo/SO_0001466 sequence http://purl.obolibrary.org/obo/SO_0001466 5' UST http://purl.obolibrary.org/obo/SO_0001466 SO:0001466 http://purl.obolibrary.org/obo/SO_0001466 five_prime_UST SO:nlw http://purl.obolibrary.org/obo/SO_0001467 A tag produced from a single sequencing read from a RACE product; typically a few hundred base pairs long. http://purl.obolibrary.org/obo/SO_0001467 RACE sequence tag http://purl.obolibrary.org/obo/SO_0001467 sequence http://purl.obolibrary.org/obo/SO_0001467 SO:0001467 http://purl.obolibrary.org/obo/SO_0001467 RST SO:nlw http://purl.obolibrary.org/obo/SO_0001468 A tag produced from a single sequencing read from a 3'-RACE product; typically a few hundred base pairs long. http://purl.obolibrary.org/obo/SO_0001468 3' RST http://purl.obolibrary.org/obo/SO_0001468 sequence http://purl.obolibrary.org/obo/SO_0001468 SO:0001468 http://purl.obolibrary.org/obo/SO_0001468 three_prime_RST SO:nlw http://purl.obolibrary.org/obo/SO_0001469 A tag produced from a single sequencing read from a 5'-RACE product; typically a few hundred base pairs long. http://purl.obolibrary.org/obo/SO_0001469 sequence http://purl.obolibrary.org/obo/SO_0001469 5' RST http://purl.obolibrary.org/obo/SO_0001469 SO:0001469 http://purl.obolibrary.org/obo/SO_0001469 five_prime_RST SO:nlw http://purl.obolibrary.org/obo/SO_0001470 A match against an UST sequence. http://purl.obolibrary.org/obo/SO_0001470 UST match http://purl.obolibrary.org/obo/SO_0001470 sequence http://purl.obolibrary.org/obo/SO_0001470 SO:0001470 http://purl.obolibrary.org/obo/SO_0001470 UST_match SO:nlw http://purl.obolibrary.org/obo/SO_0001471 A match against an RST sequence. http://purl.obolibrary.org/obo/SO_0001471 RST match http://purl.obolibrary.org/obo/SO_0001471 sequence http://purl.obolibrary.org/obo/SO_0001471 SO:0001471 http://purl.obolibrary.org/obo/SO_0001471 RST_match SO:nlw http://purl.obolibrary.org/obo/SO_0001472 A nucleotide match to a primer sequence. http://purl.obolibrary.org/obo/SO_0001472 primer match http://purl.obolibrary.org/obo/SO_0001472 sequence http://purl.obolibrary.org/obo/SO_0001472 SO:0001472 http://purl.obolibrary.org/obo/SO_0001472 primer_match SO:ke http://purl.obolibrary.org/obo/SO_0001473 A region of the pri miRNA that base pairs with the guide to form the hairpin. http://purl.obolibrary.org/obo/SO_0001473 kareneilbeck http://purl.obolibrary.org/obo/SO_0001473 2009-05-27T03:35:43Z http://purl.obolibrary.org/obo/SO_0001473 miRNA antiguide http://purl.obolibrary.org/obo/SO_0001473 miRNA passenger strand http://purl.obolibrary.org/obo/SO_0001473 miRNA star http://purl.obolibrary.org/obo/SO_0001473 sequence http://purl.obolibrary.org/obo/SO_0001473 SO:0001473 http://purl.obolibrary.org/obo/SO_0001473 miRNA_antiguide SO:ke http://purl.obolibrary.org/obo/SO_0001474 The boundary between the spliced leader and the first exon of the mRNA. http://purl.obolibrary.org/obo/SO_0001474 kareneilbeck http://purl.obolibrary.org/obo/SO_0001474 2009-07-13T04:50:49Z http://purl.obolibrary.org/obo/SO_0001474 trans-splice junction http://purl.obolibrary.org/obo/SO_0001474 sequence http://purl.obolibrary.org/obo/SO_0001474 SO:0001474 http://purl.obolibrary.org/obo/SO_0001474 trans_splice_junction PMID:16401417 SO:ke http://purl.obolibrary.org/obo/SO_0001475 A region of a primary transcript, that is removed via trans splicing. http://purl.obolibrary.org/obo/SO_0001475 kareneilbeck http://purl.obolibrary.org/obo/SO_0001475 2009-07-14T11:36:08Z http://purl.obolibrary.org/obo/SO_0001475 sequence http://purl.obolibrary.org/obo/SO_0001475 SO:0001475 http://purl.obolibrary.org/obo/SO_0001475 outron SO:xp http://purl.obolibrary.org/obo/SO_0001476 A plasmid that occurs naturally. http://purl.obolibrary.org/obo/SO_0001476 kareneilbeck http://purl.obolibrary.org/obo/SO_0001476 2009-09-01T03:43:06Z http://purl.obolibrary.org/obo/SO_0001476 natural plasmid http://purl.obolibrary.org/obo/SO_0001476 sequence http://purl.obolibrary.org/obo/SO_0001476 SO:0001476 http://purl.obolibrary.org/obo/SO_0001476 natural_plasmid ZFIN:dh http://purl.obolibrary.org/obo/SO_0001477 A gene trap construct is a type of engineered plasmid which is designed to integrate into a genome and produce a fusion transcript between exons of the gene into which it inserts and a reporter element in the construct. Gene traps contain a splice acceptor, do not contain promoter elements for the reporter, and are mutagenic. Gene traps may be bicistronic with the second cassette containing a promoter driving an a selectable marker. http://purl.obolibrary.org/obo/SO_0001477 kareneilbeck http://purl.obolibrary.org/obo/SO_0001477 2009-09-01T03:49:09Z http://purl.obolibrary.org/obo/SO_0001477 gene trap construct http://purl.obolibrary.org/obo/SO_0001477 sequence http://purl.obolibrary.org/obo/SO_0001477 SO:0001477 http://purl.obolibrary.org/obo/SO_0001477 gene_trap_construct ZFIN:dh http://purl.obolibrary.org/obo/SO_0001478 A promoter trap construct is a type of engineered plasmid which is designed to integrate into a genome and express a reporter when inserted in close proximity to a promoter element. Promoter traps typically do not contain promoter elements and are mutagenic. http://purl.obolibrary.org/obo/SO_0001478 kareneilbeck http://purl.obolibrary.org/obo/SO_0001478 2009-09-01T03:52:01Z http://purl.obolibrary.org/obo/SO_0001478 promoter trap construct http://purl.obolibrary.org/obo/SO_0001478 sequence http://purl.obolibrary.org/obo/SO_0001478 SO:0001478 http://purl.obolibrary.org/obo/SO_0001478 promoter_trap_construct ZFIN:dh http://purl.obolibrary.org/obo/SO_0001479 An enhancer trap construct is a type of engineered plasmid which is designed to integrate into a genome and express a reporter when the expression from a basic minimal promoter is enhanced by genomic enhancer elements. Enhancer traps contain promoter elements and are not usually mutagenic. http://purl.obolibrary.org/obo/SO_0001479 kareneilbeck http://purl.obolibrary.org/obo/SO_0001479 2009-09-01T03:53:26Z http://purl.obolibrary.org/obo/SO_0001479 enhancer trap construct http://purl.obolibrary.org/obo/SO_0001479 sequence http://purl.obolibrary.org/obo/SO_0001479 SO:0001479 http://purl.obolibrary.org/obo/SO_0001479 enhancer_trap_construct ZFIN:mh http://purl.obolibrary.org/obo/SO_0001480 A region of sequence from the end of a PAC clone that may provide a highly specific marker. http://purl.obolibrary.org/obo/SO_0001480 kareneilbeck http://purl.obolibrary.org/obo/SO_0001480 2009-09-09T05:18:12Z http://purl.obolibrary.org/obo/SO_0001480 PAC end http://purl.obolibrary.org/obo/SO_0001480 sequence http://purl.obolibrary.org/obo/SO_0001480 SO:0001480 http://purl.obolibrary.org/obo/SO_0001480 PAC_end ZFIN:mh http://purl.obolibrary.org/obo/SO_0001481 RAPD is a 'PCR product' where a sequence variant is identified through the use of PCR with random primers. http://purl.obolibrary.org/obo/SO_0001481 kareneilbeck http://purl.obolibrary.org/obo/SO_0001481 2009-09-09T05:26:10Z http://purl.obolibrary.org/obo/SO_0001481 Random Amplification Polymorphic DNA http://purl.obolibrary.org/obo/SO_0001481 sequence http://purl.obolibrary.org/obo/SO_0001481 SO:0001481 http://purl.obolibrary.org/obo/SO_0001481 RAPD http://purl.obolibrary.org/obo/SO_0001482 kareneilbeck http://purl.obolibrary.org/obo/SO_0001482 2009-09-09T05:29:29Z http://purl.obolibrary.org/obo/SO_0001482 shadow enhancer http://purl.obolibrary.org/obo/SO_0001482 sequence http://purl.obolibrary.org/obo/SO_0001482 SO:0001482 http://purl.obolibrary.org/obo/SO_0001482 shadow_enhancer SO:bm http://purl.obolibrary.org/obo/SO_0001483 SNVs are single nucleotide positions in genomic DNA at which different sequence alternatives exist. http://purl.obolibrary.org/obo/SO_0001483 kareneilbeck http://purl.obolibrary.org/obo/SO_0001483 2009-10-08T11:37:49Z http://purl.obolibrary.org/obo/SO_0001483 single nucleotide variant http://purl.obolibrary.org/obo/SO_0001483 sequence http://purl.obolibrary.org/obo/SO_0001483 SO:0001483 http://purl.obolibrary.org/obo/SO_0001483 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001483 SNV http://www.yeastgenome.org/help/glossary.html http://purl.obolibrary.org/obo/SO_0001484 An X element combinatorial repeat is a repeat region located between the X element and the telomere or adjacent Y' element. http://purl.obolibrary.org/obo/SO_0001484 kareneilbeck http://purl.obolibrary.org/obo/SO_0001484 2009-11-10T11:03:37Z http://purl.obolibrary.org/obo/SO_0001484 X element combinatorial repeat http://purl.obolibrary.org/obo/SO_0001484 sequence http://purl.obolibrary.org/obo/SO_0001484 SO:0001484 http://purl.obolibrary.org/obo/SO_0001484 X element combinatorial repeats contain Tbf1p binding sites, and possible functions include a role in telomerase-independent telomere maintenance via recombination or as a barrier against transcriptional silencing. These are usually present as a combination of one or more of several types of smaller elements (designated A, B, C, or D). This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880747. http://purl.obolibrary.org/obo/SO_0001484 X_element_combinatorial_repeat http:http://www.yeastgenome.org/help/glossary.html http://purl.obolibrary.org/obo/SO_0001485 A Y' element is a repeat region (SO:0000657) located adjacent to telomeric repeats or X element combinatorial repeats, either as a single copy or tandem repeat of two to four copies. http://purl.obolibrary.org/obo/SO_0001485 kareneilbeck http://purl.obolibrary.org/obo/SO_0001485 2009-11-10T12:08:57Z http://purl.obolibrary.org/obo/SO_0001485 Y' element http://purl.obolibrary.org/obo/SO_0001485 sequence http://purl.obolibrary.org/obo/SO_0001485 SO:0001485 http://purl.obolibrary.org/obo/SO_0001485 This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880747. http://purl.obolibrary.org/obo/SO_0001485 Y_prime_element DOI:10.1126 http://purl.obolibrary.org/obo/SO_0001486 The status of a whole genome sequence, where the data is minimally filtered or un-filtered, from any number of sequencing platforms, and is assembled into contigs. Genome sequence of this quality may harbour regions of poor quality and can be relatively incomplete. http://purl.obolibrary.org/obo/SO_0001486 kareneilbeck http://purl.obolibrary.org/obo/SO_0001486 2009-10-23T12:48:32Z http://purl.obolibrary.org/obo/SO_0001486 standard draft http://purl.obolibrary.org/obo/SO_0001486 sequence http://purl.obolibrary.org/obo/SO_0001486 SO:0001486 http://purl.obolibrary.org/obo/SO_0001486 standard_draft DOI:10.1126 http://purl.obolibrary.org/obo/SO_0001487 The status of a whole genome sequence, where overall coverage represents at least 90 percent of the genome. http://purl.obolibrary.org/obo/SO_0001487 kareneilbeck http://purl.obolibrary.org/obo/SO_0001487 2009-10-23T12:52:36Z http://purl.obolibrary.org/obo/SO_0001487 high quality draft http://purl.obolibrary.org/obo/SO_0001487 sequence http://purl.obolibrary.org/obo/SO_0001487 SO:0001487 http://purl.obolibrary.org/obo/SO_0001487 high_quality_draft DOI:10.1126 http://purl.obolibrary.org/obo/SO_0001488 The status of a whole genome sequence, where additional work has been performed, using either manual or automated methods, such as gap resolution. http://purl.obolibrary.org/obo/SO_0001488 kareneilbeck http://purl.obolibrary.org/obo/SO_0001488 2009-10-23T12:54:35Z http://purl.obolibrary.org/obo/SO_0001488 improved high quality draft http://purl.obolibrary.org/obo/SO_0001488 sequence http://purl.obolibrary.org/obo/SO_0001488 SO:0001488 http://purl.obolibrary.org/obo/SO_0001488 improved_high_quality_draft DOI:10.1126 http://purl.obolibrary.org/obo/SO_0001489 The status of a whole genome sequence,where annotation, and verification of coding regions has occurred. http://purl.obolibrary.org/obo/SO_0001489 kareneilbeck http://purl.obolibrary.org/obo/SO_0001489 2009-10-23T12:57:10Z http://purl.obolibrary.org/obo/SO_0001489 annotation directed improvement http://purl.obolibrary.org/obo/SO_0001489 sequence http://purl.obolibrary.org/obo/SO_0001489 SO:0001489 http://purl.obolibrary.org/obo/SO_0001489 annotation_directed_improved_draft DOI:10.1126 http://purl.obolibrary.org/obo/SO_0001490 The status of a whole genome sequence, where the assembly is high quality, closure approaches have been successful for most gaps, misassemblies and low quality regions. http://purl.obolibrary.org/obo/SO_0001490 kareneilbeck http://purl.obolibrary.org/obo/SO_0001490 2009-10-23T01:01:07Z http://purl.obolibrary.org/obo/SO_0001490 non contiguous finished http://purl.obolibrary.org/obo/SO_0001490 sequence http://purl.obolibrary.org/obo/SO_0001490 SO:0001490 http://purl.obolibrary.org/obo/SO_0001490 noncontiguous_finished DOI:10.1126 http://purl.obolibrary.org/obo/SO_0001491 The status of a whole genome sequence, with less than 1 error per 100,000 base pairs. http://purl.obolibrary.org/obo/SO_0001491 kareneilbeck http://purl.obolibrary.org/obo/SO_0001491 2009-10-23T01:04:43Z http://purl.obolibrary.org/obo/SO_0001491 finished http://purl.obolibrary.org/obo/SO_0001491 finished genome http://purl.obolibrary.org/obo/SO_0001491 sequence http://purl.obolibrary.org/obo/SO_0001491 SO:0001491 http://purl.obolibrary.org/obo/SO_0001491 finished_genome SO:ke http://purl.obolibrary.org/obo/SO_0001492 A regulatory region that is part of an intron. http://purl.obolibrary.org/obo/SO_0001492 kareneilbeck http://purl.obolibrary.org/obo/SO_0001492 2009-11-08T02:48:02Z http://purl.obolibrary.org/obo/SO_0001492 intronic regulatory region http://purl.obolibrary.org/obo/SO_0001492 sequence http://purl.obolibrary.org/obo/SO_0001492 SO:0001492 http://purl.obolibrary.org/obo/SO_0001492 intronic_regulatory_region PMID:11222754 http://purl.obolibrary.org/obo/SO_0001493 A centromere DNA Element I (CDEI) is a conserved region, part of the centromere, consisting of a consensus region composed of 8-11bp which enables binding by the centromere binding factor 1(Cbf1p). http://purl.obolibrary.org/obo/SO_0001493 kareneilbeck http://purl.obolibrary.org/obo/SO_0001493 2009-11-09T05:47:23Z http://purl.obolibrary.org/obo/SO_0001493 CDEI http://purl.obolibrary.org/obo/SO_0001493 Centromere DNA Element I http://purl.obolibrary.org/obo/SO_0001493 sequence http://purl.obolibrary.org/obo/SO_0001493 SO:0001493 http://purl.obolibrary.org/obo/SO_0001493 This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880699. http://purl.obolibrary.org/obo/SO_0001493 centromere_DNA_Element_I PMID:11222754 http://purl.obolibrary.org/obo/SO_0001494 A centromere DNA Element II (CDEII) is part a conserved region of the centromere, consisting of a consensus region that is AT-rich and ~ 75-100 bp in length. http://purl.obolibrary.org/obo/SO_0001494 kareneilbeck http://purl.obolibrary.org/obo/SO_0001494 2009-11-09T05:51:26Z http://purl.obolibrary.org/obo/SO_0001494 CDEII http://purl.obolibrary.org/obo/SO_0001494 centromere DNA Element II http://purl.obolibrary.org/obo/SO_0001494 sequence http://purl.obolibrary.org/obo/SO_0001494 SO:0001494 http://purl.obolibrary.org/obo/SO_0001494 This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880699. http://purl.obolibrary.org/obo/SO_0001494 centromere_DNA_Element_II PMID:11222754 http://purl.obolibrary.org/obo/SO_0001495 A centromere DNA Element I (CDEI) is a conserved region, part of the centromere, consisting of a consensus region that consists of a 25-bp which enables binding by the centromere DNA binding factor 3 (CBF3) complex. http://purl.obolibrary.org/obo/SO_0001495 kareneilbeck http://purl.obolibrary.org/obo/SO_0001495 2009-11-09T05:54:47Z http://purl.obolibrary.org/obo/SO_0001495 CDEIII http://purl.obolibrary.org/obo/SO_0001495 centromere DNA Element III http://purl.obolibrary.org/obo/SO_0001495 sequence http://purl.obolibrary.org/obo/SO_0001495 SO:0001495 http://purl.obolibrary.org/obo/SO_0001495 This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880699. http://purl.obolibrary.org/obo/SO_0001495 centromere_DNA_Element_III PMID:8720065 http://purl.obolibrary.org/obo/SO_0001496 The telomeric repeat is a repeat region, part of the chromosome, which in yeast, is a G-rich terminal sequence of the form (TG(1-3))n or more precisely ((TG)(1-6)TG(2-3))n. http://purl.obolibrary.org/obo/SO_0001496 kareneilbeck http://purl.obolibrary.org/obo/SO_0001496 2009-11-09T06:00:42Z http://purl.obolibrary.org/obo/SO_0001496 telomeric repeat http://purl.obolibrary.org/obo/SO_0001496 sequence http://purl.obolibrary.org/obo/SO_0001496 SO:0001496 http://purl.obolibrary.org/obo/SO_0001496 The repeats are maintained by telomerase and there is generally 300 (+/-) 75 bp of TG(1-3) at a given end. Telomeric repeats function in completing chromosome replication and protecting the ends from degradation and end-to-end fusions. This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880739. http://purl.obolibrary.org/obo/SO_0001496 telomeric_repeat PMID:7785338 PMID:8005434 http://www.yeastgenome.org/help/glossary.html#xelemcoresequence http://purl.obolibrary.org/obo/SO_0001497 The X element is a conserved region, of the telomere, of ~475 bp that contains an ARS sequence and in most cases an Abf1p binding site. http://purl.obolibrary.org/obo/SO_0001497 kareneilbeck http://purl.obolibrary.org/obo/SO_0001497 2009-11-10T10:56:54Z http://purl.obolibrary.org/obo/SO_0001497 X element core sequence http://purl.obolibrary.org/obo/SO_0001497 sequence http://purl.obolibrary.org/obo/SO_0001497 X element http://purl.obolibrary.org/obo/SO_0001497 SO:0001497 http://purl.obolibrary.org/obo/SO_0001497 Possible functions include roles in chromosomal segregation, maintenance of chromosome stability, recombinational sequestering, or as a barrier to transcriptional silencing. This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880747. From Janos Demeter: The only region shared by all chromosome ends, the X element core sequence is a small conserved element (~475 bp) that contains an ARS sequence and in most cases an Abf1p binding site. Between these is a GC-rich region nearly identical to the meiosis-specific regulatory sequence URS1. http://purl.obolibrary.org/obo/SO_0001497 X_element SO:ke http://purl.obolibrary.org/obo/SO_0001498 A region of sequence from the end of a YAC clone that may provide a highly specific marker. http://purl.obolibrary.org/obo/SO_0001498 kareneilbeck http://purl.obolibrary.org/obo/SO_0001498 2009-11-19T11:07:18Z http://purl.obolibrary.org/obo/SO_0001498 YAC end http://purl.obolibrary.org/obo/SO_0001498 sequence http://purl.obolibrary.org/obo/SO_0001498 SO:0001498 http://purl.obolibrary.org/obo/SO_0001498 YAC_end DOI:10.1126 http://purl.obolibrary.org/obo/SO_0001499 The status of whole genome sequence. http://purl.obolibrary.org/obo/SO_0001499 kareneilbeck http://purl.obolibrary.org/obo/SO_0001499 2009-10-23T12:47:47Z http://purl.obolibrary.org/obo/SO_0001499 whole genome sequence status http://purl.obolibrary.org/obo/SO_0001499 sequence http://purl.obolibrary.org/obo/SO_0001499 SO:0001499 http://purl.obolibrary.org/obo/SO_0001499 This terms and children were added to SO in response to tracker request by Patrick Chain. The paper Genome Project Standards in a New Era of Sequencing. Science October 9th 2009, addresses these terms. http://purl.obolibrary.org/obo/SO_0001499 whole_genome_sequence_status JAX:hdene http://purl.obolibrary.org/obo/SO_0001500 A biological_region characterized as a single heritable trait in a phenotype screen. The heritable phenotype may be mapped to a chromosome but generally has not been characterized to a specific gene locus. http://purl.obolibrary.org/obo/SO_0001500 kareneilbeck http://purl.obolibrary.org/obo/SO_0001500 2009-12-07T01:50:55Z http://purl.obolibrary.org/obo/SO_0001500 heritable phenotypic marker http://purl.obolibrary.org/obo/SO_0001500 phenotypic marker http://purl.obolibrary.org/obo/SO_0001500 sequence http://purl.obolibrary.org/obo/SO_0001500 SO:0001500 http://purl.obolibrary.org/obo/SO_0001500 heritable_phenotypic_marker BBOP:nlw http://purl.obolibrary.org/obo/SO_0001501 A collection of peptide sequences. http://purl.obolibrary.org/obo/SO_0001501 kareneilbeck http://purl.obolibrary.org/obo/SO_0001501 2009-12-11T10:58:58Z http://purl.obolibrary.org/obo/SO_0001501 peptide collection http://purl.obolibrary.org/obo/SO_0001501 peptide set http://purl.obolibrary.org/obo/SO_0001501 sequence http://purl.obolibrary.org/obo/SO_0001501 SO:0001501 http://purl.obolibrary.org/obo/SO_0001501 Term requested via tracker ID: 2910829. http://purl.obolibrary.org/obo/SO_0001501 peptide_collection SO:ke http://purl.obolibrary.org/obo/SO_0001502 An experimental feature with high sequence identity to another sequence. http://purl.obolibrary.org/obo/SO_0001502 kareneilbeck http://purl.obolibrary.org/obo/SO_0001502 2009-12-11T11:06:05Z http://purl.obolibrary.org/obo/SO_0001502 high identity region http://purl.obolibrary.org/obo/SO_0001502 sequence http://purl.obolibrary.org/obo/SO_0001502 SO:0001502 http://purl.obolibrary.org/obo/SO_0001502 Requested by tracker ID: 2902685. http://purl.obolibrary.org/obo/SO_0001502 high_identity_region MGI:hdeen http://purl.obolibrary.org/obo/SO_0001503 A transcript for which no open reading frame has been identified and for which no other function has been determined. http://purl.obolibrary.org/obo/SO_0001503 kareneilbeck http://purl.obolibrary.org/obo/SO_0001503 2009-12-21T05:37:14Z http://purl.obolibrary.org/obo/SO_0001503 processed transcript http://purl.obolibrary.org/obo/SO_0001503 sequence http://purl.obolibrary.org/obo/SO_0001503 SO:0001503 http://purl.obolibrary.org/obo/SO_0001503 Ensembl and Vega also use this term name. Requested by Howard Deen of MGI. http://purl.obolibrary.org/obo/SO_0001503 processed_transcript SO:ke http://purl.obolibrary.org/obo/SO_0001504 A chromosome variation derived from an event during meiosis. http://purl.obolibrary.org/obo/SO_0001504 kareneilbeck http://purl.obolibrary.org/obo/SO_0001504 2010-03-02T05:03:18Z http://purl.obolibrary.org/obo/SO_0001504 sequence http://purl.obolibrary.org/obo/SO_0001504 assortment derived variation http://purl.obolibrary.org/obo/SO_0001504 SO:0001504 http://purl.obolibrary.org/obo/SO_0001504 assortment_derived_variation SO:ke http://purl.obolibrary.org/obo/SO_0001505 A collection of sequences (often chromosomes) taken as the standard for a given organism and genome assembly. http://purl.obolibrary.org/obo/SO_0001505 kareneilbeck http://purl.obolibrary.org/obo/SO_0001505 2010-03-03T02:10:03Z http://purl.obolibrary.org/obo/SO_0001505 sequence http://purl.obolibrary.org/obo/SO_0001505 reference genome http://purl.obolibrary.org/obo/SO_0001505 SO:0001505 http://purl.obolibrary.org/obo/SO_0001505 reference_genome SO:ke http://purl.obolibrary.org/obo/SO_0001506 A collection of sequences (often chromosomes) of an individual. http://purl.obolibrary.org/obo/SO_0001506 kareneilbeck http://purl.obolibrary.org/obo/SO_0001506 2010-03-03T02:11:25Z http://purl.obolibrary.org/obo/SO_0001506 sequence http://purl.obolibrary.org/obo/SO_0001506 variant genome http://purl.obolibrary.org/obo/SO_0001506 SO:0001506 http://purl.obolibrary.org/obo/SO_0001506 variant_genome SO:ke http://purl.obolibrary.org/obo/SO_0001507 A collection of one or more sequences of an individual. http://purl.obolibrary.org/obo/SO_0001507 kareneilbeck http://purl.obolibrary.org/obo/SO_0001507 2010-03-03T02:13:28Z http://purl.obolibrary.org/obo/SO_0001507 sequence http://purl.obolibrary.org/obo/SO_0001507 variant collection http://purl.obolibrary.org/obo/SO_0001507 SO:0001507 http://purl.obolibrary.org/obo/SO_0001507 variant_collection http://purl.obolibrary.org/obo/SO_0001508 kareneilbeck http://purl.obolibrary.org/obo/SO_0001508 2010-03-04T02:53:23Z http://purl.obolibrary.org/obo/SO_0001508 alteration attribute http://purl.obolibrary.org/obo/SO_0001508 sequence http://purl.obolibrary.org/obo/SO_0001508 SO:0001508 http://purl.obolibrary.org/obo/SO_0001508 alteration_attribute http://purl.obolibrary.org/obo/SO_0001509 kareneilbeck http://purl.obolibrary.org/obo/SO_0001509 2010-03-04T02:54:30Z http://purl.obolibrary.org/obo/SO_0001509 chromosomal variation attribute http://purl.obolibrary.org/obo/SO_0001509 sequence http://purl.obolibrary.org/obo/SO_0001509 SO:0001509 http://purl.obolibrary.org/obo/SO_0001509 chromosomal_variation_attribute http://purl.obolibrary.org/obo/SO_0001510 kareneilbeck http://purl.obolibrary.org/obo/SO_0001510 2010-03-04T02:55:25Z http://purl.obolibrary.org/obo/SO_0001510 sequence http://purl.obolibrary.org/obo/SO_0001510 SO:0001510 http://purl.obolibrary.org/obo/SO_0001510 intrachromosomal http://purl.obolibrary.org/obo/SO_0001511 kareneilbeck http://purl.obolibrary.org/obo/SO_0001511 2010-03-04T02:55:43Z http://purl.obolibrary.org/obo/SO_0001511 sequence http://purl.obolibrary.org/obo/SO_0001511 SO:0001511 http://purl.obolibrary.org/obo/SO_0001511 interchromosomal SO:ke http://purl.obolibrary.org/obo/SO_0001512 A quality of a chromosomal insertion,. http://purl.obolibrary.org/obo/SO_0001512 kareneilbeck http://purl.obolibrary.org/obo/SO_0001512 2010-03-04T02:55:56Z http://purl.obolibrary.org/obo/SO_0001512 insertion attribute http://purl.obolibrary.org/obo/SO_0001512 sequence http://purl.obolibrary.org/obo/SO_0001512 SO:0001512 http://purl.obolibrary.org/obo/SO_0001512 insertion_attribute http://purl.obolibrary.org/obo/SO_0001513 kareneilbeck http://purl.obolibrary.org/obo/SO_0001513 2010-03-04T02:56:37Z http://purl.obolibrary.org/obo/SO_0001513 sequence http://purl.obolibrary.org/obo/SO_0001513 SO:0001513 http://purl.obolibrary.org/obo/SO_0001513 tandem SO:ke http://purl.obolibrary.org/obo/SO_0001514 A quality of an insertion where the insert is not in a cytologically inverted orientation. http://purl.obolibrary.org/obo/SO_0001514 kareneilbeck http://purl.obolibrary.org/obo/SO_0001514 2010-03-04T02:56:49Z http://purl.obolibrary.org/obo/SO_0001514 sequence http://purl.obolibrary.org/obo/SO_0001514 SO:0001514 http://purl.obolibrary.org/obo/SO_0001514 direct SO:ke http://purl.obolibrary.org/obo/SO_0001515 A quality of an insertion where the insert is in a cytologically inverted orientation. http://purl.obolibrary.org/obo/SO_0001515 kareneilbeck http://purl.obolibrary.org/obo/SO_0001515 2010-03-04T02:57:40Z http://purl.obolibrary.org/obo/SO_0001515 sequence http://purl.obolibrary.org/obo/SO_0001515 SO:0001515 http://purl.obolibrary.org/obo/SO_0001515 inverted SO:ke http://purl.obolibrary.org/obo/SO_0001516 The quality of a duplication where the new region exists independently of the original. http://purl.obolibrary.org/obo/SO_0001516 kareneilbeck http://purl.obolibrary.org/obo/SO_0001516 2010-03-04T02:57:51Z http://purl.obolibrary.org/obo/SO_0001516 sequence http://purl.obolibrary.org/obo/SO_0001516 SO:0001516 http://purl.obolibrary.org/obo/SO_0001516 free http://purl.obolibrary.org/obo/SO_0001517 kareneilbeck http://purl.obolibrary.org/obo/SO_0001517 2010-03-04T02:58:10Z http://purl.obolibrary.org/obo/SO_0001517 inversion attribute http://purl.obolibrary.org/obo/SO_0001517 sequence http://purl.obolibrary.org/obo/SO_0001517 SO:0001517 http://purl.obolibrary.org/obo/SO_0001517 inversion_attribute http://purl.obolibrary.org/obo/SO_0001518 kareneilbeck http://purl.obolibrary.org/obo/SO_0001518 2010-03-04T02:58:24Z http://purl.obolibrary.org/obo/SO_0001518 sequence http://purl.obolibrary.org/obo/SO_0001518 SO:0001518 http://purl.obolibrary.org/obo/SO_0001518 pericentric http://purl.obolibrary.org/obo/SO_0001519 kareneilbeck http://purl.obolibrary.org/obo/SO_0001519 2010-03-04T02:58:35Z http://purl.obolibrary.org/obo/SO_0001519 sequence http://purl.obolibrary.org/obo/SO_0001519 SO:0001519 http://purl.obolibrary.org/obo/SO_0001519 paracentric http://purl.obolibrary.org/obo/SO_0001520 kareneilbeck http://purl.obolibrary.org/obo/SO_0001520 2010-03-04T02:58:47Z http://purl.obolibrary.org/obo/SO_0001520 translocation attribute http://purl.obolibrary.org/obo/SO_0001520 sequence http://purl.obolibrary.org/obo/SO_0001520 SO:0001520 http://purl.obolibrary.org/obo/SO_0001520 translocaton_attribute http://purl.obolibrary.org/obo/SO_0001521 kareneilbeck http://purl.obolibrary.org/obo/SO_0001521 2010-03-04T02:59:34Z http://purl.obolibrary.org/obo/SO_0001521 sequence http://purl.obolibrary.org/obo/SO_0001521 SO:0001521 http://purl.obolibrary.org/obo/SO_0001521 reciprocal http://purl.obolibrary.org/obo/SO_0001522 kareneilbeck http://purl.obolibrary.org/obo/SO_0001522 2010-03-04T02:59:51Z http://purl.obolibrary.org/obo/SO_0001522 sequence http://purl.obolibrary.org/obo/SO_0001522 SO:0001522 http://purl.obolibrary.org/obo/SO_0001522 insertional http://purl.obolibrary.org/obo/SO_0001523 kareneilbeck http://purl.obolibrary.org/obo/SO_0001523 2010-03-05T01:56:33Z http://purl.obolibrary.org/obo/SO_0001523 sequence http://purl.obolibrary.org/obo/SO_0001523 duplication attribute http://purl.obolibrary.org/obo/SO_0001523 SO:0001523 http://purl.obolibrary.org/obo/SO_0001523 duplication_attribute http://purl.obolibrary.org/obo/SO_0001524 kareneilbeck http://purl.obolibrary.org/obo/SO_0001524 2010-03-05T02:21:00Z http://purl.obolibrary.org/obo/SO_0001524 sequence http://purl.obolibrary.org/obo/SO_0001524 chromosomally aberrant genome http://purl.obolibrary.org/obo/SO_0001524 SO:0001524 http://purl.obolibrary.org/obo/SO_0001524 chromosomally_aberrant_genome SO:ke http://purl.obolibrary.org/obo/SO_0001525 A region of sequence where the final nucleotide assignment differs from the original assembly due to an improvement that replaces a mistake. http://purl.obolibrary.org/obo/SO_0001525 kareneilbeck http://purl.obolibrary.org/obo/SO_0001525 2010-03-09T02:16:31Z http://purl.obolibrary.org/obo/SO_0001525 sequence http://purl.obolibrary.org/obo/SO_0001525 assembly error correction http://purl.obolibrary.org/obo/SO_0001525 SO:0001525 http://purl.obolibrary.org/obo/SO_0001525 assembly_error_correction SO:ke http://purl.obolibrary.org/obo/SO_0001526 A region of sequence where the final nucleotide assignment is different from that given by the base caller due to an improvement that replaces a mistake. http://purl.obolibrary.org/obo/SO_0001526 kareneilbeck http://purl.obolibrary.org/obo/SO_0001526 2010-03-09T02:18:07Z http://purl.obolibrary.org/obo/SO_0001526 sequence http://purl.obolibrary.org/obo/SO_0001526 base call error correction http://purl.obolibrary.org/obo/SO_0001526 SO:0001526 http://purl.obolibrary.org/obo/SO_0001526 base_call_error_correction SO:ke http://purl.obolibrary.org/obo/SO_0001527 A region of peptide sequence used to target the polypeptide molecule to a specific organelle. http://purl.obolibrary.org/obo/SO_0001527 kareneilbeck http://purl.obolibrary.org/obo/SO_0001527 2010-03-11T02:15:05Z http://purl.obolibrary.org/obo/SO_0001527 peptide localization signal http://purl.obolibrary.org/obo/SO_0001527 sequence http://purl.obolibrary.org/obo/SO_0001527 localization signal http://purl.obolibrary.org/obo/SO_0001527 SO:0001527 http://purl.obolibrary.org/obo/SO_0001527 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001527 peptide_localization_signal SO:ke http://purl.obolibrary.org/obo/SO_0001528 A polypeptide region that targets a polypeptide to the nucleus. http://purl.obolibrary.org/obo/SO_0001528 kareneilbeck http://purl.obolibrary.org/obo/SO_0001528 2010-03-11T02:16:38Z wikipedia http://purl.obolibrary.org/obo/SO_0001528 http://en.wikipedia.org/wiki/Nuclear_localization_signal http://purl.obolibrary.org/obo/SO_0001528 NLS http://purl.obolibrary.org/obo/SO_0001528 sequence http://purl.obolibrary.org/obo/SO_0001528 SO:0001528 http://purl.obolibrary.org/obo/SO_0001528 nuclear_localization_signal SO:ke http://purl.obolibrary.org/obo/SO_0001529 A polypeptide region that targets a polypeptide to the endosome. http://purl.obolibrary.org/obo/SO_0001529 kareneilbeck http://purl.obolibrary.org/obo/SO_0001529 2010-03-11T02:20:58Z http://purl.obolibrary.org/obo/SO_0001529 endosomal localization signal http://purl.obolibrary.org/obo/SO_0001529 sequence http://purl.obolibrary.org/obo/SO_0001529 SO:0001529 http://purl.obolibrary.org/obo/SO_0001529 endosomal_localization_signal SO:ke http://purl.obolibrary.org/obo/SO_0001530 A polypeptide region that targets a polypeptide to the lysosome. http://purl.obolibrary.org/obo/SO_0001530 kareneilbeck http://purl.obolibrary.org/obo/SO_0001530 2010-03-11T02:24:10Z http://purl.obolibrary.org/obo/SO_0001530 lysosomal localization signal http://purl.obolibrary.org/obo/SO_0001530 sequence http://purl.obolibrary.org/obo/SO_0001530 SO:0001530 http://purl.obolibrary.org/obo/SO_0001530 lysosomal_localization_signal SO:ke http://purl.obolibrary.org/obo/SO_0001531 A polypeptide region that targets a polypeptide to he cytoplasm. http://purl.obolibrary.org/obo/SO_0001531 kareneilbeck http://purl.obolibrary.org/obo/SO_0001531 2010-03-11T02:25:25Z http://purl.obolibrary.org/obo/SO_0001531 http://en.wikipedia.org/wiki/Nuclear_export_signal http://purl.obolibrary.org/obo/SO_0001531 NES http://purl.obolibrary.org/obo/SO_0001531 nuclear export signal http://purl.obolibrary.org/obo/SO_0001531 sequence http://purl.obolibrary.org/obo/SO_0001531 SO:0001531 http://purl.obolibrary.org/obo/SO_0001531 nuclear_export_signal SO:ke http://purl.obolibrary.org/obo/SO_0001532 A region recognized by a recombinase. http://purl.obolibrary.org/obo/SO_0001532 kareneilbeck http://purl.obolibrary.org/obo/SO_0001532 2010-03-11T03:16:47Z wikipedia http://purl.obolibrary.org/obo/SO_0001532 http://en.wikipedia.org/wiki/Recombination_Signal_Sequences http://purl.obolibrary.org/obo/SO_0001532 sequence http://purl.obolibrary.org/obo/SO_0001532 recombination signal sequence http://purl.obolibrary.org/obo/SO_0001532 SO:0001532 http://purl.obolibrary.org/obo/SO_0001532 recombination_signal_sequence SO:ke http://purl.obolibrary.org/obo/SO_0001533 A splice site that is in part of the transcript not normally spliced. They occur via mutation or transcriptional error. http://purl.obolibrary.org/obo/SO_0001533 kareneilbeck http://purl.obolibrary.org/obo/SO_0001533 2010-03-11T03:25:06Z http://purl.obolibrary.org/obo/SO_0001533 cryptic splice site http://purl.obolibrary.org/obo/SO_0001533 sequence http://purl.obolibrary.org/obo/SO_0001533 cryptic splice signal http://purl.obolibrary.org/obo/SO_0001533 SO:0001533 http://purl.obolibrary.org/obo/SO_0001533 cryptic_splice_site SO:ke http://purl.obolibrary.org/obo/SO_0001534 A polypeptide region that targets a polypeptide to the nuclear rim. http://purl.obolibrary.org/obo/SO_0001534 kareneilbeck http://purl.obolibrary.org/obo/SO_0001534 2010-03-11T03:31:30Z http://purl.obolibrary.org/obo/SO_0001534 PMID:16027110 http://purl.obolibrary.org/obo/SO_0001534 sequence http://purl.obolibrary.org/obo/SO_0001534 nuclear rim localization signal http://purl.obolibrary.org/obo/SO_0001534 SO:0001534 http://purl.obolibrary.org/obo/SO_0001534 nuclear_rim_localization_signal SO:ke http://purl.obolibrary.org/obo/SO_0001535 A P_element is a DNA transposon responsible for hybrid dysgenesis. http://purl.obolibrary.org/obo/SO_0001535 kareneilbeck http://purl.obolibrary.org/obo/SO_0001535 2010-03-12T03:40:33Z http://purl.obolibrary.org/obo/SO_0001535 sequence http://purl.obolibrary.org/obo/SO_0001535 P element http://purl.obolibrary.org/obo/SO_0001535 SO:0001535 http://purl.obolibrary.org/obo/SO_0001535 p_element SO:ke http://purl.obolibrary.org/obo/SO_0001536 A sequence variant in which the function of a gene product is altered with respect to a reference. http://purl.obolibrary.org/obo/SO_0001536 kareneilbeck http://purl.obolibrary.org/obo/SO_0001536 2010-03-22T11:30:25Z http://purl.obolibrary.org/obo/SO_0001536 functional variant http://purl.obolibrary.org/obo/SO_0001536 sequence http://purl.obolibrary.org/obo/SO_0001536 SO:0001536 http://purl.obolibrary.org/obo/SO_0001536 functional_variant SO:ke http://purl.obolibrary.org/obo/SO_0001537 A sequence variant that changes one or more sequence features. http://purl.obolibrary.org/obo/SO_0001537 kareneilbeck http://purl.obolibrary.org/obo/SO_0001537 2010-03-22T11:31:01Z http://purl.obolibrary.org/obo/SO_0001537 sequence http://purl.obolibrary.org/obo/SO_0001537 structural variant http://purl.obolibrary.org/obo/SO_0001537 SO:0001537 http://purl.obolibrary.org/obo/SO_0001537 structural_variant SO:ke http://purl.obolibrary.org/obo/SO_0001538 A sequence variant which alters the functioning of a transcript with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001538 kareneilbeck http://purl.obolibrary.org/obo/SO_0001538 2010-03-22T11:32:58Z http://purl.obolibrary.org/obo/SO_0001538 transcript function variant http://purl.obolibrary.org/obo/SO_0001538 sequence http://purl.obolibrary.org/obo/SO_0001538 SO:0001538 http://purl.obolibrary.org/obo/SO_0001538 transcript_function_variant SO:ke http://purl.obolibrary.org/obo/SO_0001539 A sequence variant that affects the functioning of a translational product with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001539 kareneilbeck http://purl.obolibrary.org/obo/SO_0001539 2010-03-22T11:46:15Z http://purl.obolibrary.org/obo/SO_0001539 translational product variant http://purl.obolibrary.org/obo/SO_0001539 sequence http://purl.obolibrary.org/obo/SO_0001539 SO:0001539 http://purl.obolibrary.org/obo/SO_0001539 translational_product_function_variant SO:ke http://purl.obolibrary.org/obo/SO_0001540 A sequence variant which alters the level of a transcript. http://purl.obolibrary.org/obo/SO_0001540 kareneilbeck http://purl.obolibrary.org/obo/SO_0001540 2010-03-22T11:47:07Z http://purl.obolibrary.org/obo/SO_0001540 level of transcript variant http://purl.obolibrary.org/obo/SO_0001540 sequence http://purl.obolibrary.org/obo/SO_0001540 SO:0001540 http://purl.obolibrary.org/obo/SO_0001540 level_of_transcript_variant SO:ke http://purl.obolibrary.org/obo/SO_0001541 A sequence variant that increases the level of mature, spliced and processed RNA with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001541 kareneilbeck http://purl.obolibrary.org/obo/SO_0001541 2010-03-22T11:47:47Z http://purl.obolibrary.org/obo/SO_0001541 decreased transcript level http://purl.obolibrary.org/obo/SO_0001541 sequence http://purl.obolibrary.org/obo/SO_0001541 SO:0001541 http://purl.obolibrary.org/obo/SO_0001541 decreased_transcript_level_variant SO:ke http://purl.obolibrary.org/obo/SO_0001542 A sequence variant that increases the level of mature, spliced and processed RNA with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001542 kareneilbeck http://purl.obolibrary.org/obo/SO_0001542 2010-03-22T11:48:17Z http://purl.obolibrary.org/obo/SO_0001542 increased transcript level variant http://purl.obolibrary.org/obo/SO_0001542 sequence http://purl.obolibrary.org/obo/SO_0001542 SO:0001542 http://purl.obolibrary.org/obo/SO_0001542 increased_transcript_level_variant SO:ke http://purl.obolibrary.org/obo/SO_0001543 A sequence variant that affects the post transcriptional processing of a transcript with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001543 kareneilbeck http://purl.obolibrary.org/obo/SO_0001543 2010-03-22T11:48:48Z http://purl.obolibrary.org/obo/SO_0001543 transcript processing variant http://purl.obolibrary.org/obo/SO_0001543 sequence http://purl.obolibrary.org/obo/SO_0001543 SO:0001543 http://purl.obolibrary.org/obo/SO_0001543 transcript_processing_variant SO:ke http://purl.obolibrary.org/obo/SO_0001544 A transcript processing variant whereby the process of editing is disrupted with respect to the reference. http://purl.obolibrary.org/obo/SO_0001544 kareneilbeck http://purl.obolibrary.org/obo/SO_0001544 2010-03-22T11:49:25Z http://purl.obolibrary.org/obo/SO_0001544 editing variant http://purl.obolibrary.org/obo/SO_0001544 sequence http://purl.obolibrary.org/obo/SO_0001544 SO:0001544 http://purl.obolibrary.org/obo/SO_0001544 editing_variant SO:ke http://purl.obolibrary.org/obo/SO_0001545 A sequence variant that changes polyadenylation with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001545 kareneilbeck http://purl.obolibrary.org/obo/SO_0001545 2010-03-22T11:49:40Z http://purl.obolibrary.org/obo/SO_0001545 polyadenylation variant http://purl.obolibrary.org/obo/SO_0001545 sequence http://purl.obolibrary.org/obo/SO_0001545 SO:0001545 http://purl.obolibrary.org/obo/SO_0001545 polyadenylation_variant SO:ke http://purl.obolibrary.org/obo/SO_0001546 A variant that changes the stability of a transcript with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001546 kareneilbeck http://purl.obolibrary.org/obo/SO_0001546 2010-03-22T11:50:01Z http://purl.obolibrary.org/obo/SO_0001546 transcript stability variant http://purl.obolibrary.org/obo/SO_0001546 sequence http://purl.obolibrary.org/obo/SO_0001546 SO:0001546 http://purl.obolibrary.org/obo/SO_0001546 transcript_stability_variant SO:ke http://purl.obolibrary.org/obo/SO_0001547 A sequence variant that decreases transcript stability with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001547 kareneilbeck http://purl.obolibrary.org/obo/SO_0001547 2010-03-22T11:50:23Z http://purl.obolibrary.org/obo/SO_0001547 decrease transcript stability variant http://purl.obolibrary.org/obo/SO_0001547 sequence http://purl.obolibrary.org/obo/SO_0001547 SO:0001547 http://purl.obolibrary.org/obo/SO_0001547 decreased_transcript_stability_variant SO:ke http://purl.obolibrary.org/obo/SO_0001548 A sequence variant that increases transcript stability with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001548 kareneilbeck http://purl.obolibrary.org/obo/SO_0001548 2010-03-22T11:50:39Z http://purl.obolibrary.org/obo/SO_0001548 increased transcript stability variant http://purl.obolibrary.org/obo/SO_0001548 sequence http://purl.obolibrary.org/obo/SO_0001548 SO:0001548 http://purl.obolibrary.org/obo/SO_0001548 increased_transcript_stability_variant SO:ke http://purl.obolibrary.org/obo/SO_0001549 A variant that changes alters the transcription of a transcript with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001549 kareneilbeck http://purl.obolibrary.org/obo/SO_0001549 2010-03-22T11:51:26Z http://purl.obolibrary.org/obo/SO_0001549 transcription variant http://purl.obolibrary.org/obo/SO_0001549 sequence http://purl.obolibrary.org/obo/SO_0001549 SO:0001549 http://purl.obolibrary.org/obo/SO_0001549 transcription_variant SO:ke http://purl.obolibrary.org/obo/SO_0001550 A sequence variant that changes the rate of transcription with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001550 kareneilbeck http://purl.obolibrary.org/obo/SO_0001550 2010-03-22T11:51:50Z http://purl.obolibrary.org/obo/SO_0001550 rate of transcription variant http://purl.obolibrary.org/obo/SO_0001550 sequence http://purl.obolibrary.org/obo/SO_0001550 SO:0001550 http://purl.obolibrary.org/obo/SO_0001550 rate_of_transcription_variant SO:ke http://purl.obolibrary.org/obo/SO_0001551 A sequence variant that increases the rate of transcription with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001551 kareneilbeck http://purl.obolibrary.org/obo/SO_0001551 2010-03-22T11:52:17Z http://purl.obolibrary.org/obo/SO_0001551 increased transcription rate variant http://purl.obolibrary.org/obo/SO_0001551 sequence http://purl.obolibrary.org/obo/SO_0001551 SO:0001551 http://purl.obolibrary.org/obo/SO_0001551 increased_transcription_rate_variant SO:ke http://purl.obolibrary.org/obo/SO_0001552 A sequence variant that decreases the rate of transcription with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001552 kareneilbeck http://purl.obolibrary.org/obo/SO_0001552 2010-03-22T11:52:43Z http://purl.obolibrary.org/obo/SO_0001552 decreased transcription rate variant http://purl.obolibrary.org/obo/SO_0001552 sequence http://purl.obolibrary.org/obo/SO_0001552 SO:0001552 http://purl.obolibrary.org/obo/SO_0001552 decreased_transcription_rate_variant SO:ke http://purl.obolibrary.org/obo/SO_0001553 A functional variant that changes the translational product level with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001553 kareneilbeck http://purl.obolibrary.org/obo/SO_0001553 2010-03-22T11:53:32Z http://purl.obolibrary.org/obo/SO_0001553 translational product level variant http://purl.obolibrary.org/obo/SO_0001553 sequence http://purl.obolibrary.org/obo/SO_0001553 SO:0001553 http://purl.obolibrary.org/obo/SO_0001553 translational_product_level_variant SO:ke http://purl.obolibrary.org/obo/SO_0001554 A sequence variant which changes polypeptide functioning with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001554 kareneilbeck http://purl.obolibrary.org/obo/SO_0001554 2010-03-22T11:53:54Z http://purl.obolibrary.org/obo/SO_0001554 polypeptide function variant http://purl.obolibrary.org/obo/SO_0001554 sequence http://purl.obolibrary.org/obo/SO_0001554 SO:0001554 http://purl.obolibrary.org/obo/SO_0001554 polypeptide_function_variant SO:ke http://purl.obolibrary.org/obo/SO_0001555 A sequence variant which decreases the translational product level with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001555 kareneilbeck http://purl.obolibrary.org/obo/SO_0001555 2010-03-22T11:54:25Z http://purl.obolibrary.org/obo/SO_0001555 decrease translational product level http://purl.obolibrary.org/obo/SO_0001555 sequence http://purl.obolibrary.org/obo/SO_0001555 SO:0001555 http://purl.obolibrary.org/obo/SO_0001555 decreased_translational_product_level SO:ke http://purl.obolibrary.org/obo/SO_0001556 A sequence variant which increases the translational product level with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001556 kareneilbeck http://purl.obolibrary.org/obo/SO_0001556 2010-03-22T11:55:25Z http://purl.obolibrary.org/obo/SO_0001556 increase translational product level http://purl.obolibrary.org/obo/SO_0001556 sequence http://purl.obolibrary.org/obo/SO_0001556 SO:0001556 http://purl.obolibrary.org/obo/SO_0001556 increased_translational_product_level SO:ke http://purl.obolibrary.org/obo/SO_0001557 A sequence variant which causes gain of polypeptide function with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001557 kareneilbeck http://purl.obolibrary.org/obo/SO_0001557 2010-03-22T11:56:12Z http://purl.obolibrary.org/obo/SO_0001557 polypeptide gain of function variant http://purl.obolibrary.org/obo/SO_0001557 sequence http://purl.obolibrary.org/obo/SO_0001557 SO:0001557 http://purl.obolibrary.org/obo/SO_0001557 polypeptide_gain_of_function_variant SO:ke http://purl.obolibrary.org/obo/SO_0001558 A sequence variant which changes the localization of a polypeptide with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001558 kareneilbeck http://purl.obolibrary.org/obo/SO_0001558 2010-03-22T11:56:37Z http://purl.obolibrary.org/obo/SO_0001558 polypeptide localization variant http://purl.obolibrary.org/obo/SO_0001558 sequence http://purl.obolibrary.org/obo/SO_0001558 SO:0001558 http://purl.obolibrary.org/obo/SO_0001558 polypeptide_localization_variant SO:ke http://purl.obolibrary.org/obo/SO_0001559 A sequence variant that causes the loss of a polypeptide function with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001559 kareneilbeck http://purl.obolibrary.org/obo/SO_0001559 2010-03-22T11:56:58Z http://purl.obolibrary.org/obo/SO_0001559 polypeptide loss of function variant http://purl.obolibrary.org/obo/SO_0001559 sequence http://purl.obolibrary.org/obo/SO_0001559 SO:0001559 http://purl.obolibrary.org/obo/SO_0001559 polypeptide_loss_of_function_variant SO:ke http://purl.obolibrary.org/obo/SO_0001560 A sequence variant that causes the inactivation of a ligand binding site with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001560 kareneilbeck http://purl.obolibrary.org/obo/SO_0001560 2010-03-22T11:58:00Z http://purl.obolibrary.org/obo/SO_0001560 inactive ligand binding site http://purl.obolibrary.org/obo/SO_0001560 sequence http://purl.obolibrary.org/obo/SO_0001560 SO:0001560 http://purl.obolibrary.org/obo/SO_0001560 inactive_ligand_binding_site SO:ke http://purl.obolibrary.org/obo/SO_0001561 A sequence variant that causes some but not all loss of polypeptide function with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001561 kareneilbeck http://purl.obolibrary.org/obo/SO_0001561 2010-03-22T11:58:32Z http://purl.obolibrary.org/obo/SO_0001561 polypeptide partial loss of function http://purl.obolibrary.org/obo/SO_0001561 sequence http://purl.obolibrary.org/obo/SO_0001561 SO:0001561 http://purl.obolibrary.org/obo/SO_0001561 polypeptide_partial_loss_of_function SO:ke http://purl.obolibrary.org/obo/SO_0001562 A sequence variant that causes a change in post translational processing of the peptide with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001562 kareneilbeck http://purl.obolibrary.org/obo/SO_0001562 2010-03-22T11:59:06Z http://purl.obolibrary.org/obo/SO_0001562 polypeptide post translational processing variant http://purl.obolibrary.org/obo/SO_0001562 sequence http://purl.obolibrary.org/obo/SO_0001562 SO:0001562 http://purl.obolibrary.org/obo/SO_0001562 polypeptide_post_translational_processing_variant SO:ke http://purl.obolibrary.org/obo/SO_0001563 A sequence variant where copies of a feature (CNV) are either increased or decreased. http://purl.obolibrary.org/obo/SO_0001563 kareneilbeck http://purl.obolibrary.org/obo/SO_0001563 2010-03-22T02:27:33Z http://purl.obolibrary.org/obo/SO_0001563 copy number change http://purl.obolibrary.org/obo/SO_0001563 sequence http://purl.obolibrary.org/obo/SO_0001563 SO:0001563 http://purl.obolibrary.org/obo/SO_0001563 copy_number_change SO:ke http://purl.obolibrary.org/obo/SO_0001564 A sequence variant where the structure of the gene is changed. http://purl.obolibrary.org/obo/SO_0001564 kareneilbeck http://purl.obolibrary.org/obo/SO_0001564 2010-03-22T02:28:01Z http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001564 VAAST:gene_variant http://purl.obolibrary.org/obo/SO_0001564 gene structure variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001564 snpEff:GENE http://purl.obolibrary.org/obo/SO_0001564 sequence http://purl.obolibrary.org/obo/SO_0001564 SO:0001564 http://purl.obolibrary.org/obo/SO_0001564 gene_variant SO:ke http://purl.obolibrary.org/obo/SO_0001565 A sequence variant whereby a two genes have become joined. http://purl.obolibrary.org/obo/SO_0001565 kareneilbeck http://purl.obolibrary.org/obo/SO_0001565 2010-03-22T02:28:28Z http://purl.obolibrary.org/obo/SO_0001565 gene fusion http://purl.obolibrary.org/obo/SO_0001565 sequence http://purl.obolibrary.org/obo/SO_0001565 SO:0001565 http://purl.obolibrary.org/obo/SO_0001565 gene_fusion SO:ke http://purl.obolibrary.org/obo/SO_0001566 A sequence variant located within a regulatory region. http://purl.obolibrary.org/obo/SO_0001566 kareneilbeck http://purl.obolibrary.org/obo/SO_0001566 2010-03-22T02:28:48Z http://purl.obolibrary.org/obo/SO_0001566 regulatory region variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001566 regulatory_region_ http://purl.obolibrary.org/obo/SO_0001566 sequence http://purl.obolibrary.org/obo/SO_0001566 SO:0001566 http://purl.obolibrary.org/obo/SO_0001566 EBI term: Regulatory region variations - In regulatory region annotated by Ensembl. http://purl.obolibrary.org/obo/SO_0001566 regulatory_region_variant SO:ke http://purl.obolibrary.org/obo/SO_0001567 A sequence variant where at least one base in the terminator codon is changed, but the terminator remains. http://purl.obolibrary.org/obo/SO_0001567 kareneilbeck http://purl.obolibrary.org/obo/SO_0001567 2010-04-19T05:02:30Z http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001567 VAAST:stop_retained http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001567 snpEff:SYNONYMOUS_STOP http://purl.obolibrary.org/obo/SO_0001567 stop retained variant http://purl.obolibrary.org/obo/SO_0001567 sequence http://purl.obolibrary.org/obo/SO_0001567 SO:0001567 http://purl.obolibrary.org/obo/SO_0001567 stop_retained_variant SO:ke http://purl.obolibrary.org/obo/SO_0001568 A sequence variant that changes the process of splicing. http://purl.obolibrary.org/obo/SO_0001568 kareneilbeck http://purl.obolibrary.org/obo/SO_0001568 2010-03-22T02:29:22Z http://purl.obolibrary.org/obo/SO_0001568 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_0001568 splicing variant http://purl.obolibrary.org/obo/SO_0001568 sequence http://purl.obolibrary.org/obo/SO_0001568 SO:0001568 http://purl.obolibrary.org/obo/SO_0001568 splicing_variant EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_0001569 A sequence variant causing a new (functional) splice site. http://purl.obolibrary.org/obo/SO_0001569 kareneilbeck http://purl.obolibrary.org/obo/SO_0001569 2010-03-22T02:29:41Z http://purl.obolibrary.org/obo/SO_0001569 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_0001569 cryptic splice site activation http://purl.obolibrary.org/obo/SO_0001569 sequence http://purl.obolibrary.org/obo/SO_0001569 SO:0001569 http://purl.obolibrary.org/obo/SO_0001569 cryptic_splice_site_variant SO:ke http://purl.obolibrary.org/obo/SO_0001570 A sequence variant whereby a new splice site is created due to the activation of a new acceptor. http://purl.obolibrary.org/obo/SO_0001570 kareneilbeck http://purl.obolibrary.org/obo/SO_0001570 2010-03-22T02:30:11Z http://purl.obolibrary.org/obo/SO_0001570 cryptic splice acceptor http://purl.obolibrary.org/obo/SO_0001570 sequence http://purl.obolibrary.org/obo/SO_0001570 SO:0001570 http://purl.obolibrary.org/obo/SO_0001570 cryptic_splice_acceptor SO:ke http://purl.obolibrary.org/obo/SO_0001571 A sequence variant whereby a new splice site is created due to the activation of a new donor. http://purl.obolibrary.org/obo/SO_0001571 kareneilbeck http://purl.obolibrary.org/obo/SO_0001571 2010-03-22T02:30:35Z http://purl.obolibrary.org/obo/SO_0001571 cryptic splice donor http://purl.obolibrary.org/obo/SO_0001571 sequence http://purl.obolibrary.org/obo/SO_0001571 SO:0001571 http://purl.obolibrary.org/obo/SO_0001571 cryptic_splice_donor SO:ke http://purl.obolibrary.org/obo/SO_0001572 A sequence variant whereby an exon is lost from the transcript. http://purl.obolibrary.org/obo/SO_0001572 kareneilbeck http://purl.obolibrary.org/obo/SO_0001572 2010-03-22T02:31:09Z http://purl.obolibrary.org/obo/SO_0001572 exon loss http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001572 snpEff:EXON_DELETED http://purl.obolibrary.org/obo/SO_0001572 sequence http://purl.obolibrary.org/obo/SO_0001572 SO:0001572 http://purl.obolibrary.org/obo/SO_0001572 exon_loss_variant EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_0001573 A sequence variant whereby an intron is gained by the processed transcript; usually a result of an alteration of the donor or acceptor. http://purl.obolibrary.org/obo/SO_0001573 kareneilbeck http://purl.obolibrary.org/obo/SO_0001573 2010-03-22T02:31:25Z http://purl.obolibrary.org/obo/SO_0001573 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_0001573 intron gain http://purl.obolibrary.org/obo/SO_0001573 intron gain variant http://purl.obolibrary.org/obo/SO_0001573 sequence http://purl.obolibrary.org/obo/SO_0001573 SO:0001573 http://purl.obolibrary.org/obo/SO_0001573 intron_gain_variant SO:ke http://purl.obolibrary.org/obo/SO_0001574 A splice variant that changes the 2 base region at the 3' end of an intron. http://purl.obolibrary.org/obo/SO_0001574 kareneilbeck http://purl.obolibrary.org/obo/SO_0001574 2010-03-22T02:31:52Z http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001574 VAAST:splice_acceptor_variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001574 snpEff:SPLICE_SITE_ACCEPTOR http://purl.obolibrary.org/obo/SO_0001574 splice acceptor variant http://purl.obolibrary.org/obo/SO_0001574 sequence http://purl.obolibrary.org/obo/SO_0001574 SO:0001574 http://purl.obolibrary.org/obo/SO_0001574 splice_acceptor_variant SO:ke http://purl.obolibrary.org/obo/SO_0001575 A splice variant that changes the 2 base pair region at the 5' end of an intron. http://purl.obolibrary.org/obo/SO_0001575 kareneilbeck http://purl.obolibrary.org/obo/SO_0001575 2010-03-22T02:32:10Z http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001575 VAAST:splice_donor_variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001575 snpEff:SPLICE_SITE_DONOR http://purl.obolibrary.org/obo/SO_0001575 splice donor variant http://purl.obolibrary.org/obo/SO_0001575 sequence http://purl.obolibrary.org/obo/SO_0001575 SO:0001575 http://purl.obolibrary.org/obo/SO_0001575 splice_donor_variant SO:ke http://purl.obolibrary.org/obo/SO_0001576 A sequence variant that changes the structure of the transcript. http://purl.obolibrary.org/obo/SO_0001576 kareneilbeck http://purl.obolibrary.org/obo/SO_0001576 2010-03-22T02:32:41Z http://purl.obolibrary.org/obo/SO_0001576 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001576 VAAST:transcript_variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001576 snpEff:TRANSCRIPT http://purl.obolibrary.org/obo/SO_0001576 transcript variant http://purl.obolibrary.org/obo/SO_0001576 sequence http://purl.obolibrary.org/obo/SO_0001576 SO:0001576 http://purl.obolibrary.org/obo/SO_0001576 transcript_variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/SO_0001577 A transcript variant with a complex INDEL- Insertion or deletion that spans an exon/intron border or a coding sequence/UTR border. http://purl.obolibrary.org/obo/SO_0001577 kareneilbeck http://purl.obolibrary.org/obo/SO_0001577 2010-03-22T02:33:03Z http://purl.obolibrary.org/obo/SO_0001577 complex transcript variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001577 complex_indel http://purl.obolibrary.org/obo/SO_0001577 complext change in transcript http://purl.obolibrary.org/obo/SO_0001577 sequence http://purl.obolibrary.org/obo/SO_0001577 SO:0001577 http://purl.obolibrary.org/obo/SO_0001577 EBI term: Complex InDel - Insertion or deletion that spans an exon/intron border or a coding sequence/UTR border. http://purl.obolibrary.org/obo/SO_0001577 complex_transcript_variant SO:ke http://purl.obolibrary.org/obo/SO_0001578 A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript. http://purl.obolibrary.org/obo/SO_0001578 kareneilbeck http://purl.obolibrary.org/obo/SO_0001578 2010-03-23T03:46:42Z http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001578 ANNOVAR:stoploss http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001578 VAAST:stop_lost http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001578 snpEff:STOP_LOST http://purl.obolibrary.org/obo/SO_0001578 stop codon lost http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001578 stop lost http://purl.obolibrary.org/obo/SO_0001578 sequence http://purl.obolibrary.org/obo/SO_0001578 SO:0001578 http://purl.obolibrary.org/obo/SO_0001578 EBI term: Stop lost - In coding sequence, resulting in the loss of a stop codon. http://purl.obolibrary.org/obo/SO_0001578 stop_lost http://purl.obolibrary.org/obo/SO_0001579 transcript sequence variant http://purl.obolibrary.org/obo/SO_0001579 sequence http://purl.obolibrary.org/obo/SO_0001579 SO:0001579 http://purl.obolibrary.org/obo/SO_0001579 transcript_sequence_variant http://purl.obolibrary.org/obo/SO_0001579 true SO:ke http://purl.obolibrary.org/obo/SO_0001580 A sequence variant that changes the coding sequence. http://purl.obolibrary.org/obo/SO_0001580 kareneilbeck http://purl.obolibrary.org/obo/SO_0001580 2010-03-22T02:34:36Z http://purl.obolibrary.org/obo/SO_0001580 SO:0001581 http://purl.obolibrary.org/obo/SO_0001580 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001580 VAAST:coding_sequence_variant http://purl.obolibrary.org/obo/SO_0001580 coding sequence variant http://purl.obolibrary.org/obo/SO_0001580 coding variant http://purl.obolibrary.org/obo/SO_0001580 codon variant http://purl.obolibrary.org/obo/SO_0001580 codon_variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001580 snpEff:CDS http://purl.obolibrary.org/obo/SO_0001580 sequence http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001580 snpEff:CODON_CHANGE http://purl.obolibrary.org/obo/SO_0001580 SO:0001580 http://purl.obolibrary.org/obo/SO_0001580 coding_sequence_variant SO:ke http://purl.obolibrary.org/obo/SO_0001582 A codon variant that changes at least one base of the first codon of a transcript. http://purl.obolibrary.org/obo/SO_0001582 kareneilbeck http://purl.obolibrary.org/obo/SO_0001582 2010-03-22T02:35:18Z http://purl.obolibrary.org/obo/SO_0001582 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html Initiating Methionine http://purl.obolibrary.org/obo/SO_0001582 loinc:LA6695-6 http://purl.obolibrary.org/obo/SO_0001582 initiatior codon variant http://purl.obolibrary.org/obo/SO_0001582 initiator codon change http://purl.obolibrary.org/obo/SO_0001582 sequence http://purl.obolibrary.org/obo/SO_0001582 SO:0001582 http://purl.obolibrary.org/obo/SO_0001582 This is being used to annotate changes to the first codon of a transcript, when the first annotated codon is not to methionine. A variant is predicted to change the first amino acid of a translation irrespective of the fact that the underlying codon is an AUG. As such for transcripts with an incomplete CDS (sequence does not start with an AUG), it is still called. http://purl.obolibrary.org/obo/SO_0001582 initiator_codon_variant EBI:fc EBI:gr SO:ke http://purl.obolibrary.org/obo/SO_0001583 A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preserved. http://purl.obolibrary.org/obo/SO_0001583 kareneilbeck http://purl.obolibrary.org/obo/SO_0001583 2010-03-22T02:35:49Z http://purl.obolibrary.org/obo/SO_0001583 SO:0001584 http://purl.obolibrary.org/obo/SO_0001583 SO:0001783 http://purl.obolibrary.org/obo/SO_0001583 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_0001583 http://en.wikipedia.org/wiki/Missense_mutation Missense http://purl.obolibrary.org/obo/SO_0001583 loinc:LA6698-0 ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd http://purl.obolibrary.org/obo/SO_0001583 missense http://purl.obolibrary.org/obo/SO_0001583 missense codon http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001583 snpEff:NON_SYSNONYMOUS_CODING http://purl.obolibrary.org/obo/SO_0001583 sequence http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001583 ANNOVAR:nonsynonymous SNV http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001583 VAAST:non_synonymous_codon http://purl.obolibrary.org/obo/SO_0001583 SO:0001583 http://purl.obolibrary.org/obo/SO_0001583 EBI term: Non-synonymous SNPs. SNPs that are located in the coding sequence and result in an amino acid change in the encoded peptide sequence. A change that causes a non_synonymous_codon can be more than 3 bases - for example 4 base substitution. http://purl.obolibrary.org/obo/SO_0001583 missense_variant SO:ke http://purl.obolibrary.org/obo/SO_0001585 A sequence variant whereby at least one base of a codon is changed resulting in a codon that encodes for a different but similar amino acid. These variants may or may not be deleterious. http://purl.obolibrary.org/obo/SO_0001585 kareneilbeck http://purl.obolibrary.org/obo/SO_0001585 2010-03-22T02:36:40Z http://purl.obolibrary.org/obo/SO_0001585 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_0001585 conservative missense codon http://purl.obolibrary.org/obo/SO_0001585 conservative missense variant http://purl.obolibrary.org/obo/SO_0001585 sequence http://purl.obolibrary.org/obo/SO_0001585 neutral missense codon http://purl.obolibrary.org/obo/SO_0001585 quiet missense codon http://purl.obolibrary.org/obo/SO_0001585 SO:0001585 http://purl.obolibrary.org/obo/SO_0001585 conservative_missense_variant SO:ke http://purl.obolibrary.org/obo/SO_0001586 A sequence variant whereby at least one base of a codon is changed resulting in a codon that encodes for an amino acid with different biochemical properties. http://purl.obolibrary.org/obo/SO_0001586 kareneilbeck http://purl.obolibrary.org/obo/SO_0001586 2010-03-22T02:37:16Z http://purl.obolibrary.org/obo/SO_0001586 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_0001586 non conservative missense codon http://purl.obolibrary.org/obo/SO_0001586 non conservative missense variant http://purl.obolibrary.org/obo/SO_0001586 sequence http://purl.obolibrary.org/obo/SO_0001586 SO:0001586 http://purl.obolibrary.org/obo/SO_0001586 non_conservative_missense_variant SO:ke http://purl.obolibrary.org/obo/SO_0001587 A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript. http://purl.obolibrary.org/obo/SO_0001587 kareneilbeck http://purl.obolibrary.org/obo/SO_0001587 2010-03-22T02:37:52Z Nonsense http://purl.obolibrary.org/obo/SO_0001587 loinc:LA6699-8 http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001587 ANNOVAR:stopgain http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001587 VAAST:stop_gained ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd http://purl.obolibrary.org/obo/so-xp.obo#dbsnp http://purl.obolibrary.org/obo/SO_0001587 nonsense http://purl.obolibrary.org/obo/SO_0001587 nonsense codon http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001587 snpEFF:STOP_GAINED http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001587 stop gained http://purl.obolibrary.org/obo/SO_0001587 sequence http://purl.obolibrary.org/obo/SO_0001587 stop codon gained http://purl.obolibrary.org/obo/SO_0001587 SO:0001587 http://purl.obolibrary.org/obo/SO_0001587 EBI term: Stop gained - In coding sequence, resulting in the gain of a stop codon (i.e. leading to a shortened peptide sequence). http://purl.obolibrary.org/obo/SO_0001587 stop_gained SO:ke http://purl.obolibrary.org/obo/SO_0001589 A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three. http://purl.obolibrary.org/obo/SO_0001589 kareneilbeck http://purl.obolibrary.org/obo/SO_0001589 2010-03-22T02:40:19Z Frameshift http://purl.obolibrary.org/obo/SO_0001589 loinc:LA6694-9 http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001589 VAAST:frameshift_variant http://purl.obolibrary.org/obo/SO_0001589 frameshift variant ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd http://purl.obolibrary.org/obo/so-xp.obo#dbsnp http://purl.obolibrary.org/obo/SO_0001589 frameshift_ http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001589 frameshift_coding http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001589 snpEff:FRAME_SHIFT http://purl.obolibrary.org/obo/SO_0001589 sequence http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001589 ANNOVAR:frameshift block substitution http://purl.obolibrary.org/obo/SO_0001589 SO:0001589 http://purl.obolibrary.org/obo/SO_0001589 EBI term:Frameshift variations - In coding sequence, resulting in a frameshift. http://purl.obolibrary.org/obo/SO_0001589 frameshift_variant SO:ke http://purl.obolibrary.org/obo/SO_0001590 A sequence variant whereby at least one of the bases in the terminator codon is changed. http://purl.obolibrary.org/obo/SO_0001590 kareneilbeck http://purl.obolibrary.org/obo/SO_0001590 2010-03-22T02:40:37Z http://purl.obolibrary.org/obo/SO_0001590 SO:0001625 Stop Codon Mutation http://purl.obolibrary.org/obo/SO_0001590 loinc:LA6700-2 http://purl.obolibrary.org/obo/SO_0001590 terminal codon variant http://purl.obolibrary.org/obo/SO_0001590 terminal_codon_variant http://purl.obolibrary.org/obo/SO_0001590 terminator codon variant http://purl.obolibrary.org/obo/SO_0001590 sequence http://purl.obolibrary.org/obo/SO_0001590 SO:0001590 http://purl.obolibrary.org/obo/SO_0001590 The terminal codon may be the terminator, or in an incomplete transcript the last available codon. http://purl.obolibrary.org/obo/SO_0001590 terminator_codon_variant SO:ke http://purl.obolibrary.org/obo/SO_0001591 A sequence variant that reverts the sequence of a previous frameshift mutation back to the initial frame. http://purl.obolibrary.org/obo/SO_0001591 kareneilbeck http://purl.obolibrary.org/obo/SO_0001591 2010-03-22T02:41:09Z http://purl.obolibrary.org/obo/SO_0001591 frame restoring variant http://purl.obolibrary.org/obo/SO_0001591 sequence http://purl.obolibrary.org/obo/SO_0001591 SO:0001591 http://purl.obolibrary.org/obo/SO_0001591 frame_restoring_variant http://arjournals.annualreviews.org/doi/pdf/10.1146/annurev.ge.08.120174.001535 http://purl.obolibrary.org/obo/SO_0001592 A sequence variant which causes a disruption of the translational reading frame, by shifting one base ahead. http://purl.obolibrary.org/obo/SO_0001592 kareneilbeck http://purl.obolibrary.org/obo/SO_0001592 2010-03-22T02:41:30Z http://purl.obolibrary.org/obo/SO_0001592 -1 frameshift variant http://purl.obolibrary.org/obo/SO_0001592 minus 1 frameshift variant http://purl.obolibrary.org/obo/SO_0001592 sequence http://purl.obolibrary.org/obo/SO_0001592 SO:0001592 http://purl.obolibrary.org/obo/SO_0001592 minus_1_frameshift_variant http://purl.obolibrary.org/obo/SO_0001593 kareneilbeck http://purl.obolibrary.org/obo/SO_0001593 2010-03-22T02:41:52Z http://purl.obolibrary.org/obo/SO_0001593 -2 frameshift variant http://purl.obolibrary.org/obo/SO_0001593 minus 2 frameshift variant http://purl.obolibrary.org/obo/SO_0001593 sequence http://purl.obolibrary.org/obo/SO_0001593 SO:0001593 http://purl.obolibrary.org/obo/SO_0001593 minus_2_frameshift_variant http://arjournals.annualreviews.org/doi/pdf/10.1146/annurev.ge.08.120174.001535 http://purl.obolibrary.org/obo/SO_0001594 A sequence variant which causes a disruption of the translational reading frame, by shifting one base backward. http://purl.obolibrary.org/obo/SO_0001594 kareneilbeck http://purl.obolibrary.org/obo/SO_0001594 2010-03-22T02:42:06Z http://purl.obolibrary.org/obo/SO_0001594 +1 frameshift variant http://purl.obolibrary.org/obo/SO_0001594 plus 1 frameshift variant http://purl.obolibrary.org/obo/SO_0001594 sequence http://purl.obolibrary.org/obo/SO_0001594 SO:0001594 http://purl.obolibrary.org/obo/SO_0001594 plus_1_frameshift_variant http://purl.obolibrary.org/obo/SO_0001595 kareneilbeck http://purl.obolibrary.org/obo/SO_0001595 2010-03-22T02:42:23Z http://purl.obolibrary.org/obo/SO_0001595 +2 frameshift variant http://purl.obolibrary.org/obo/SO_0001595 plus 2 frameshift variant http://purl.obolibrary.org/obo/SO_0001595 sequence http://purl.obolibrary.org/obo/SO_0001595 SO:0001595 http://purl.obolibrary.org/obo/SO_0001595 plus_2_frameshift_variant SO:ke http://purl.obolibrary.org/obo/SO_0001596 A sequence variant within a transcript that changes the secondary structure of the RNA product. http://purl.obolibrary.org/obo/SO_0001596 kareneilbeck http://purl.obolibrary.org/obo/SO_0001596 2010-03-22T02:43:18Z http://purl.obolibrary.org/obo/SO_0001596 transcript secondary structure variant http://purl.obolibrary.org/obo/SO_0001596 sequence http://purl.obolibrary.org/obo/SO_0001596 SO:0001596 http://purl.obolibrary.org/obo/SO_0001596 transcript_secondary_structure_variant SO:ke http://purl.obolibrary.org/obo/SO_0001597 A secondary structure variant that compensate for the change made by a previous variant. http://purl.obolibrary.org/obo/SO_0001597 kareneilbeck http://purl.obolibrary.org/obo/SO_0001597 2010-03-22T02:43:54Z http://purl.obolibrary.org/obo/SO_0001597 compensatory transcript secondary structure variant http://purl.obolibrary.org/obo/SO_0001597 sequence http://purl.obolibrary.org/obo/SO_0001597 SO:0001597 http://purl.obolibrary.org/obo/SO_0001597 compensatory_transcript_secondary_structure_variant SO:ke http://purl.obolibrary.org/obo/SO_0001598 A sequence variant within the transcript that changes the structure of the translational product. http://purl.obolibrary.org/obo/SO_0001598 kareneilbeck http://purl.obolibrary.org/obo/SO_0001598 2010-03-22T02:44:17Z http://purl.obolibrary.org/obo/SO_0001598 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_0001598 translational product structure variant http://purl.obolibrary.org/obo/SO_0001598 sequence http://purl.obolibrary.org/obo/SO_0001598 SO:0001598 http://purl.obolibrary.org/obo/SO_0001598 translational_product_structure_variant SO:ke http://purl.obolibrary.org/obo/SO_0001599 A sequence variant that changes the resulting polypeptide structure. http://purl.obolibrary.org/obo/SO_0001599 kareneilbeck http://purl.obolibrary.org/obo/SO_0001599 2010-03-22T02:44:46Z http://purl.obolibrary.org/obo/SO_0001599 3D polypeptide structure variant http://purl.obolibrary.org/obo/SO_0001599 sequence http://purl.obolibrary.org/obo/SO_0001599 SO:0001599 http://purl.obolibrary.org/obo/SO_0001599 3D_polypeptide_structure_variant SO:ke http://purl.obolibrary.org/obo/SO_0001600 A sequence variant that changes the resulting polypeptide structure. http://purl.obolibrary.org/obo/SO_0001600 kareneilbeck http://purl.obolibrary.org/obo/SO_0001600 2010-03-22T02:45:13Z http://purl.obolibrary.org/obo/SO_0001600 complex 3D structural variant http://purl.obolibrary.org/obo/SO_0001600 sequence http://purl.obolibrary.org/obo/SO_0001600 SO:0001600 http://purl.obolibrary.org/obo/SO_0001600 complex_3D_structural_variant SO:ke http://purl.obolibrary.org/obo/SO_0001601 A sequence variant in the CDS region that causes a conformational change in the resulting polypeptide sequence. http://purl.obolibrary.org/obo/SO_0001601 kareneilbeck http://purl.obolibrary.org/obo/SO_0001601 2010-03-22T02:45:48Z http://purl.obolibrary.org/obo/SO_0001601 conformational change variant http://purl.obolibrary.org/obo/SO_0001601 sequence http://purl.obolibrary.org/obo/SO_0001601 SO:0001601 http://purl.obolibrary.org/obo/SO_0001601 conformational_change_variant http://purl.obolibrary.org/obo/SO_0001602 kareneilbeck http://purl.obolibrary.org/obo/SO_0001602 2010-03-22T02:46:54Z http://purl.obolibrary.org/obo/SO_0001602 complex change of translational product variant http://purl.obolibrary.org/obo/SO_0001602 sequence http://purl.obolibrary.org/obo/SO_0001602 SO:0001602 http://purl.obolibrary.org/obo/SO_0001602 complex_change_of_translational_product_variant SO:ke http://purl.obolibrary.org/obo/SO_0001603 A sequence variant with in the CDS that causes a change in the resulting polypeptide sequence. http://purl.obolibrary.org/obo/SO_0001603 kareneilbeck http://purl.obolibrary.org/obo/SO_0001603 2010-03-22T02:47:13Z http://purl.obolibrary.org/obo/SO_0001603 polypeptide sequence variant http://purl.obolibrary.org/obo/SO_0001603 sequence http://purl.obolibrary.org/obo/SO_0001603 SO:0001603 http://purl.obolibrary.org/obo/SO_0001603 polypeptide_sequence_variant SO:ke http://purl.obolibrary.org/obo/SO_0001604 A sequence variant within a CDS resulting in the loss of an amino acid from the resulting polypeptide. http://purl.obolibrary.org/obo/SO_0001604 kareneilbeck http://purl.obolibrary.org/obo/SO_0001604 2010-03-22T02:47:36Z http://purl.obolibrary.org/obo/SO_0001604 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_0001604 amino acid deletion http://purl.obolibrary.org/obo/SO_0001604 sequence http://purl.obolibrary.org/obo/SO_0001604 SO:0001604 http://purl.obolibrary.org/obo/SO_0001604 amino_acid_deletion SO:ke http://purl.obolibrary.org/obo/SO_0001605 A sequence variant within a CDS resulting in the gain of an amino acid to the resulting polypeptide. http://purl.obolibrary.org/obo/SO_0001605 kareneilbeck http://purl.obolibrary.org/obo/SO_0001605 2010-03-22T02:47:56Z http://purl.obolibrary.org/obo/SO_0001605 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_0001605 amino acid insertion http://purl.obolibrary.org/obo/SO_0001605 sequence http://purl.obolibrary.org/obo/SO_0001605 SO:0001605 http://purl.obolibrary.org/obo/SO_0001605 amino_acid_insertion SO:ke http://purl.obolibrary.org/obo/SO_0001606 A sequence variant of a codon resulting in the substitution of one amino acid for another in the resulting polypeptide. http://purl.obolibrary.org/obo/SO_0001606 kareneilbeck http://purl.obolibrary.org/obo/SO_0001606 2010-03-22T02:48:17Z http://purl.obolibrary.org/obo/SO_0001606 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001606 VAAST:amino_acid_substitution http://purl.obolibrary.org/obo/SO_0001606 amino acid substitution http://purl.obolibrary.org/obo/SO_0001606 sequence http://purl.obolibrary.org/obo/SO_0001606 SO:0001606 http://purl.obolibrary.org/obo/SO_0001606 amino_acid_substitution SO:ke http://purl.obolibrary.org/obo/SO_0001607 A sequence variant of a codon causing the substitution of a similar amino acid for another in the resulting polypeptide. http://purl.obolibrary.org/obo/SO_0001607 kareneilbeck http://purl.obolibrary.org/obo/SO_0001607 2010-03-22T02:48:57Z http://purl.obolibrary.org/obo/SO_0001607 conservative amino acid substitution http://purl.obolibrary.org/obo/SO_0001607 sequence http://purl.obolibrary.org/obo/SO_0001607 SO:0001607 http://purl.obolibrary.org/obo/SO_0001607 conservative_amino_acid_substitution SO:ke http://purl.obolibrary.org/obo/SO_0001608 A sequence variant of a codon causing the substitution of a non conservative amino acid for another in the resulting polypeptide. http://purl.obolibrary.org/obo/SO_0001608 kareneilbeck http://purl.obolibrary.org/obo/SO_0001608 2010-03-22T02:49:23Z http://purl.obolibrary.org/obo/SO_0001608 non conservative amino acid substitution http://purl.obolibrary.org/obo/SO_0001608 sequence http://purl.obolibrary.org/obo/SO_0001608 SO:0001608 http://purl.obolibrary.org/obo/SO_0001608 non_conservative_amino_acid_substitution SO:ke http://purl.obolibrary.org/obo/SO_0001609 A sequence variant with in the CDS that causes elongation of the resulting polypeptide sequence. http://purl.obolibrary.org/obo/SO_0001609 kareneilbeck http://purl.obolibrary.org/obo/SO_0001609 2010-03-22T02:49:52Z http://purl.obolibrary.org/obo/SO_0001609 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_0001609 elongated polypeptide http://purl.obolibrary.org/obo/SO_0001609 sequence http://purl.obolibrary.org/obo/SO_0001609 SO:0001609 http://purl.obolibrary.org/obo/SO_0001609 elongated_polypeptide SO:ke http://purl.obolibrary.org/obo/SO_0001610 A sequence variant with in the CDS that causes elongation of the resulting polypeptide sequence at the C terminus. http://purl.obolibrary.org/obo/SO_0001610 kareneilbeck http://purl.obolibrary.org/obo/SO_0001610 2010-03-22T02:50:20Z http://purl.obolibrary.org/obo/SO_0001610 elongated polypeptide C terminal http://purl.obolibrary.org/obo/SO_0001610 sequence http://purl.obolibrary.org/obo/SO_0001610 SO:0001610 http://purl.obolibrary.org/obo/SO_0001610 elongated_polypeptide_C_terminal SO:ke http://purl.obolibrary.org/obo/SO_0001611 A sequence variant with in the CDS that causes elongation of the resulting polypeptide sequence at the N terminus. http://purl.obolibrary.org/obo/SO_0001611 kareneilbeck http://purl.obolibrary.org/obo/SO_0001611 2010-03-22T02:50:31Z http://purl.obolibrary.org/obo/SO_0001611 elongated polypeptide N terminal http://purl.obolibrary.org/obo/SO_0001611 sequence http://purl.obolibrary.org/obo/SO_0001611 SO:0001611 http://purl.obolibrary.org/obo/SO_0001611 elongated_polypeptide_N_terminal SO:ke http://purl.obolibrary.org/obo/SO_0001612 A sequence variant with in the CDS that causes in frame elongation of the resulting polypeptide sequence at the C terminus. http://purl.obolibrary.org/obo/SO_0001612 kareneilbeck http://purl.obolibrary.org/obo/SO_0001612 2010-03-22T02:51:05Z http://purl.obolibrary.org/obo/SO_0001612 elongated in frame polypeptide C terminal http://purl.obolibrary.org/obo/SO_0001612 sequence http://purl.obolibrary.org/obo/SO_0001612 SO:0001612 http://purl.obolibrary.org/obo/SO_0001612 elongated_in_frame_polypeptide_C_terminal SO:ke http://purl.obolibrary.org/obo/SO_0001613 A sequence variant with in the CDS that causes out of frame elongation of the resulting polypeptide sequence at the C terminus. http://purl.obolibrary.org/obo/SO_0001613 kareneilbeck http://purl.obolibrary.org/obo/SO_0001613 2010-03-22T02:51:20Z http://purl.obolibrary.org/obo/SO_0001613 elongated polypeptide out of frame C terminal http://purl.obolibrary.org/obo/SO_0001613 sequence http://purl.obolibrary.org/obo/SO_0001613 SO:0001613 http://purl.obolibrary.org/obo/SO_0001613 elongated_out_of_frame_polypeptide_C_terminal SO:ke http://purl.obolibrary.org/obo/SO_0001614 A sequence variant with in the CDS that causes in frame elongation of the resulting polypeptide sequence at the N terminus. http://purl.obolibrary.org/obo/SO_0001614 kareneilbeck http://purl.obolibrary.org/obo/SO_0001614 2010-03-22T02:51:49Z http://purl.obolibrary.org/obo/SO_0001614 elongated in frame polypeptide N terminal http://purl.obolibrary.org/obo/SO_0001614 sequence http://purl.obolibrary.org/obo/SO_0001614 SO:0001614 http://purl.obolibrary.org/obo/SO_0001614 elongated_in_frame_polypeptide_N_terminal_elongation SO:ke http://purl.obolibrary.org/obo/SO_0001615 A sequence variant with in the CDS that causes out of frame elongation of the resulting polypeptide sequence at the N terminus. http://purl.obolibrary.org/obo/SO_0001615 kareneilbeck http://purl.obolibrary.org/obo/SO_0001615 2010-03-22T02:52:05Z http://purl.obolibrary.org/obo/SO_0001615 elongated out of frame N terminal http://purl.obolibrary.org/obo/SO_0001615 sequence http://purl.obolibrary.org/obo/SO_0001615 SO:0001615 http://purl.obolibrary.org/obo/SO_0001615 elongated_out_of_frame_polypeptide_N_terminal SO:ke http://purl.obolibrary.org/obo/SO_0001616 A sequence variant that causes a fusion of two polypeptide sequences. http://purl.obolibrary.org/obo/SO_0001616 kareneilbeck http://purl.obolibrary.org/obo/SO_0001616 2010-03-22T02:52:43Z http://purl.obolibrary.org/obo/SO_0001616 polypeptide fusion http://purl.obolibrary.org/obo/SO_0001616 sequence http://purl.obolibrary.org/obo/SO_0001616 SO:0001616 http://purl.obolibrary.org/obo/SO_0001616 polypeptide_fusion SO:ke http://purl.obolibrary.org/obo/SO_0001617 A sequence variant of the CD that causes a truncation of the resulting polypeptide. http://purl.obolibrary.org/obo/SO_0001617 kareneilbeck http://purl.obolibrary.org/obo/SO_0001617 2010-03-22T02:53:07Z http://purl.obolibrary.org/obo/SO_0001617 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_0001617 polypeptide truncation http://purl.obolibrary.org/obo/SO_0001617 sequence http://purl.obolibrary.org/obo/SO_0001617 SO:0001617 http://purl.obolibrary.org/obo/SO_0001617 polypeptide_truncation SO:ke http://purl.obolibrary.org/obo/SO_0001618 A sequence variant that causes the inactivation of a catalytic site with respect to a reference sequence. http://purl.obolibrary.org/obo/SO_0001618 kareneilbeck http://purl.obolibrary.org/obo/SO_0001618 2010-03-22T03:06:14Z http://purl.obolibrary.org/obo/SO_0001618 inactive catalytic site http://purl.obolibrary.org/obo/SO_0001618 sequence http://purl.obolibrary.org/obo/SO_0001618 SO:0001618 http://purl.obolibrary.org/obo/SO_0001618 inactive_catalytic_site SO:ke http://purl.obolibrary.org/obo/SO_0001619 A transcript variant of a non coding RNA gene. http://purl.obolibrary.org/obo/SO_0001619 kareneilbeck http://purl.obolibrary.org/obo/SO_0001619 2010-03-23T11:16:23Z http://purl.obolibrary.org/obo/SO_0001619 nc transcript variant http://purl.obolibrary.org/obo/SO_0001619 non coding transcript variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#dbsnp http://purl.obolibrary.org/obo/SO_0001619 within_non_coding_gene http://purl.obolibrary.org/obo/SO_0001619 sequence http:http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001619 ANNOVAR:ncRNA http://purl.obolibrary.org/obo/SO_0001619 SO:0001619 http://purl.obolibrary.org/obo/SO_0001619 Within non-coding gene - Located within a gene that does not code for a protein. http://purl.obolibrary.org/obo/SO_0001619 non_coding_transcript_variant SO:ke http://purl.obolibrary.org/obo/SO_0001620 A transcript variant located with the sequence of the mature miRNA. http://purl.obolibrary.org/obo/SO_0001620 kareneilbeck http://purl.obolibrary.org/obo/SO_0001620 2010-03-23T11:16:58Z http://purl.obolibrary.org/obo/SO_0001620 mature miRNA variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001620 within_mature_miRNA http://purl.obolibrary.org/obo/SO_0001620 sequence http://purl.obolibrary.org/obo/SO_0001620 SO:0001620 http://purl.obolibrary.org/obo/SO_0001620 EBI term: Within mature miRNA - Located within a microRNA. http://purl.obolibrary.org/obo/SO_0001620 mature_miRNA_variant SO:ke http://purl.obolibrary.org/obo/SO_0001621 A variant in a transcript that is the target of NMD. http://purl.obolibrary.org/obo/SO_0001621 kareneilbeck http://purl.obolibrary.org/obo/SO_0001621 2010-03-23T11:20:40Z http://purl.obolibrary.org/obo/SO_0001621 NMD transcript variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001621 NMD_transcript http://purl.obolibrary.org/obo/SO_0001621 sequence http://purl.obolibrary.org/obo/SO_0001621 SO:0001621 http://purl.obolibrary.org/obo/SO_0001621 NMD_transcript_variant SO:ke http://purl.obolibrary.org/obo/SO_0001622 A transcript variant that is located within the UTR. http://purl.obolibrary.org/obo/SO_0001622 kareneilbeck http://purl.obolibrary.org/obo/SO_0001622 2010-03-23T11:22:58Z http://purl.obolibrary.org/obo/SO_0001622 UTR variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001622 UTR_ http://purl.obolibrary.org/obo/SO_0001622 sequence http://purl.obolibrary.org/obo/SO_0001622 SO:0001622 http://purl.obolibrary.org/obo/SO_0001622 UTR_variant SO:ke http://purl.obolibrary.org/obo/SO_0001623 A UTR variant of the 5' UTR. http://purl.obolibrary.org/obo/SO_0001623 kareneilbeck http://purl.obolibrary.org/obo/SO_0001623 2010-03-23T11:23:29Z http://purl.obolibrary.org/obo/SO_0001623 5'UTR variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001623 5PRIME_UTR http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001623 VAAST:five_prime_UTR_variant http://purl.obolibrary.org/obo/SO_0001623 five prime UTR variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001623 snpEff:UTR_5_PRIME ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd http://purl.obolibrary.org/obo/so-xp.obo#dbsnp http://purl.obolibrary.org/obo/SO_0001623 untranslated-5 http://purl.obolibrary.org/obo/SO_0001623 sequence http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001623 ANNOVAR:UTR5 http://purl.obolibrary.org/obo/SO_0001623 SO:0001623 http://purl.obolibrary.org/obo/SO_0001623 EBI term: 5prime UTR variations - In 5prime UTR (untranslated region). http://purl.obolibrary.org/obo/SO_0001623 5_prime_UTR_variant SO:ke http://purl.obolibrary.org/obo/SO_0001624 A UTR variant of the 3' UTR. http://purl.obolibrary.org/obo/SO_0001624 kareneilbeck http://purl.obolibrary.org/obo/SO_0001624 2010-03-23T11:23:54Z http://purl.obolibrary.org/obo/SO_0001624 3'UTR variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001624 3PRIME_UTR http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001624 VAAST:three_prime_UTR_variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001624 snpEff:UTR_3_PRIME http://purl.obolibrary.org/obo/SO_0001624 three prime UTR variant ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd http://purl.obolibrary.org/obo/so-xp.obo#dbsnp http://purl.obolibrary.org/obo/SO_0001624 untranslated-3 http://purl.obolibrary.org/obo/SO_0001624 sequence http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001624 ANNOVAR:UTR3 http://purl.obolibrary.org/obo/SO_0001624 SO:0001624 http://purl.obolibrary.org/obo/SO_0001624 EBI term 3prime UTR variations - In 3prime UTR. http://purl.obolibrary.org/obo/SO_0001624 3_prime_UTR_variant SO:ke http://purl.obolibrary.org/obo/SO_0001626 A sequence variant where at least one base of the final codon of an incompletely annotated transcript is changed. http://purl.obolibrary.org/obo/SO_0001626 kareneilbeck http://purl.obolibrary.org/obo/SO_0001626 2010-03-23T03:51:15Z http://purl.obolibrary.org/obo/SO_0001626 incomplete terminal codon variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001626 partial_codon http://purl.obolibrary.org/obo/SO_0001626 sequence http://purl.obolibrary.org/obo/SO_0001626 SO:0001626 http://purl.obolibrary.org/obo/SO_0001626 EBI term: Partial codon - Located within the final, incomplete codon of a transcript with a shortened coding sequence where the end is unknown. http://purl.obolibrary.org/obo/SO_0001626 incomplete_terminal_codon_variant SO:ke http://purl.obolibrary.org/obo/SO_0001627 A transcript variant occurring within an intron. http://purl.obolibrary.org/obo/SO_0001627 kareneilbeck http://purl.obolibrary.org/obo/SO_0001627 2010-03-23T03:52:38Z http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001627 VAAST:intron_variant http://purl.obolibrary.org/obo/SO_0001627 intron variant ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd http://purl.obolibrary.org/obo/so-xp.obo#dbsnp http://purl.obolibrary.org/obo/SO_0001627 intron_ http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001627 intronic http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001627 snpEff:INTRON http://purl.obolibrary.org/obo/SO_0001627 sequence http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001627 ANNOVAR:intronic http://purl.obolibrary.org/obo/SO_0001627 SO:0001627 http://purl.obolibrary.org/obo/SO_0001627 EBI term: Intronic variations - In intron. http://purl.obolibrary.org/obo/SO_0001627 intron_variant SO:ke http://purl.obolibrary.org/obo/SO_0001628 A sequence variant located in the intergenic region, between genes. http://purl.obolibrary.org/obo/SO_0001628 kareneilbeck http://purl.obolibrary.org/obo/SO_0001628 2010-03-23T05:07:37Z http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001628 intergenic http://purl.obolibrary.org/obo/SO_0001628 intergenic variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001628 snpEff:INTERGENIC http://purl.obolibrary.org/obo/SO_0001628 sequence http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001628 ANNOVAR:intergenic http://purl.obolibrary.org/obo/SO_0001628 SO:0001628 http://purl.obolibrary.org/obo/SO_0001628 EBI term Intergenic variations - More than 5 kb either upstream or downstream of a transcript. http://purl.obolibrary.org/obo/SO_0001628 intergenic_variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/SO_0001629 A sequence variant that changes the first two or last two bases of an intron, or the 5th base from the start of the intron in the orientation of the transcript. http://purl.obolibrary.org/obo/SO_0001629 kareneilbeck http://purl.obolibrary.org/obo/SO_0001629 2010-03-24T09:42:00Z http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001629 essential_splice_site http://purl.obolibrary.org/obo/SO_0001629 splice site variant http://purl.obolibrary.org/obo/SO_0001629 sequence http://purl.obolibrary.org/obo/SO_0001629 SO:0001629 http://purl.obolibrary.org/obo/SO_0001629 EBI term - essential splice site - In the first 2 or the last 2 base pairs of an intron. The 5th base is on the donor (5') side of the intron. Updated to b in line with Cancer Genome Project at the Sanger. http://purl.obolibrary.org/obo/SO_0001629 splice_site_variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/SO_0001630 A sequence variant in which a change has occurred within the region of the splice site, either within 1-3 bases of the exon or 3-8 bases of the intron. http://purl.obolibrary.org/obo/SO_0001630 kareneilbeck http://purl.obolibrary.org/obo/SO_0001630 2010-03-24T09:46:02Z http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001630 VAAST:splice_region_variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001630 splice region variant http://purl.obolibrary.org/obo/SO_0001630 sequence http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001630 ANNOVAR:splicing http://purl.obolibrary.org/obo/SO_0001630 SO:0001630 http://purl.obolibrary.org/obo/SO_0001630 EBI term: splice site - 1-3 bps into an exon or 3-8 bps into an intron. http://purl.obolibrary.org/obo/SO_0001630 splice_region_variant SO:ke http://purl.obolibrary.org/obo/SO_0001631 A sequence variant located 5' of a gene. http://purl.obolibrary.org/obo/SO_0001631 kareneilbeck http://purl.obolibrary.org/obo/SO_0001631 2010-03-24T09:49:13Z http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001631 snpEff:UPSTREAM http://purl.obolibrary.org/obo/SO_0001631 upstream gene variant http://purl.obolibrary.org/obo/SO_0001631 sequence http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001631 ANNOVAR:upstream http://purl.obolibrary.org/obo/SO_0001631 SO:0001631 http://purl.obolibrary.org/obo/SO_0001631 Different groups annotate up and downstream to different lengths. The subtypes are specific and are backed up with cross references. http://purl.obolibrary.org/obo/SO_0001631 upstream_gene_variant SO:ke http://purl.obolibrary.org/obo/SO_0001632 A sequence variant located 3' of a gene. http://purl.obolibrary.org/obo/SO_0001632 kareneilbeck http://purl.obolibrary.org/obo/SO_0001632 2010-03-24T09:49:38Z http://purl.obolibrary.org/obo/SO_0001632 downstream gene variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001632 snpEff:DOWNSTREAM http://purl.obolibrary.org/obo/SO_0001632 sequence http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001632 ANNOVAR:downstream http://purl.obolibrary.org/obo/SO_0001632 SO:0001632 http://purl.obolibrary.org/obo/SO_0001632 Different groups annotate up and downstream to different lengths. The subtypes are specific and are backed up with cross references. http://purl.obolibrary.org/obo/SO_0001632 downstream_gene_variant SO:ke http://purl.obolibrary.org/obo/SO_0001633 A sequence variant located within 5 KB of the end of a gene. http://purl.obolibrary.org/obo/SO_0001633 kareneilbeck http://purl.obolibrary.org/obo/SO_0001633 2010-03-24T09:50:16Z http://purl.obolibrary.org/obo/SO_0001633 5KB downstream variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001633 downstream http://purl.obolibrary.org/obo/SO_0001633 sequence http://purl.obolibrary.org/obo/SO_0001633 within 5KB downstream http://purl.obolibrary.org/obo/SO_0001633 SO:0001633 http://purl.obolibrary.org/obo/SO_0001633 EBI term Downstream variations - Within 5 kb downstream of the 3prime end of a transcript. http://purl.obolibrary.org/obo/SO_0001633 5KB_downstream_variant SO:ke http://purl.obolibrary.org/obo/SO_0001634 A sequence variant located within a half KB of the end of a gene. http://purl.obolibrary.org/obo/SO_0001634 kareneilbeck http://purl.obolibrary.org/obo/SO_0001634 2010-03-24T09:50:42Z http://purl.obolibrary.org/obo/SO_0001634 500B downstream variant ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd http://purl.obolibrary.org/obo/so-xp.obo#dbsnp http://purl.obolibrary.org/obo/SO_0001634 near-gene-3 http://purl.obolibrary.org/obo/SO_0001634 sequence http://purl.obolibrary.org/obo/SO_0001634 SO:0001634 http://purl.obolibrary.org/obo/SO_0001634 500B_downstream_variant SO:ke http://purl.obolibrary.org/obo/SO_0001635 A sequence variant located within 5KB 5' of a gene. http://purl.obolibrary.org/obo/SO_0001635 kareneilbeck http://purl.obolibrary.org/obo/SO_0001635 2010-03-24T09:51:06Z http://purl.obolibrary.org/obo/SO_0001635 5kb upstream variant http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001635 upstream http://purl.obolibrary.org/obo/SO_0001635 sequence http://purl.obolibrary.org/obo/SO_0001635 SO:0001635 http://purl.obolibrary.org/obo/SO_0001635 EBI term Upstream variations - Within 5 kb upstream of the 5prime end of a transcript. http://purl.obolibrary.org/obo/SO_0001635 5KB_upstream_variant SO:ke http://purl.obolibrary.org/obo/SO_0001636 A sequence variant located within 2KB 5' of a gene. http://purl.obolibrary.org/obo/SO_0001636 kareneilbeck http://purl.obolibrary.org/obo/SO_0001636 2010-03-24T09:51:22Z http://purl.obolibrary.org/obo/SO_0001636 2KB upstream variant ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd http://purl.obolibrary.org/obo/so-xp.obo#dbsnp http://purl.obolibrary.org/obo/SO_0001636 near-gene-5 http://purl.obolibrary.org/obo/SO_0001636 sequence http://purl.obolibrary.org/obo/SO_0001636 SO:0001636 http://purl.obolibrary.org/obo/SO_0001636 2KB_upstream_variant SO:ke http://purl.obolibrary.org/obo/SO_0001637 A gene that encodes for ribosomal RNA. http://purl.obolibrary.org/obo/SO_0001637 kareneilbeck http://purl.obolibrary.org/obo/SO_0001637 2010-04-21T10:10:32Z http://purl.obolibrary.org/obo/SO_0001637 rDNA http://purl.obolibrary.org/obo/SO_0001637 rRNA gene http://purl.obolibrary.org/obo/SO_0001637 sequence http://purl.obolibrary.org/obo/SO_0001637 SO:0001637 http://purl.obolibrary.org/obo/SO_0001637 rRNA_gene SO:ke http://purl.obolibrary.org/obo/SO_0001638 A gene that encodes for an piwi associated RNA. http://purl.obolibrary.org/obo/SO_0001638 kareneilbeck http://purl.obolibrary.org/obo/SO_0001638 2010-04-21T10:11:36Z http://purl.obolibrary.org/obo/SO_0001638 piRNA gene http://purl.obolibrary.org/obo/SO_0001638 sequence http://purl.obolibrary.org/obo/SO_0001638 SO:0001638 http://purl.obolibrary.org/obo/SO_0001638 piRNA_gene SO:ke http://purl.obolibrary.org/obo/SO_0001639 A gene that encodes an RNase P RNA. http://purl.obolibrary.org/obo/SO_0001639 kareneilbeck http://purl.obolibrary.org/obo/SO_0001639 2010-04-21T10:13:23Z http://purl.obolibrary.org/obo/SO_0001639 RNase P RNA gene http://purl.obolibrary.org/obo/SO_0001639 sequence http://purl.obolibrary.org/obo/SO_0001639 SO:0001639 http://purl.obolibrary.org/obo/SO_0001639 RNase_P_RNA_gene SO:ke http://purl.obolibrary.org/obo/SO_0001640 A gene that encodes a RNase_MRP_RNA. http://purl.obolibrary.org/obo/SO_0001640 kareneilbeck http://purl.obolibrary.org/obo/SO_0001640 2010-04-21T10:13:58Z http://purl.obolibrary.org/obo/SO_0001640 sequence http://purl.obolibrary.org/obo/SO_0001640 RNase MRP RNA gene http://purl.obolibrary.org/obo/SO_0001640 SO:0001640 http://purl.obolibrary.org/obo/SO_0001640 RNase_MRP_RNA_gene SO:ke http://purl.obolibrary.org/obo/SO_0001641 A gene that encodes large intervening non-coding RNA. http://purl.obolibrary.org/obo/SO_0001641 kareneilbeck http://purl.obolibrary.org/obo/SO_0001641 2010-04-21T10:14:24Z http://purl.obolibrary.org/obo/SO_0001641 lincRNA gene http://purl.obolibrary.org/obo/SO_0001641 sequence http://purl.obolibrary.org/obo/SO_0001641 SO:0001641 http://purl.obolibrary.org/obo/SO_0001641 lincRNA_gene SO:jestill http://purl.obolibrary.org/obo/SO_0001642 A mathematically defined repeat (MDR) is a experimental feature that is determined by querying overlapping oligomers of length k against a database of shotgun sequence data and identifying regions in the query sequence that exceed a statistically determined threshold of repetitiveness. http://purl.obolibrary.org/obo/SO_0001642 kareneilbeck http://purl.obolibrary.org/obo/SO_0001642 2010-05-03T11:50:14Z http://purl.obolibrary.org/obo/SO_0001642 mathematically defined repeat http://purl.obolibrary.org/obo/SO_0001642 sequence http://purl.obolibrary.org/obo/SO_0001642 SO:0001642 http://purl.obolibrary.org/obo/SO_0001642 Mathematically defined repeat regions are determined without regard to the biological origin of the repetitive region. The repeat units of a MDR are the overlapping oligomers of size k that were used to for the query. Tools that can annotate mathematically defined repeats include Tallymer (Kurtz et al 2008, BMC Genomics: 517) and RePS (Wang et al, Genome Res 12(5): 824-831.). http://purl.obolibrary.org/obo/SO_0001642 mathematically_defined_repeat SO:ke http://purl.obolibrary.org/obo/SO_0001643 A telomerase RNA gene is a non coding RNA gene the RNA product of which is a component of telomerase. http://purl.obolibrary.org/obo/SO_0001643 kareneilbeck http://purl.obolibrary.org/obo/SO_0001643 2010-05-18T05:26:38Z wikipedia http://purl.obolibrary.org/obo/SO_0001643 http:http://en.wikipedia.org/wiki/Telomerase_RNA_component http://purl.obolibrary.org/obo/SO_0001643 TERC http://purl.obolibrary.org/obo/SO_0001643 Telomerase RNA component http://purl.obolibrary.org/obo/SO_0001643 telomerase RNA gene http://purl.obolibrary.org/obo/SO_0001643 sequence http://purl.obolibrary.org/obo/SO_0001643 SO:0001643 http://purl.obolibrary.org/obo/SO_0001643 telomerase_RNA_gene MGD:tm PMID:10354467 http://purl.obolibrary.org/obo/SO_0001644 An engineered vector that is able to take part in homologous recombination in a host with the intent of introducing site specific genomic modifications. http://purl.obolibrary.org/obo/SO_0001644 kareneilbeck http://purl.obolibrary.org/obo/SO_0001644 2010-05-28T02:05:25Z http://purl.obolibrary.org/obo/SO_0001644 sequence http://purl.obolibrary.org/obo/SO_0001644 targeting vector http://purl.obolibrary.org/obo/SO_0001644 SO:0001644 http://purl.obolibrary.org/obo/SO_0001644 targeting_vector SO:db http://purl.obolibrary.org/obo/SO_0001645 A measurable sequence feature that varies within a population. http://purl.obolibrary.org/obo/SO_0001645 kareneilbeck http://purl.obolibrary.org/obo/SO_0001645 2010-05-28T02:33:07Z http://purl.obolibrary.org/obo/SO_0001645 sequence http://purl.obolibrary.org/obo/SO_0001645 genetic marker http://purl.obolibrary.org/obo/SO_0001645 SO:0001645 http://purl.obolibrary.org/obo/SO_0001645 genetic_marker SO:ke http://purl.obolibrary.org/obo/SO_0001646 A genetic marker, discovered using Diversity Arrays Technology (DArT) technology. http://purl.obolibrary.org/obo/SO_0001646 kareneilbeck http://purl.obolibrary.org/obo/SO_0001646 2010-05-28T02:34:43Z http://purl.obolibrary.org/obo/SO_0001646 DArT marker http://purl.obolibrary.org/obo/SO_0001646 sequence http://purl.obolibrary.org/obo/SO_0001646 SO:0001646 http://purl.obolibrary.org/obo/SO_0001646 DArT_marker SO:ke http://purl.obolibrary.org/obo/SO_0001647 A kind of ribosome entry site, specific to Eukaryotic organisms that overlaps part of both 5' UTR and CDS sequence. http://purl.obolibrary.org/obo/SO_0001647 kareneilbeck http://purl.obolibrary.org/obo/SO_0001647 2010-06-07T03:12:20Z wikipedia http://purl.obolibrary.org/obo/SO_0001647 http://en.wikipedia.org/wiki/Kozak_consensus_sequence http://purl.obolibrary.org/obo/SO_0001647 kozak consensus http://purl.obolibrary.org/obo/SO_0001647 kozak consensus sequence http://purl.obolibrary.org/obo/SO_0001647 kozak sequence http://purl.obolibrary.org/obo/SO_0001647 sequence http://purl.obolibrary.org/obo/SO_0001647 SO:0001647 http://purl.obolibrary.org/obo/SO_0001647 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001647 kozak_sequence SO:ke http://purl.obolibrary.org/obo/SO_0001648 A transposon that is disrupted by the insertion of another element. http://purl.obolibrary.org/obo/SO_0001648 kareneilbeck http://purl.obolibrary.org/obo/SO_0001648 2010-06-23T03:22:57Z http://purl.obolibrary.org/obo/SO_0001648 nested transposon http://purl.obolibrary.org/obo/SO_0001648 sequence http://purl.obolibrary.org/obo/SO_0001648 SO:0001648 http://purl.obolibrary.org/obo/SO_0001648 nested_transposon SO:ke http://purl.obolibrary.org/obo/SO_0001649 A repeat that is disrupted by the insertion of another element. http://purl.obolibrary.org/obo/SO_0001649 kareneilbeck http://purl.obolibrary.org/obo/SO_0001649 2010-06-23T03:24:55Z http://purl.obolibrary.org/obo/SO_0001649 sequence http://purl.obolibrary.org/obo/SO_0001649 nested repeat http://purl.obolibrary.org/obo/SO_0001649 SO:0001649 http://purl.obolibrary.org/obo/SO_0001649 nested_repeat SO:ke http://purl.obolibrary.org/obo/SO_0001650 A sequence variant which does not cause a disruption of the translational reading frame. http://purl.obolibrary.org/obo/SO_0001650 kareneilbeck http://purl.obolibrary.org/obo/SO_0001650 2010-07-19T01:24:44Z http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001650 VAAST:inframe_variant http://purl.obolibrary.org/obo/so-xp.obo#dbsnp http://purl.obolibrary.org/obo/SO_0001650 cds-indel http://purl.obolibrary.org/obo/SO_0001650 inframe variant http://purl.obolibrary.org/obo/SO_0001650 sequence http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001650 ANNOVAR:nonframeshift block substitution http://purl.obolibrary.org/obo/SO_0001650 SO:0001650 http://purl.obolibrary.org/obo/SO_0001650 inframe_variant PMID:11327309 PMID:19917671 http://purl.obolibrary.org/obo/SO_0001653 A transcription factor binding site of variable direct repeats of the sequence PuGGTCA spaced by five nucleotides (DR5) found in the promoters of retinoic acid-responsive genes, to which retinoic acid receptors bind. http://purl.obolibrary.org/obo/SO_0001653 kareneilbeck http://purl.obolibrary.org/obo/SO_0001653 2010-08-03T10:46:12Z http://purl.obolibrary.org/obo/SO_0001653 RARE http://purl.obolibrary.org/obo/SO_0001653 retinoic acid responsive element http://purl.obolibrary.org/obo/SO_0001653 sequence http://purl.obolibrary.org/obo/SO_0001653 SO:0001653 http://purl.obolibrary.org/obo/SO_0001653 retinoic_acid_responsive_element SO:ke http://purl.obolibrary.org/obo/SO_0001654 A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues. http://purl.obolibrary.org/obo/SO_0001654 kareneilbeck http://purl.obolibrary.org/obo/SO_0001654 2010-08-03T12:26:05Z http://purl.obolibrary.org/obo/SO_0001654 sequence http://purl.obolibrary.org/obo/SO_0001654 nucleotide to protein binding site http://purl.obolibrary.org/obo/SO_0001654 SO:0001654 http://purl.obolibrary.org/obo/SO_0001654 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001654 nucleotide_to_protein_binding_site SO:cb http://purl.obolibrary.org/obo/SO_0001655 A binding site that, in the molecule, interacts selectively and non-covalently with nucleotide residues. http://purl.obolibrary.org/obo/SO_0001655 kareneilbeck http://purl.obolibrary.org/obo/SO_0001655 2010-08-03T12:30:04Z uniprot:feature http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001655 np_bind http://purl.obolibrary.org/obo/SO_0001655 nucleotide binding site http://purl.obolibrary.org/obo/SO_0001655 sequence http://purl.obolibrary.org/obo/SO_0001655 SO:0001655 http://purl.obolibrary.org/obo/SO_0001655 See GO:0000166 : nucleotide binding. http://purl.obolibrary.org/obo/SO_0001655 nucleotide_binding_site SO:cb http://purl.obolibrary.org/obo/SO_0001656 A binding site that, in the molecule, interacts selectively and non-covalently with metal ions. http://purl.obolibrary.org/obo/SO_0001656 kareneilbeck http://purl.obolibrary.org/obo/SO_0001656 2010-08-03T12:31:42Z http://purl.obolibrary.org/obo/SO_0001656 sequence http://purl.obolibrary.org/obo/SO_0001656 metal binding site http://purl.obolibrary.org/obo/SO_0001656 SO:0001656 http://purl.obolibrary.org/obo/SO_0001656 See GO:0046872 : metal ion binding. http://purl.obolibrary.org/obo/SO_0001656 metal_binding_site SO:ke http://purl.obolibrary.org/obo/SO_0001657 A binding site that, in the molecule, interacts selectively and non-covalently with a small molecule such as a drug, or hormone. http://purl.obolibrary.org/obo/SO_0001657 kareneilbeck http://purl.obolibrary.org/obo/SO_0001657 2010-08-03T12:32:58Z http://purl.obolibrary.org/obo/SO_0001657 ligand binding site http://purl.obolibrary.org/obo/SO_0001657 sequence http://purl.obolibrary.org/obo/SO_0001657 SO:0001657 http://purl.obolibrary.org/obo/SO_0001657 ligand_binding_site SO:AF http://purl.obolibrary.org/obo/SO_0001658 An NTR is a nested repeat of two distinct tandem motifs interspersed with each other. http://purl.obolibrary.org/obo/SO_0001658 kareneilbeck http://purl.obolibrary.org/obo/SO_0001658 2010-08-26T09:36:16Z http://purl.obolibrary.org/obo/SO_0001658 NTR http://purl.obolibrary.org/obo/SO_0001658 nested tandem repeat http://purl.obolibrary.org/obo/SO_0001658 sequence http://purl.obolibrary.org/obo/SO_0001658 SO:0001658 http://purl.obolibrary.org/obo/SO_0001658 Tracker ID: 3052459. http://purl.obolibrary.org/obo/SO_0001658 nested_tandem_repeat http://purl.obolibrary.org/obo/SO_0001659 kareneilbeck http://purl.obolibrary.org/obo/SO_0001659 2010-10-01T11:48:32Z http://purl.obolibrary.org/obo/SO_0001659 promoter element http://purl.obolibrary.org/obo/SO_0001659 sequence http://purl.obolibrary.org/obo/SO_0001659 SO:0001659 http://purl.obolibrary.org/obo/SO_0001659 promoter_element http://purl.obolibrary.org/obo/SO_0001660 kareneilbeck http://purl.obolibrary.org/obo/SO_0001660 2010-10-01T11:49:03Z http://purl.obolibrary.org/obo/SO_0001660 core promoter element http://purl.obolibrary.org/obo/SO_0001660 sequence http://purl.obolibrary.org/obo/SO_0001660 general transcription factor binding site http://purl.obolibrary.org/obo/SO_0001660 SO:0001660 http://purl.obolibrary.org/obo/SO_0001660 core_promoter_element PMID:16858867 http://purl.obolibrary.org/obo/SO_0001661 A TATA box core promoter of a gene transcribed by RNA polymerase II. http://purl.obolibrary.org/obo/SO_0001661 kareneilbeck http://purl.obolibrary.org/obo/SO_0001661 2010-10-01T02:42:12Z http://purl.obolibrary.org/obo/SO_0001661 RNA polymerase II TATA box http://purl.obolibrary.org/obo/SO_0001661 sequence http://purl.obolibrary.org/obo/SO_0001661 SO:0001661 http://purl.obolibrary.org/obo/SO_0001661 RNA_polymerase_II_TATA_box SO:ke http://purl.obolibrary.org/obo/SO_0001662 A TATA box core promoter of a gene transcribed by RNA polymerase III. http://purl.obolibrary.org/obo/SO_0001662 kareneilbeck http://purl.obolibrary.org/obo/SO_0001662 2010-10-01T02:43:16Z http://purl.obolibrary.org/obo/SO_0001662 RNA polymerase III TATA box http://purl.obolibrary.org/obo/SO_0001662 sequence http://purl.obolibrary.org/obo/SO_0001662 SO:0001662 http://purl.obolibrary.org/obo/SO_0001662 RNA_polymerase_III_TATA_box PMID:16858867 http://purl.obolibrary.org/obo/SO_0001663 A core TRNA polymerase II promoter element with consensus (G/A)T(T/G/A)(T/A)(G/T)(T/G)(T/G). http://purl.obolibrary.org/obo/SO_0001663 kareneilbeck http://purl.obolibrary.org/obo/SO_0001663 2010-10-01T02:49:55Z http://purl.obolibrary.org/obo/SO_0001663 BREd http://purl.obolibrary.org/obo/SO_0001663 sequence http://purl.obolibrary.org/obo/SO_0001663 BREd motif http://purl.obolibrary.org/obo/SO_0001663 SO:0001663 http://purl.obolibrary.org/obo/SO_0001663 BREd_motif PMID:16858867 http://purl.obolibrary.org/obo/SO_0001664 A discontinuous core element of RNA polymerase II transcribed genes, situated downstream of the TSS. It is composed of three sub elements: SI, SII and SIII. http://purl.obolibrary.org/obo/SO_0001664 kareneilbeck http://purl.obolibrary.org/obo/SO_0001664 2010-10-01T02:56:41Z http://purl.obolibrary.org/obo/SO_0001664 sequence http://purl.obolibrary.org/obo/SO_0001664 downstream core element http://purl.obolibrary.org/obo/SO_0001664 SO:0001664 http://purl.obolibrary.org/obo/SO_0001664 DCE PMID:16858867 SO:ke http://purl.obolibrary.org/obo/SO_0001665 A sub element of the DCE core promoter element, with consensus sequence CTTC. http://purl.obolibrary.org/obo/SO_0001665 kareneilbeck http://purl.obolibrary.org/obo/SO_0001665 2010-10-01T03:00:10Z http://purl.obolibrary.org/obo/SO_0001665 sequence http://purl.obolibrary.org/obo/SO_0001665 DCE SI http://purl.obolibrary.org/obo/SO_0001665 SO:0001665 http://purl.obolibrary.org/obo/SO_0001665 DCE_SI PMID:16858867 SO:ke http://purl.obolibrary.org/obo/SO_0001666 A sub element of the DCE core promoter element with consensus sequence CTGT. http://purl.obolibrary.org/obo/SO_0001666 kareneilbeck http://purl.obolibrary.org/obo/SO_0001666 2010-10-01T03:00:30Z http://purl.obolibrary.org/obo/SO_0001666 DCE SII http://purl.obolibrary.org/obo/SO_0001666 sequence http://purl.obolibrary.org/obo/SO_0001666 SO:0001666 http://purl.obolibrary.org/obo/SO_0001666 DCE_SII PMID:16858867 SO:ke http://purl.obolibrary.org/obo/SO_0001667 A sub element of the DCE core promoter element with consensus sequence AGC. http://purl.obolibrary.org/obo/SO_0001667 kareneilbeck http://purl.obolibrary.org/obo/SO_0001667 2010-10-01T03:00:44Z http://purl.obolibrary.org/obo/SO_0001667 DCE SIII http://purl.obolibrary.org/obo/SO_0001667 sequence http://purl.obolibrary.org/obo/SO_0001667 SO:0001667 http://purl.obolibrary.org/obo/SO_0001667 DCE_SIII PMID:12515390 PMID:9679020 SO:ml http://purl.obolibrary.org/obo/SO_0001668 DNA segment that ranges from about -250 to -40 relative to +1 of RNA transcription start site, where sequence specific DNA-binding transcription factors binds, such as Sp1, CTF (CCAAT-binding transcription factor), and CBF (CCAAT-box binding factor). http://purl.obolibrary.org/obo/SO_0001668 kareneilbeck http://purl.obolibrary.org/obo/SO_0001668 2010-10-01T03:10:23Z http://purl.obolibrary.org/obo/SO_0001668 sequence http://purl.obolibrary.org/obo/SO_0001668 proximal promoter element http://purl.obolibrary.org/obo/SO_0001668 specific transcription factor binding site http://purl.obolibrary.org/obo/SO_0001668 SO:0001668 http://purl.obolibrary.org/obo/SO_0001668 proximal_promoter_element PMID:16858867 http://purl.obolibrary.org/obo/SO_0001669 The minimal portion of the promoter required to properly initiate transcription in RNA polymerase II transcribed genes. http://purl.obolibrary.org/obo/SO_0001669 kareneilbeck http://purl.obolibrary.org/obo/SO_0001669 2010-10-01T03:13:41Z http://purl.obolibrary.org/obo/SO_0001669 RNApol II core promoter http://purl.obolibrary.org/obo/SO_0001669 sequence http://purl.obolibrary.org/obo/SO_0001669 SO:0001669 http://purl.obolibrary.org/obo/SO_0001669 RNApol_II_core_promoter http://purl.obolibrary.org/obo/SO_0001670 kareneilbeck http://purl.obolibrary.org/obo/SO_0001670 2010-10-01T03:21:08Z http://purl.obolibrary.org/obo/SO_0001670 sequence http://purl.obolibrary.org/obo/SO_0001670 distal promoter element http://purl.obolibrary.org/obo/SO_0001670 SO:0001670 http://purl.obolibrary.org/obo/SO_0001670 distal_promoter_element http://purl.obolibrary.org/obo/SO_0001671 kareneilbeck http://purl.obolibrary.org/obo/SO_0001671 2010-10-06T01:41:34Z http://purl.obolibrary.org/obo/SO_0001671 bacterial RNA polymerase promoter sigma 70 http://purl.obolibrary.org/obo/SO_0001671 sequence http://purl.obolibrary.org/obo/SO_0001671 SO:0001671 http://purl.obolibrary.org/obo/SO_0001671 bacterial_RNApol_promoter_sigma_70 http://purl.obolibrary.org/obo/SO_0001672 kareneilbeck http://purl.obolibrary.org/obo/SO_0001672 2010-10-06T01:42:37Z http://purl.obolibrary.org/obo/SO_0001672 bacterial RNA polymerase promoter sigma54 http://purl.obolibrary.org/obo/SO_0001672 sequence http://purl.obolibrary.org/obo/SO_0001672 SO:0001672 http://purl.obolibrary.org/obo/SO_0001672 bacterial_RNApol_promoter_sigma54 PMID:18331472 http://purl.obolibrary.org/obo/SO_0001673 A conserved region about 12-bp upstream of the start point of bacterial transcription units, involved with sigma factor 54. http://purl.obolibrary.org/obo/SO_0001673 kareneilbeck http://purl.obolibrary.org/obo/SO_0001673 2010-10-06T01:44:57Z http://purl.obolibrary.org/obo/SO_0001673 minus 12 signal http://purl.obolibrary.org/obo/SO_0001673 sequence http://purl.obolibrary.org/obo/SO_0001673 SO:0001673 http://purl.obolibrary.org/obo/SO_0001673 minus_12_signal PMID:18331472 http://purl.obolibrary.org/obo/SO_0001674 A conserved region about 12-bp upstream of the start point of bacterial transcription units, involved with sigma factor 54. http://purl.obolibrary.org/obo/SO_0001674 kareneilbeck http://purl.obolibrary.org/obo/SO_0001674 2010-10-06T01:45:24Z http://purl.obolibrary.org/obo/SO_0001674 sequence http://purl.obolibrary.org/obo/SO_0001674 minus 24 signal http://purl.obolibrary.org/obo/SO_0001674 SO:0001674 http://purl.obolibrary.org/obo/SO_0001674 minus_24_signal SO:ke http://purl.obolibrary.org/obo/SO_0001675 An A box within an RNA polymerase III type 1 promoter. http://purl.obolibrary.org/obo/SO_0001675 kareneilbeck http://purl.obolibrary.org/obo/SO_0001675 2010-10-06T05:43:43Z http://purl.obolibrary.org/obo/SO_0001675 sequence http://purl.obolibrary.org/obo/SO_0001675 A box type 1 http://purl.obolibrary.org/obo/SO_0001675 SO:0001675 http://purl.obolibrary.org/obo/SO_0001675 The A box can be found in the promoters of type 1 and type 2 (pol III) so sub-typing here allows the part of relationship of the subtypes to remain true. http://purl.obolibrary.org/obo/SO_0001675 A_box_type_1 SO:ke http://purl.obolibrary.org/obo/SO_0001676 An A box within an RNA polymerase III type 2 promoter. http://purl.obolibrary.org/obo/SO_0001676 kareneilbeck http://purl.obolibrary.org/obo/SO_0001676 2010-10-06T05:44:18Z http://purl.obolibrary.org/obo/SO_0001676 sequence http://purl.obolibrary.org/obo/SO_0001676 A box type 2 http://purl.obolibrary.org/obo/SO_0001676 SO:0001676 http://purl.obolibrary.org/obo/SO_0001676 The A box can be found in the promoters of type 1 and type 2 (pol III) so sub-typing here allows the part of relationship of the subtypes to remain true. http://purl.obolibrary.org/obo/SO_0001676 A_box_type_2 PMID:12381659 http://purl.obolibrary.org/obo/SO_0001677 A core promoter region of RNA polymerase III type 1 promoters. http://purl.obolibrary.org/obo/SO_0001677 kareneilbeck http://purl.obolibrary.org/obo/SO_0001677 2010-10-06T05:52:03Z http://purl.obolibrary.org/obo/SO_0001677 IE http://purl.obolibrary.org/obo/SO_0001677 sequence http://purl.obolibrary.org/obo/SO_0001677 intermediate element http://purl.obolibrary.org/obo/SO_0001677 SO:0001677 http://purl.obolibrary.org/obo/SO_0001677 intermediate_element PMID:12381659 http://purl.obolibrary.org/obo/SO_0001678 A promoter element that is not part of the core promoter, but provides the promoter with a specific regulatory region. http://purl.obolibrary.org/obo/SO_0001678 kareneilbeck http://purl.obolibrary.org/obo/SO_0001678 2010-10-07T04:39:48Z http://purl.obolibrary.org/obo/SO_0001678 sequence http://purl.obolibrary.org/obo/SO_0001678 regulatory promoter element http://purl.obolibrary.org/obo/SO_0001678 SO:0001678 http://purl.obolibrary.org/obo/SO_0001678 regulatory_promoter_element SO:ke http://purl.obolibrary.org/obo/SO_0001679 A regulatory region that is involved in the control of the process of transcription. http://purl.obolibrary.org/obo/SO_0001679 kareneilbeck http://purl.obolibrary.org/obo/SO_0001679 2010-10-12T03:49:35Z http://purl.obolibrary.org/obo/SO_0001679 transcription regulatory region http://purl.obolibrary.org/obo/SO_0001679 sequence http://purl.obolibrary.org/obo/SO_0001679 SO:0001679 http://purl.obolibrary.org/obo/SO_0001679 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001679 transcription_regulatory_region SO:ke http://purl.obolibrary.org/obo/SO_0001680 A regulatory region that is involved in the control of the process of translation. http://purl.obolibrary.org/obo/SO_0001680 kareneilbeck http://purl.obolibrary.org/obo/SO_0001680 2010-10-12T03:52:45Z http://purl.obolibrary.org/obo/SO_0001680 translation regulatory region http://purl.obolibrary.org/obo/SO_0001680 sequence http://purl.obolibrary.org/obo/SO_0001680 SO:0001680 http://purl.obolibrary.org/obo/SO_0001680 translation_regulatory_region SO:ke http://purl.obolibrary.org/obo/SO_0001681 A regulatory region that is involved in the control of the process of recombination. http://purl.obolibrary.org/obo/SO_0001681 kareneilbeck http://purl.obolibrary.org/obo/SO_0001681 2010-10-12T03:53:35Z http://purl.obolibrary.org/obo/SO_0001681 recombination regulatory region http://purl.obolibrary.org/obo/SO_0001681 sequence http://purl.obolibrary.org/obo/SO_0001681 SO:0001681 http://purl.obolibrary.org/obo/SO_0001681 recombination_regulatory_region SO:ke http://purl.obolibrary.org/obo/SO_0001682 A regulatory region that is involved in the control of the process of nucleotide replication. http://purl.obolibrary.org/obo/SO_0001682 kareneilbeck http://purl.obolibrary.org/obo/SO_0001682 2010-10-12T03:54:09Z http://purl.obolibrary.org/obo/SO_0001682 sequence http://purl.obolibrary.org/obo/SO_0001682 replication regulatory region http://purl.obolibrary.org/obo/SO_0001682 SO:0001682 http://purl.obolibrary.org/obo/SO_0001682 replication_regulatory_region http://en.wikipedia.org/wiki/Sequence_motif http://purl.obolibrary.org/obo/SO_0001683 A sequence motif is a nucleotide or amino-acid sequence pattern that may have biological significance. http://purl.obolibrary.org/obo/SO_0001683 kareneilbeck http://purl.obolibrary.org/obo/SO_0001683 2010-10-14T04:13:22Z wikipedia http://purl.obolibrary.org/obo/SO_0001683 http://en.wikipedia.org/wiki/Sequence_motif http://purl.obolibrary.org/obo/SO_0001683 sequence http://purl.obolibrary.org/obo/SO_0001683 sequence motif http://purl.obolibrary.org/obo/SO_0001683 SO:0001683 http://purl.obolibrary.org/obo/SO_0001683 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001683 sequence_motif SO:ke http://purl.obolibrary.org/obo/SO_0001684 An attribute of an experimentally derived feature. http://purl.obolibrary.org/obo/SO_0001684 kareneilbeck http://purl.obolibrary.org/obo/SO_0001684 2010-10-28T02:22:23Z http://purl.obolibrary.org/obo/SO_0001684 sequence http://purl.obolibrary.org/obo/SO_0001684 experimental feature attribute http://purl.obolibrary.org/obo/SO_0001684 SO:0001684 http://purl.obolibrary.org/obo/SO_0001684 experimental_feature_attribute SO:ke http://purl.obolibrary.org/obo/SO_0001685 The score of an experimentally derived feature such as a p-value. http://purl.obolibrary.org/obo/SO_0001685 kareneilbeck http://purl.obolibrary.org/obo/SO_0001685 2010-10-28T02:23:16Z http://purl.obolibrary.org/obo/SO_0001685 sequence http://purl.obolibrary.org/obo/SO_0001685 SO:0001685 http://purl.obolibrary.org/obo/SO_0001685 score SO:ke http://purl.obolibrary.org/obo/SO_0001686 An experimental feature attribute that defines the quality of the feature in a quantitative way, such as a phred quality score. http://purl.obolibrary.org/obo/SO_0001686 kareneilbeck http://purl.obolibrary.org/obo/SO_0001686 2010-10-28T02:24:11Z http://purl.obolibrary.org/obo/SO_0001686 sequence http://purl.obolibrary.org/obo/SO_0001686 quality value http://purl.obolibrary.org/obo/SO_0001686 SO:0001686 http://purl.obolibrary.org/obo/SO_0001686 quality_value SO:ke http://purl.obolibrary.org/obo/SO_0001687 The nucleotide region (usually a palindrome) that is recognized by a restriction enzyme. This may or may not be equal to the restriction enzyme binding site. http://purl.obolibrary.org/obo/SO_0001687 kareneilbeck http://purl.obolibrary.org/obo/SO_0001687 2010-10-29T12:29:57Z http://purl.obolibrary.org/obo/SO_0001687 restriction endonuclease recognition site http://purl.obolibrary.org/obo/SO_0001687 restriction enzyme recognition site http://purl.obolibrary.org/obo/SO_0001687 sequence http://purl.obolibrary.org/obo/SO_0001687 SO:0001687 http://purl.obolibrary.org/obo/SO_0001687 restriction_enzyme_recognition_site SO:ke http://purl.obolibrary.org/obo/SO_0001688 The boundary at which a restriction enzyme breaks the nucleotide sequence. http://purl.obolibrary.org/obo/SO_0001688 kareneilbeck http://purl.obolibrary.org/obo/SO_0001688 2010-10-29T12:35:02Z http://purl.obolibrary.org/obo/SO_0001688 restriction enzyme cleavage junction http://purl.obolibrary.org/obo/SO_0001688 sequence http://purl.obolibrary.org/obo/SO_0001688 SO:0001688 http://purl.obolibrary.org/obo/SO_0001688 restriction_enzyme_cleavage_junction SO:ke http://purl.obolibrary.org/obo/SO_0001689 The restriction enzyme cleavage junction on the 5' strand of the nucleotide sequence. http://purl.obolibrary.org/obo/SO_0001689 kareneilbeck http://purl.obolibrary.org/obo/SO_0001689 2010-10-29T12:36:24Z http://purl.obolibrary.org/obo/SO_0001689 5' restriction enzyme junction http://purl.obolibrary.org/obo/SO_0001689 sequence http://purl.obolibrary.org/obo/SO_0001689 SO:0001689 http://purl.obolibrary.org/obo/SO_0001689 five_prime_restriction_enzyme_junction http://purl.obolibrary.org/obo/SO_0001690 kareneilbeck http://purl.obolibrary.org/obo/SO_0001690 2010-10-29T12:37:52Z http://purl.obolibrary.org/obo/SO_0001690 3' restriction enzyme junction http://purl.obolibrary.org/obo/SO_0001690 sequence http://purl.obolibrary.org/obo/SO_0001690 SO:0001690 http://purl.obolibrary.org/obo/SO_0001690 three_prime_restriction_enzyme_junction http://purl.obolibrary.org/obo/SO_0001691 kareneilbeck http://purl.obolibrary.org/obo/SO_0001691 2010-10-29T12:39:53Z http://purl.obolibrary.org/obo/SO_0001691 blunt end restriction enzyme cleavage site http://purl.obolibrary.org/obo/SO_0001691 sequence http://purl.obolibrary.org/obo/SO_0001691 SO:0001691 http://purl.obolibrary.org/obo/SO_0001691 blunt_end_restriction_enzyme_cleavage_site http://purl.obolibrary.org/obo/SO_0001692 kareneilbeck http://purl.obolibrary.org/obo/SO_0001692 2010-10-29T12:40:50Z http://purl.obolibrary.org/obo/SO_0001692 sequence http://purl.obolibrary.org/obo/SO_0001692 sticky end restriction enzyme cleavage site http://purl.obolibrary.org/obo/SO_0001692 SO:0001692 http://purl.obolibrary.org/obo/SO_0001692 sticky_end_restriction_enzyme_cleavage_site SO:ke http://purl.obolibrary.org/obo/SO_0001693 A restriction enzyme cleavage site where both strands are cut at the same position. http://purl.obolibrary.org/obo/SO_0001693 kareneilbeck http://purl.obolibrary.org/obo/SO_0001693 2010-10-29T12:43:14Z http://purl.obolibrary.org/obo/SO_0001693 sequence http://purl.obolibrary.org/obo/SO_0001693 blunt end restriction enzyme cleavage site http://purl.obolibrary.org/obo/SO_0001693 SO:0001693 http://purl.obolibrary.org/obo/SO_0001693 blunt_end_restriction_enzyme_cleavage_junction SO:ke http://purl.obolibrary.org/obo/SO_0001694 A restriction enzyme cleavage site whereby only one strand is cut. http://purl.obolibrary.org/obo/SO_0001694 kareneilbeck http://purl.obolibrary.org/obo/SO_0001694 2010-10-29T12:44:48Z http://purl.obolibrary.org/obo/SO_0001694 sequence http://purl.obolibrary.org/obo/SO_0001694 single strand restriction enzyme cleavage site http://purl.obolibrary.org/obo/SO_0001694 SO:0001694 http://purl.obolibrary.org/obo/SO_0001694 single_strand_restriction_enzyme_cleavage_site SO:ke http://purl.obolibrary.org/obo/SO_0001695 A terminal region of DNA sequence where the end of the region is not blunt ended. http://purl.obolibrary.org/obo/SO_0001695 kareneilbeck http://purl.obolibrary.org/obo/SO_0001695 2010-10-29T12:48:35Z http://purl.obolibrary.org/obo/SO_0001695 single strand overhang http://purl.obolibrary.org/obo/SO_0001695 sequence http://purl.obolibrary.org/obo/SO_0001695 sticky end http://purl.obolibrary.org/obo/SO_0001695 SO:0001695 http://purl.obolibrary.org/obo/SO_0001695 restriction_enzyme_single_strand_overhang SO:ke http://purl.obolibrary.org/obo/SO_0001696 A region that has been implicated in binding although the exact coordinates of binding may be unknown. http://purl.obolibrary.org/obo/SO_0001696 kareneilbeck http://purl.obolibrary.org/obo/SO_0001696 2010-11-02T11:39:59Z http://purl.obolibrary.org/obo/SO_0001696 sequence http://purl.obolibrary.org/obo/SO_0001696 experimentally defined binding region http://purl.obolibrary.org/obo/SO_0001696 SO:0001696 http://purl.obolibrary.org/obo/SO_0001696 experimentally_defined_binding_region SO:ke http://purl.obolibrary.org/obo/SO_0001697 A region of sequence identified by CHiP seq technology to contain a protein binding site. http://purl.obolibrary.org/obo/SO_0001697 kareneilbeck http://purl.obolibrary.org/obo/SO_0001697 2010-11-02T11:43:07Z http://purl.obolibrary.org/obo/SO_0001697 sequence http://purl.obolibrary.org/obo/SO_0001697 ChIP seq region http://purl.obolibrary.org/obo/SO_0001697 SO:0001697 http://purl.obolibrary.org/obo/SO_0001697 ChIP_seq_region http://www.ncbi.nlm.nih.gov/pubmed/11252801 http://purl.obolibrary.org/obo/SO_0001698 "A primer containing an SNV at the 3' end for accurate genotyping. http://purl.obolibrary.org/obo/SO_0001698 kareneilbeck http://purl.obolibrary.org/obo/SO_0001698 2010-11-11T03:25:21Z http://purl.obolibrary.org/obo/SO_0001698 ASPE primer http://purl.obolibrary.org/obo/SO_0001698 allele specific primer extension primer http://purl.obolibrary.org/obo/SO_0001698 sequence http://purl.obolibrary.org/obo/SO_0001698 SO:0001698 http://purl.obolibrary.org/obo/SO_0001698 ASPE_primer http://www.ncbi.nlm.nih.gov/pubmed/9628033 http://purl.obolibrary.org/obo/SO_0001699 A primer with one or more mismatches to the DNA template corresponding to a position within a restriction enzyme recognition site. http://purl.obolibrary.org/obo/SO_0001699 kareneilbeck http://purl.obolibrary.org/obo/SO_0001699 2010-11-11T03:27:09Z http://purl.obolibrary.org/obo/SO_0001699 dCAPS primer http://purl.obolibrary.org/obo/SO_0001699 derived cleaved amplified polymorphic primer http://purl.obolibrary.org/obo/SO_0001699 sequence http://purl.obolibrary.org/obo/SO_0001699 SO:0001699 http://purl.obolibrary.org/obo/SO_0001699 dCAPS_primer http:en.wikipedia.org/wiki/Histone http://purl.obolibrary.org/obo/SO_0001700 Histone modification is a post translationally modified region whereby residues of the histone protein are modified by methylation, acetylation, phosphorylation, ubiquitination, sumoylation, citrullination, or ADP-ribosylation. http://purl.obolibrary.org/obo/SO_0001700 kareneilbeck http://purl.obolibrary.org/obo/SO_0001700 2010-03-31T10:22:08Z http://purl.obolibrary.org/obo/SO_0001700 histone modification http://purl.obolibrary.org/obo/SO_0001700 sequence http://purl.obolibrary.org/obo/SO_0001700 histone modification site http://purl.obolibrary.org/obo/SO_0001700 SO:0001700 http://purl.obolibrary.org/obo/SO_0001700 histone_modification SO:ke http://purl.obolibrary.org/obo/SO_0001701 A histone modification site where the modification is the methylation of the residue. http://purl.obolibrary.org/obo/SO_0001701 kareneilbeck http://purl.obolibrary.org/obo/SO_0001701 2010-03-31T10:23:02Z http://purl.obolibrary.org/obo/SO_0001701 histone methylation http://purl.obolibrary.org/obo/SO_0001701 histone methylation site http://purl.obolibrary.org/obo/SO_0001701 sequence http://purl.obolibrary.org/obo/SO_0001701 SO:0001701 http://purl.obolibrary.org/obo/SO_0001701 histone_methylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001702 A histone modification where the modification is the acylation of the residue. http://purl.obolibrary.org/obo/SO_0001702 kareneilbeck http://purl.obolibrary.org/obo/SO_0001702 2010-03-31T10:23:27Z http://purl.obolibrary.org/obo/SO_0001702 histone acetylation http://purl.obolibrary.org/obo/SO_0001702 histone acetylation site http://purl.obolibrary.org/obo/SO_0001702 sequence http://purl.obolibrary.org/obo/SO_0001702 SO:0001702 http://purl.obolibrary.org/obo/SO_0001702 histone_acetylation_site http://en.wikipedia.org/wiki/Histone http://purl.obolibrary.org/obo/SO_0001703 A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is acylated. http://purl.obolibrary.org/obo/SO_0001703 kareneilbeck http://purl.obolibrary.org/obo/SO_0001703 2010-03-31T10:25:05Z http://purl.obolibrary.org/obo/SO_0001703 H3K9 acetylation site http://purl.obolibrary.org/obo/SO_0001703 sequence http://purl.obolibrary.org/obo/SO_0001703 H3K9Ac http://purl.obolibrary.org/obo/SO_0001703 SO:0001703 http://purl.obolibrary.org/obo/SO_0001703 H3K9_acetylation_site http://en.wikipedia.org/wiki/Histone http://purl.obolibrary.org/obo/SO_0001704 A kind of histone modification site, whereby the 14th residue (a lysine), from the start of the H3 histone protein is acylated. http://purl.obolibrary.org/obo/SO_0001704 kareneilbeck http://purl.obolibrary.org/obo/SO_0001704 2010-03-31T10:25:53Z http://purl.obolibrary.org/obo/SO_0001704 H3K14 acetylation site http://purl.obolibrary.org/obo/SO_0001704 sequence http://purl.obolibrary.org/obo/SO_0001704 H3K14Ac http://purl.obolibrary.org/obo/SO_0001704 SO:0001704 http://purl.obolibrary.org/obo/SO_0001704 H3K14_acetylation_site http://en.wikipedia.org/wiki/Histone http://purl.obolibrary.org/obo/SO_0001705 A kind of histone modification, whereby the 4th residue (a lysine), from the start of the H3 protein is mono-methylated. http://purl.obolibrary.org/obo/SO_0001705 kareneilbeck http://purl.obolibrary.org/obo/SO_0001705 2010-03-31T10:28:14Z http://purl.obolibrary.org/obo/SO_0001705 H3K4 mono-methylation site http://purl.obolibrary.org/obo/SO_0001705 sequence http://purl.obolibrary.org/obo/SO_0001705 H3K4me1 http://purl.obolibrary.org/obo/SO_0001705 SO:0001705 http://purl.obolibrary.org/obo/SO_0001705 H3K4_monomethylation_site http://en.wikipedia.org/wiki/Histone http://purl.obolibrary.org/obo/SO_0001706 A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 protein is tri-methylated. http://purl.obolibrary.org/obo/SO_0001706 kareneilbeck http://purl.obolibrary.org/obo/SO_0001706 2010-03-31T10:29:12Z http://purl.obolibrary.org/obo/SO_0001706 H3K4 tri-methylation http://purl.obolibrary.org/obo/SO_0001706 sequence http://purl.obolibrary.org/obo/SO_0001706 H3K4me3 http://purl.obolibrary.org/obo/SO_0001706 SO:0001706 http://purl.obolibrary.org/obo/SO_0001706 H3K4_trimethylation http://en.wikipedia.org/wiki/Histone http://purl.obolibrary.org/obo/SO_0001707 A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is tri-methylated. http://purl.obolibrary.org/obo/SO_0001707 kareneilbeck http://purl.obolibrary.org/obo/SO_0001707 2010-03-31T10:30:34Z http://purl.obolibrary.org/obo/SO_0001707 H3K9 tri-methylation site http://purl.obolibrary.org/obo/SO_0001707 sequence http://purl.obolibrary.org/obo/SO_0001707 H3K9Me3 http://purl.obolibrary.org/obo/SO_0001707 SO:0001707 http://purl.obolibrary.org/obo/SO_0001707 H3K9_trimethylation_site http://en.wikipedia.org/wiki/Histone http://purl.obolibrary.org/obo/SO_0001708 A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is mono-methylated. http://purl.obolibrary.org/obo/SO_0001708 kareneilbeck http://purl.obolibrary.org/obo/SO_0001708 2010-03-31T10:31:54Z http://purl.obolibrary.org/obo/SO_0001708 H2K27 mono-methylation site http://purl.obolibrary.org/obo/SO_0001708 sequence http://purl.obolibrary.org/obo/SO_0001708 H2K27Me1 http://purl.obolibrary.org/obo/SO_0001708 SO:0001708 http://purl.obolibrary.org/obo/SO_0001708 H3K27_monomethylation_site http://en.wikipedia.org/wiki/Histone http://purl.obolibrary.org/obo/SO_0001709 A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is tri-methylated. http://purl.obolibrary.org/obo/SO_0001709 kareneilbeck http://purl.obolibrary.org/obo/SO_0001709 2010-03-31T10:32:41Z http://purl.obolibrary.org/obo/SO_0001709 H3K27 tri-methylation site http://purl.obolibrary.org/obo/SO_0001709 sequence http://purl.obolibrary.org/obo/SO_0001709 H3K27Me3 http://purl.obolibrary.org/obo/SO_0001709 SO:0001709 http://purl.obolibrary.org/obo/SO_0001709 H3K27_trimethylation_site http://en.wikipedia.org/wiki/Histone http://purl.obolibrary.org/obo/SO_0001710 A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is mono- methylated. http://purl.obolibrary.org/obo/SO_0001710 kareneilbeck http://purl.obolibrary.org/obo/SO_0001710 2010-03-31T10:33:42Z http://purl.obolibrary.org/obo/SO_0001710 H3K79 mono-methylation site http://purl.obolibrary.org/obo/SO_0001710 sequence http://purl.obolibrary.org/obo/SO_0001710 H3K79me1 http://purl.obolibrary.org/obo/SO_0001710 SO:0001710 http://purl.obolibrary.org/obo/SO_0001710 H3K79_monomethylation_site http://en.wikipedia.org/wiki/Histone http://purl.obolibrary.org/obo/SO_0001711 A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is di-methylated. http://purl.obolibrary.org/obo/SO_0001711 kareneilbeck http://purl.obolibrary.org/obo/SO_0001711 2010-03-31T10:34:39Z http://purl.obolibrary.org/obo/SO_0001711 H3K79 di-methylation site http://purl.obolibrary.org/obo/SO_0001711 sequence http://purl.obolibrary.org/obo/SO_0001711 H3K79Me2 http://purl.obolibrary.org/obo/SO_0001711 SO:0001711 http://purl.obolibrary.org/obo/SO_0001711 H3K79_dimethylation_site http://en.wikipedia.org/wiki/Histone http://purl.obolibrary.org/obo/SO_0001712 A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is tri-methylated. http://purl.obolibrary.org/obo/SO_0001712 kareneilbeck http://purl.obolibrary.org/obo/SO_0001712 2010-03-31T10:35:30Z http://purl.obolibrary.org/obo/SO_0001712 H3K79 tri-methylation site http://purl.obolibrary.org/obo/SO_0001712 sequence http://purl.obolibrary.org/obo/SO_0001712 H3K79Me3 http://purl.obolibrary.org/obo/SO_0001712 SO:0001712 http://purl.obolibrary.org/obo/SO_0001712 H3K79_trimethylation_site http://en.wikipedia.org/wiki/Histone http://purl.obolibrary.org/obo/SO_0001713 A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H4histone protein is mono-methylated. http://purl.obolibrary.org/obo/SO_0001713 kareneilbeck http://purl.obolibrary.org/obo/SO_0001713 2010-03-31T10:36:43Z http://purl.obolibrary.org/obo/SO_0001713 H4K20 mono-methylation site http://purl.obolibrary.org/obo/SO_0001713 sequence http://purl.obolibrary.org/obo/SO_0001713 H4K20Me1 http://purl.obolibrary.org/obo/SO_0001713 SO:0001713 http://purl.obolibrary.org/obo/SO_0001713 H4K20_monomethylation_site http://en.wikipedia.org/wiki/Histone http://purl.obolibrary.org/obo/SO_0001714 A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H2B protein is methylated. http://purl.obolibrary.org/obo/SO_0001714 kareneilbeck http://purl.obolibrary.org/obo/SO_0001714 2010-03-31T10:38:12Z http://purl.obolibrary.org/obo/SO_0001714 H2BK5 mono-methylation site http://purl.obolibrary.org/obo/SO_0001714 sequence http://purl.obolibrary.org/obo/SO_0001714 SO:0001714 http://purl.obolibrary.org/obo/SO_0001714 H2BK5_monomethylation_site http://genesdev.cshlp.org/content/2/4/383.abstrac http://purl.obolibrary.org/obo/SO_0001715 An ISRE is a transcriptional cis regulatory region, containing the consensus region: YAGTTTC(A/T)YTTTYCC, responsible for increased transcription via interferon binding. http://purl.obolibrary.org/obo/SO_0001715 kareneilbeck http://purl.obolibrary.org/obo/SO_0001715 2010-04-05T11:15:08Z http://purl.obolibrary.org/obo/SO_0001715 interferon stimulated response element http://purl.obolibrary.org/obo/SO_0001715 sequence http://purl.obolibrary.org/obo/SO_0001715 SO:0001715 http://purl.obolibrary.org/obo/SO_0001715 Term requested via tracker (2981725) by Alan Ruttenberg, April 2010. It has been described as both an enhancer and a promoter, so the parent is the more general term. http://purl.obolibrary.org/obo/SO_0001715 ISRE SO:ke http://purl.obolibrary.org/obo/SO_0001716 A histone modification site where ubiquitin may be added. http://purl.obolibrary.org/obo/SO_0001716 kareneilbeck http://purl.obolibrary.org/obo/SO_0001716 2010-04-13T10:12:18Z http://purl.obolibrary.org/obo/SO_0001716 sequence http://purl.obolibrary.org/obo/SO_0001716 histone ubiquitination site http://purl.obolibrary.org/obo/SO_0001716 SO:0001716 http://purl.obolibrary.org/obo/SO_0001716 histone_ubiqitination_site SO:ke http://purl.obolibrary.org/obo/SO_0001717 A histone modification site on H2B where ubiquitin may be added. http://purl.obolibrary.org/obo/SO_0001717 kareneilbeck http://purl.obolibrary.org/obo/SO_0001717 2010-04-13T10:13:28Z http://purl.obolibrary.org/obo/SO_0001717 sequence http://purl.obolibrary.org/obo/SO_0001717 H2BUbiq http://purl.obolibrary.org/obo/SO_0001717 SO:0001717 http://purl.obolibrary.org/obo/SO_0001717 H2B_ubiquitination_site SO:ke http://purl.obolibrary.org/obo/SO_0001718 A kind of histone modification site, whereby the 14th residue (a lysine), from the start of the H3 histone protein is acylated. http://purl.obolibrary.org/obo/SO_0001718 kareneilbeck http://purl.obolibrary.org/obo/SO_0001718 2010-04-13T10:39:35Z http://purl.obolibrary.org/obo/SO_0001718 H3K18 acetylation site http://purl.obolibrary.org/obo/SO_0001718 sequence http://purl.obolibrary.org/obo/SO_0001718 H3K18Ac http://purl.obolibrary.org/obo/SO_0001718 SO:0001718 http://purl.obolibrary.org/obo/SO_0001718 H3K18_acetylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001719 A kind of histone modification, whereby the 23rd residue (a lysine), from the start of the H3 histone protein is acylated. http://purl.obolibrary.org/obo/SO_0001719 kareneilbeck http://purl.obolibrary.org/obo/SO_0001719 2010-04-13T10:42:45Z http://purl.obolibrary.org/obo/SO_0001719 sequence http://purl.obolibrary.org/obo/SO_0001719 H3K23 acylation site http://purl.obolibrary.org/obo/SO_0001719 H3K23Ac http://purl.obolibrary.org/obo/SO_0001719 SO:0001719 http://purl.obolibrary.org/obo/SO_0001719 H3K23_acylation_site SO:ke http://en.wikipedia.org/wiki/Epigenetics http://purl.obolibrary.org/obo/SO_0001720 A biological region implicated in inherited changes caused by mechanisms other than changes in the underlying DNA sequence. http://purl.obolibrary.org/obo/SO_0001720 kareneilbeck http://purl.obolibrary.org/obo/SO_0001720 2010-03-27T12:02:29Z http://purl.obolibrary.org/obo/SO_0001720 sequence http://purl.obolibrary.org/obo/SO_0001720 epigenetically modified region http://purl.obolibrary.org/obo/SO_0001720 SO:0001720 http://purl.obolibrary.org/obo/SO_0001720 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001720 epigenetically_modified_region SO:ke http://purl.obolibrary.org/obo/SO_0001721 A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is acylated. http://purl.obolibrary.org/obo/SO_0001721 kareneilbeck http://purl.obolibrary.org/obo/SO_0001721 2010-04-13T10:44:09Z http://purl.obolibrary.org/obo/SO_0001721 H3K27 acylation site http://purl.obolibrary.org/obo/SO_0001721 sequence http://purl.obolibrary.org/obo/SO_0001721 H3K27Ac http://purl.obolibrary.org/obo/SO_0001721 SO:0001721 http://purl.obolibrary.org/obo/SO_0001721 H3K27_acylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001722 A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is mono-methylated. http://purl.obolibrary.org/obo/SO_0001722 kareneilbeck http://purl.obolibrary.org/obo/SO_0001722 2010-04-13T10:46:32Z http://purl.obolibrary.org/obo/SO_0001722 H3K36 mono-methylation site http://purl.obolibrary.org/obo/SO_0001722 sequence http://purl.obolibrary.org/obo/SO_0001722 H3K36<Me1 http://purl.obolibrary.org/obo/SO_0001722 SO:0001722 http://purl.obolibrary.org/obo/SO_0001722 H3K36_monomethylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001723 A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is dimethylated. http://purl.obolibrary.org/obo/SO_0001723 kareneilbeck http://purl.obolibrary.org/obo/SO_0001723 2010-04-13T10:59:35Z http://purl.obolibrary.org/obo/SO_0001723 H3K36 di-methylation site http://purl.obolibrary.org/obo/SO_0001723 sequence http://purl.obolibrary.org/obo/SO_0001723 H3K36Me2 http://purl.obolibrary.org/obo/SO_0001723 SO:0001723 http://purl.obolibrary.org/obo/SO_0001723 H3K36_dimethylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001724 A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is tri-methylated. http://purl.obolibrary.org/obo/SO_0001724 kareneilbeck http://purl.obolibrary.org/obo/SO_0001724 2010-04-13T11:01:58Z http://purl.obolibrary.org/obo/SO_0001724 H3K36 tri-methylation site http://purl.obolibrary.org/obo/SO_0001724 sequence http://purl.obolibrary.org/obo/SO_0001724 H3K36Me3 http://purl.obolibrary.org/obo/SO_0001724 SO:0001724 http://purl.obolibrary.org/obo/SO_0001724 H3K36_trimethylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001725 A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 histone protein is di-methylated. http://purl.obolibrary.org/obo/SO_0001725 kareneilbeck http://purl.obolibrary.org/obo/SO_0001725 2010-04-13T11:03:15Z http://purl.obolibrary.org/obo/SO_0001725 H3K4 di-methylation site http://purl.obolibrary.org/obo/SO_0001725 sequence http://purl.obolibrary.org/obo/SO_0001725 H3K4Me2 http://purl.obolibrary.org/obo/SO_0001725 SO:0001725 http://purl.obolibrary.org/obo/SO_0001725 H3K4_dimethylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001726 A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is di-methylated. http://purl.obolibrary.org/obo/SO_0001726 kareneilbeck http://purl.obolibrary.org/obo/SO_0001726 2010-04-13T01:45:41Z http://purl.obolibrary.org/obo/SO_0001726 H3K27 di-methylation site http://purl.obolibrary.org/obo/SO_0001726 sequence http://purl.obolibrary.org/obo/SO_0001726 H3K27Me2 http://purl.obolibrary.org/obo/SO_0001726 SO:0001726 http://purl.obolibrary.org/obo/SO_0001726 H3K27_dimethylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001727 A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is mono-methylated. http://purl.obolibrary.org/obo/SO_0001727 kareneilbeck http://purl.obolibrary.org/obo/SO_0001727 2010-04-13T11:06:17Z http://purl.obolibrary.org/obo/SO_0001727 H3K9 mono-methylation site http://purl.obolibrary.org/obo/SO_0001727 sequence http://purl.obolibrary.org/obo/SO_0001727 H3K9Me1 http://purl.obolibrary.org/obo/SO_0001727 SO:0001727 http://purl.obolibrary.org/obo/SO_0001727 H3K9_monomethylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001728 A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein may be dimethylated. http://purl.obolibrary.org/obo/SO_0001728 kareneilbeck http://purl.obolibrary.org/obo/SO_0001728 2010-04-13T11:08:19Z http://purl.obolibrary.org/obo/SO_0001728 H3K9 di-methylation site http://purl.obolibrary.org/obo/SO_0001728 sequence http://purl.obolibrary.org/obo/SO_0001728 H3K9Me2 http://purl.obolibrary.org/obo/SO_0001728 SO:0001728 http://purl.obolibrary.org/obo/SO_0001728 H3K9_dimethylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001729 A kind of histone modification site, whereby the 16th residue (a lysine), from the start of the H4 histone protein is acylated. http://purl.obolibrary.org/obo/SO_0001729 kareneilbeck http://purl.obolibrary.org/obo/SO_0001729 2010-04-13T11:09:41Z http://purl.obolibrary.org/obo/SO_0001729 sequence http://purl.obolibrary.org/obo/SO_0001729 H4K16 acylation_site http://purl.obolibrary.org/obo/SO_0001729 H4K16Ac http://purl.obolibrary.org/obo/SO_0001729 SO:0001729 http://purl.obolibrary.org/obo/SO_0001729 H4K16_acylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001730 A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H4 histone protein is acylated. http://purl.obolibrary.org/obo/SO_0001730 kareneilbeck http://purl.obolibrary.org/obo/SO_0001730 2010-04-13T11:13:00Z http://purl.obolibrary.org/obo/SO_0001730 sequence http://purl.obolibrary.org/obo/SO_0001730 H4K5 acylation site http://purl.obolibrary.org/obo/SO_0001730 H4K5Ac http://purl.obolibrary.org/obo/SO_0001730 SO:0001730 http://purl.obolibrary.org/obo/SO_0001730 H4K5_acylation_site SO:KE http://purl.obolibrary.org/obo/SO_0001731 A kind of histone modification site, whereby the 8th residue (a lysine), from the start of the H4 histone protein is acylated. http://purl.obolibrary.org/obo/SO_0001731 kareneilbeck http://purl.obolibrary.org/obo/SO_0001731 2010-04-13T11:14:24Z http://purl.obolibrary.org/obo/SO_0001731 sequence http://purl.obolibrary.org/obo/SO_0001731 H4K8 acylation site http://purl.obolibrary.org/obo/SO_0001731 H4K8Ac http://purl.obolibrary.org/obo/SO_0001731 SO:0001731 http://purl.obolibrary.org/obo/SO_0001731 H4K8_acylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001732 A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is methylated. http://purl.obolibrary.org/obo/SO_0001732 kareneilbeck http://purl.obolibrary.org/obo/SO_0001732 2010-04-13T11:26:22Z http://purl.obolibrary.org/obo/SO_0001732 H3K27 methylation site http://purl.obolibrary.org/obo/SO_0001732 sequence http://purl.obolibrary.org/obo/SO_0001732 SO:0001732 http://purl.obolibrary.org/obo/SO_0001732 H3K27_methylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001733 A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is methylated. http://purl.obolibrary.org/obo/SO_0001733 kareneilbeck http://purl.obolibrary.org/obo/SO_0001733 2010-04-13T11:27:28Z http://purl.obolibrary.org/obo/SO_0001733 H3K36 methylation site http://purl.obolibrary.org/obo/SO_0001733 sequence http://purl.obolibrary.org/obo/SO_0001733 SO:0001733 http://purl.obolibrary.org/obo/SO_0001733 H3K36_methylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001734 A kind of histone modification, whereby the 4th residue (a lysine), from the start of the H3 protein is methylated. http://purl.obolibrary.org/obo/SO_0001734 kareneilbeck http://purl.obolibrary.org/obo/SO_0001734 2010-04-13T11:28:14Z http://purl.obolibrary.org/obo/SO_0001734 H3K4 methylation site http://purl.obolibrary.org/obo/SO_0001734 sequence http://purl.obolibrary.org/obo/SO_0001734 SO:0001734 http://purl.obolibrary.org/obo/SO_0001734 H3K4_methylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001735 A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is methylated. http://purl.obolibrary.org/obo/SO_0001735 kareneilbeck http://purl.obolibrary.org/obo/SO_0001735 2010-04-13T11:29:16Z http://purl.obolibrary.org/obo/SO_0001735 H3K79 methylation site http://purl.obolibrary.org/obo/SO_0001735 sequence http://purl.obolibrary.org/obo/SO_0001735 SO:0001735 http://purl.obolibrary.org/obo/SO_0001735 H3K79_methylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001736 A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is methylated. http://purl.obolibrary.org/obo/SO_0001736 kareneilbeck http://purl.obolibrary.org/obo/SO_0001736 2010-04-13T11:31:37Z http://purl.obolibrary.org/obo/SO_0001736 H3K9 methylation site http://purl.obolibrary.org/obo/SO_0001736 sequence http://purl.obolibrary.org/obo/SO_0001736 SO:0001736 http://purl.obolibrary.org/obo/SO_0001736 H3K9_methylation_site SO:ke http://purl.obolibrary.org/obo/SO_0001737 A histone modification, whereby the histone protein is acylated at multiple sites in a region. http://purl.obolibrary.org/obo/SO_0001737 kareneilbeck http://purl.obolibrary.org/obo/SO_0001737 2010-04-13T01:58:21Z http://purl.obolibrary.org/obo/SO_0001737 sequence http://purl.obolibrary.org/obo/SO_0001737 histone acylation region http://purl.obolibrary.org/obo/SO_0001737 SO:0001737 http://purl.obolibrary.org/obo/SO_0001737 histone_acylation_region SO:ke http://purl.obolibrary.org/obo/SO_0001738 A region of the H4 histone whereby multiple lysines are acylated. http://purl.obolibrary.org/obo/SO_0001738 kareneilbeck http://purl.obolibrary.org/obo/SO_0001738 2010-04-13T02:00:06Z http://purl.obolibrary.org/obo/SO_0001738 H4K acylation region http://purl.obolibrary.org/obo/SO_0001738 sequence http://purl.obolibrary.org/obo/SO_0001738 H4KAc http://purl.obolibrary.org/obo/SO_0001738 SO:0001738 http://purl.obolibrary.org/obo/SO_0001738 H4K_acylation_region SO:xp http://purl.obolibrary.org/obo/SO_0001739 A gene with a start codon other than AUG. http://purl.obolibrary.org/obo/SO_0001739 kareneilbeck http://purl.obolibrary.org/obo/SO_0001739 2011-01-10T01:30:31Z http://purl.obolibrary.org/obo/SO_0001739 gene with non canonical start codon http://purl.obolibrary.org/obo/SO_0001739 sequence http://purl.obolibrary.org/obo/SO_0001739 SO:0001739 http://purl.obolibrary.org/obo/SO_0001739 Requested by flybase, Dec 2010. http://purl.obolibrary.org/obo/SO_0001739 gene_with_non_canonical_start_codon SO:mc http://purl.obolibrary.org/obo/SO_0001740 A gene with a translational start codon of CUG. http://purl.obolibrary.org/obo/SO_0001740 kareneilbeck http://purl.obolibrary.org/obo/SO_0001740 2011-01-10T01:32:35Z http://purl.obolibrary.org/obo/SO_0001740 gene with start codon CUG http://purl.obolibrary.org/obo/SO_0001740 sequence http://purl.obolibrary.org/obo/SO_0001740 SO:0001740 http://purl.obolibrary.org/obo/SO_0001740 Requested by flybase, Dec 2010. http://purl.obolibrary.org/obo/SO_0001740 gene_with_start_codon_CUG SO:hd http://purl.obolibrary.org/obo/SO_0001741 A gene segment which when incorporated by somatic recombination in the final gene transcript results in a nonfunctional product. http://purl.obolibrary.org/obo/SO_0001741 batchelorc http://purl.obolibrary.org/obo/SO_0001741 2011-02-15T05:07:52Z http://purl.obolibrary.org/obo/SO_0001741 pseudogenic gene segment http://purl.obolibrary.org/obo/SO_0001741 sequence http://purl.obolibrary.org/obo/SO_0001741 SO:0001741 http://purl.obolibrary.org/obo/SO_0001741 pseudogenic_gene_segment SO:ke http://purl.obolibrary.org/obo/SO_0001742 A sequence alteration whereby the copy number of a given regions is greater than the reference sequence. http://purl.obolibrary.org/obo/SO_0001742 kareneilbeck http://purl.obolibrary.org/obo/SO_0001742 2011-02-28T01:54:09Z http://purl.obolibrary.org/obo/SO_0001742 copy number gain http://purl.obolibrary.org/obo/SO_0001742 sequence http://www.ncbi.nlm.nih.gov/dbvar/ http://purl.obolibrary.org/obo/so-xp.obo#dbvar http://purl.obolibrary.org/obo/SO_0001742 gain http://purl.obolibrary.org/obo/SO_0001742 SO:0001742 http://purl.obolibrary.org/obo/SO_0001742 http://purl.obolibrary.org/obo/so-xp.obo#DBVAR http://purl.obolibrary.org/obo/SO_0001742 copy_number_gain SO:ke http://purl.obolibrary.org/obo/SO_0001743 A sequence alteration whereby the copy number of a given region is less than the reference sequence. http://purl.obolibrary.org/obo/SO_0001743 kareneilbeck http://purl.obolibrary.org/obo/SO_0001743 2011-02-28T01:55:02Z http://purl.obolibrary.org/obo/SO_0001743 copy number loss http://purl.obolibrary.org/obo/SO_0001743 sequence http://www.ncbi.nlm.nih.gov/dbvar/ http://purl.obolibrary.org/obo/so-xp.obo#dbvar http://purl.obolibrary.org/obo/SO_0001743 loss http://purl.obolibrary.org/obo/SO_0001743 SO:0001743 http://purl.obolibrary.org/obo/SO_0001743 http://purl.obolibrary.org/obo/so-xp.obo#DBVAR http://purl.obolibrary.org/obo/SO_0001743 copy_number_loss SO:BM http://purl.obolibrary.org/obo/SO_0001744 Uniparental disomy is a sequence_alteration where a diploid individual receives two copies for all or part of a chromosome from one parent and no copies of the same chromosome or region from the other parent. http://purl.obolibrary.org/obo/SO_0001744 kareneilbeck http://purl.obolibrary.org/obo/SO_0001744 2011-02-28T02:01:05Z wikipedia http://purl.obolibrary.org/obo/SO_0001744 http:http://en.wikipedia.org/wiki/Uniparental_disomy http://www.ncbi.nlm.nih.gov/dbvar/ http://purl.obolibrary.org/obo/so-xp.obo#dbvar http://purl.obolibrary.org/obo/SO_0001744 UPD http://purl.obolibrary.org/obo/SO_0001744 uniparental disomy http://purl.obolibrary.org/obo/SO_0001744 sequence http://purl.obolibrary.org/obo/SO_0001744 SO:0001744 http://purl.obolibrary.org/obo/SO_0001744 http://purl.obolibrary.org/obo/so-xp.obo#DBVAR http://purl.obolibrary.org/obo/SO_0001744 UPD SO:bm http://purl.obolibrary.org/obo/SO_0001745 Uniparental disomy is a sequence_alteration where a diploid individual receives two copies for all or part of a chromosome from the mother and no copies of the same chromosome or region from the father. http://purl.obolibrary.org/obo/SO_0001745 kareneilbeck http://purl.obolibrary.org/obo/SO_0001745 2011-02-28T02:03:01Z http://purl.obolibrary.org/obo/SO_0001745 maternal uniparental disomy http://purl.obolibrary.org/obo/SO_0001745 sequence http://purl.obolibrary.org/obo/SO_0001745 SO:0001745 http://purl.obolibrary.org/obo/SO_0001745 maternal_uniparental_disomy SO:bm http://purl.obolibrary.org/obo/SO_0001746 Uniparental disomy is a sequence_alteration where a diploid individual receives two copies for all or part of a chromosome from the father and no copies of the same chromosome or region from the mother. http://purl.obolibrary.org/obo/SO_0001746 kareneilbeck http://purl.obolibrary.org/obo/SO_0001746 2011-02-28T02:03:30Z http://purl.obolibrary.org/obo/SO_0001746 paternal uniparental disomy http://purl.obolibrary.org/obo/SO_0001746 sequence http://purl.obolibrary.org/obo/SO_0001746 SO:0001746 http://purl.obolibrary.org/obo/SO_0001746 paternal_uniparental_disomy SO:cb http://purl.obolibrary.org/obo/SO_0001747 A DNA sequence that in the normal state of the chromosome corresponds to an unfolded, un-complexed stretch of double-stranded DNA. http://purl.obolibrary.org/obo/SO_0001747 kareneilbeck http://purl.obolibrary.org/obo/SO_0001747 2011-02-28T02:21:52Z http://purl.obolibrary.org/obo/SO_0001747 open chromatin region http://purl.obolibrary.org/obo/SO_0001747 sequence http://purl.obolibrary.org/obo/SO_0001747 SO:0001747 http://purl.obolibrary.org/obo/SO_0001747 Requested by John Calley 3125900. http://purl.obolibrary.org/obo/SO_0001747 open_chromatin_region SO:nlw http://purl.obolibrary.org/obo/SO_0001748 A SL2_acceptor_site which appends the SL3 RNA leader sequence to the 5' end of an mRNA. SL3 acceptor sites occur in genes in internal segments of polycistronic transcripts. http://purl.obolibrary.org/obo/SO_0001748 kareneilbeck http://purl.obolibrary.org/obo/SO_0001748 2011-02-28T02:58:40Z http://purl.obolibrary.org/obo/SO_0001748 SL3 acceptor site http://purl.obolibrary.org/obo/SO_0001748 sequence http://purl.obolibrary.org/obo/SO_0001748 SO:0001748 http://purl.obolibrary.org/obo/SO_0001748 SL3_acceptor_site SO:nlw http://purl.obolibrary.org/obo/SO_0001749 A SL2_acceptor_site which appends the SL4 RNA leader sequence to the 5' end of an mRNA. SL4 acceptor sites occur in genes in internal segments of polycistronic transcripts. http://purl.obolibrary.org/obo/SO_0001749 kareneilbeck http://purl.obolibrary.org/obo/SO_0001749 2011-02-28T03:08:47Z http://purl.obolibrary.org/obo/SO_0001749 SL4 acceptor site http://purl.obolibrary.org/obo/SO_0001749 sequence http://purl.obolibrary.org/obo/SO_0001749 SO:0001749 http://purl.obolibrary.org/obo/SO_0001749 SL4_acceptor_site SO:nlw http://purl.obolibrary.org/obo/SO_0001750 A SL2_acceptor_site which appends the SL5 RNA leader sequence to the 5' end of an mRNA. SL5 acceptor sites occur in genes in internal segments of polycistronic transcripts. http://purl.obolibrary.org/obo/SO_0001750 kareneilbeck http://purl.obolibrary.org/obo/SO_0001750 2011-02-28T03:09:36Z http://purl.obolibrary.org/obo/SO_0001750 SL5 acceptor site http://purl.obolibrary.org/obo/SO_0001750 sequence http://purl.obolibrary.org/obo/SO_0001750 SO:0001750 http://purl.obolibrary.org/obo/SO_0001750 SL5_acceptor_site SO:nlw http://purl.obolibrary.org/obo/SO_0001751 A SL2_acceptor_site which appends the SL6 RNA leader sequence to the 5' end of an mRNA. SL6 acceptor sites occur in genes in internal segments of polycistronic transcripts. http://purl.obolibrary.org/obo/SO_0001751 kareneilbeck http://purl.obolibrary.org/obo/SO_0001751 2011-02-28T03:10:14Z http://purl.obolibrary.org/obo/SO_0001751 SL6 acceptor site http://purl.obolibrary.org/obo/SO_0001751 sequence http://purl.obolibrary.org/obo/SO_0001751 SO:0001751 http://purl.obolibrary.org/obo/SO_0001751 SL6_acceptor_site SO:nlw http://purl.obolibrary.org/obo/SO_0001752 A SL2_acceptor_site which appends the SL7 RNA leader sequence to the 5' end of an mRNA. SL7 acceptor sites occur in genes in internal segments of polycistronic transcripts. http://purl.obolibrary.org/obo/SO_0001752 kareneilbeck http://purl.obolibrary.org/obo/SO_0001752 2011-02-28T03:13:20Z http://purl.obolibrary.org/obo/SO_0001752 SL37 acceptor site http://purl.obolibrary.org/obo/SO_0001752 sequence http://purl.obolibrary.org/obo/SO_0001752 SO:0001752 http://purl.obolibrary.org/obo/SO_0001752 SL7_acceptor_site SO:nlw http://purl.obolibrary.org/obo/SO_0001753 A SL2_acceptor_site which appends the SL8 RNA leader sequence to the 5' end of an mRNA. SL8 acceptor sites occur in genes in internal segments of polycistronic transcripts. http://purl.obolibrary.org/obo/SO_0001753 kareneilbeck http://purl.obolibrary.org/obo/SO_0001753 2011-02-28T03:15:26Z http://purl.obolibrary.org/obo/SO_0001753 SL8 acceptor site http://purl.obolibrary.org/obo/SO_0001753 sequence http://purl.obolibrary.org/obo/SO_0001753 SO:0001753 http://purl.obolibrary.org/obo/SO_0001753 SL8_acceptor_site SO:nlw http://purl.obolibrary.org/obo/SO_0001754 A SL2_acceptor_site which appends the SL9 RNA leader sequence to the 5' end of an mRNA. SL9 acceptor sites occur in genes in internal segments of polycistronic transcripts. http://purl.obolibrary.org/obo/SO_0001754 kareneilbeck http://purl.obolibrary.org/obo/SO_0001754 2011-02-28T03:15:57Z http://purl.obolibrary.org/obo/SO_0001754 SL9 acceptor site http://purl.obolibrary.org/obo/SO_0001754 sequence http://purl.obolibrary.org/obo/SO_0001754 SO:0001754 http://purl.obolibrary.org/obo/SO_0001754 SL9_acceptor_site SO:nlw http://purl.obolibrary.org/obo/SO_0001755 A SL2_acceptor_site which appends the SL10 RNA leader sequence to the 5' end of an mRNA. SL10 acceptor sites occur in genes in internal segments of polycistronic transcripts. http://purl.obolibrary.org/obo/SO_0001755 kareneilbeck http://purl.obolibrary.org/obo/SO_0001755 2011-02-28T03:16:31Z http://purl.obolibrary.org/obo/SO_0001755 SL10 acceptor site http://purl.obolibrary.org/obo/SO_0001755 sequence http://purl.obolibrary.org/obo/SO_0001755 SO:0001755 http://purl.obolibrary.org/obo/SO_0001755 SL10_acceptor_site SO:nlw http://purl.obolibrary.org/obo/SO_0001756 A SL2_acceptor_site which appends the SL11 RNA leader sequence to the 5' end of an mRNA. SL11 acceptor sites occur in genes in internal segments of polycistronic transcripts. http://purl.obolibrary.org/obo/SO_0001756 kareneilbeck http://purl.obolibrary.org/obo/SO_0001756 2011-02-28T03:16:54Z http://purl.obolibrary.org/obo/SO_0001756 SL11 acceptor site http://purl.obolibrary.org/obo/SO_0001756 sequence http://purl.obolibrary.org/obo/SO_0001756 SO:0001756 http://purl.obolibrary.org/obo/SO_0001756 SL11_acceptor_site SO:nlw http://purl.obolibrary.org/obo/SO_0001757 A SL2_acceptor_site which appends the SL12 RNA leader sequence to the 5' end of an mRNA. SL12 acceptor sites occur in genes in internal segments of polycistronic transcripts. http://purl.obolibrary.org/obo/SO_0001757 kareneilbeck http://purl.obolibrary.org/obo/SO_0001757 2011-02-28T03:17:23Z http://purl.obolibrary.org/obo/SO_0001757 SL12 acceptor site http://purl.obolibrary.org/obo/SO_0001757 sequence http://purl.obolibrary.org/obo/SO_0001757 SO:0001757 http://purl.obolibrary.org/obo/SO_0001757 SL12_acceptor_site http://en.wikipedia.org/wiki/Pseudogene http://purl.obolibrary.org/obo/SO_0001758 A pseudogene that arose via gene duplication. Generally duplicated pseudogenes have the same structure as the original gene, including intron-exon structure and some regulatory sequence. http://purl.obolibrary.org/obo/SO_0001758 kareneilbeck http://purl.obolibrary.org/obo/SO_0001758 2011-03-09T09:58:04Z http://purl.obolibrary.org/obo/SO_0001758 sequence http://purl.obolibrary.org/obo/SO_0001758 duplicated pseudogene http://purl.obolibrary.org/obo/SO_0001758 SO:0001758 http://purl.obolibrary.org/obo/SO_0001758 duplicated_pseudogene SO:ke http://en.wikipedia.org/wiki/Pseudogene http://purl.obolibrary.org/obo/SO_0001759 A pseudogene, deactivated from original state by mutation, fixed in a population. http://purl.obolibrary.org/obo/SO_0001759 kareneilbeck http://purl.obolibrary.org/obo/SO_0001759 2011-03-09T10:04:04Z http://purl.obolibrary.org/obo/SO_0001759 sequence http://purl.obolibrary.org/obo/SO_0001759 disabled gene http://purl.obolibrary.org/obo/SO_0001759 unitary pseudogene http://purl.obolibrary.org/obo/SO_0001759 SO:0001759 http://purl.obolibrary.org/obo/SO_0001759 This is different from a non processed pseudogene because the gene was not duplicated. An example is the L-gulono-lactone oxidase pseudogene in primates. http://purl.obolibrary.org/obo/SO_0001759 unitary_pseudogene SO:ke http://purl.obolibrary.org/obo/SO_0001760 A pseudogene that arose from a means other than retrotransposition. http://purl.obolibrary.org/obo/SO_0001760 kareneilbeck http://purl.obolibrary.org/obo/SO_0001760 2011-03-09T10:54:47Z http://purl.obolibrary.org/obo/SO_0001760 sequence http://purl.obolibrary.org/obo/SO_0001760 non processed pseudogene http://purl.obolibrary.org/obo/SO_0001760 SO:0001760 http://purl.obolibrary.org/obo/SO_0001760 non_processed_pseudogene PMID:17597783 SO:ke http://purl.obolibrary.org/obo/SO_0001761 A dependent entity that inheres in a bearer, a sequence variant. http://purl.obolibrary.org/obo/SO_0001761 kareneilbeck http://purl.obolibrary.org/obo/SO_0001761 2011-03-15T03:40:35Z http://purl.obolibrary.org/obo/SO_0001761 variant quality http://purl.obolibrary.org/obo/SO_0001761 sequence http://purl.obolibrary.org/obo/SO_0001761 SO:0001761 http://purl.obolibrary.org/obo/SO_0001761 variant_quality PMID:17597783 SO:ke http://purl.obolibrary.org/obo/SO_0001762 A quality inhering in a variant by virtue of its origin. http://purl.obolibrary.org/obo/SO_0001762 kareneilbeck http://purl.obolibrary.org/obo/SO_0001762 2011-03-15T03:42:13Z http://purl.obolibrary.org/obo/SO_0001762 variant origin http://purl.obolibrary.org/obo/SO_0001762 sequence http://purl.obolibrary.org/obo/SO_0001762 SO:0001762 http://purl.obolibrary.org/obo/SO_0001762 variant_origin PMID:17597783 SO:ke http://purl.obolibrary.org/obo/SO_0001763 A physical quality which inheres to the variant by virtue of the number instances of the variant within a population. http://purl.obolibrary.org/obo/SO_0001763 kareneilbeck http://purl.obolibrary.org/obo/SO_0001763 2011-03-15T03:44:39Z http://purl.obolibrary.org/obo/SO_0001763 variant frequency http://purl.obolibrary.org/obo/SO_0001763 sequence http://purl.obolibrary.org/obo/SO_0001763 SO:0001763 http://purl.obolibrary.org/obo/SO_0001763 variant_frequency SO:ke http://purl.obolibrary.org/obo/SO_0001764 A physical quality which inheres to the variant by virtue of the number instances of the variant within a population. http://purl.obolibrary.org/obo/SO_0001764 kareneilbeck http://purl.obolibrary.org/obo/SO_0001764 2011-03-15T03:47:20Z http://purl.obolibrary.org/obo/SO_0001764 unique variant http://purl.obolibrary.org/obo/SO_0001764 sequence http://purl.obolibrary.org/obo/SO_0001764 SO:0001764 http://purl.obolibrary.org/obo/SO_0001764 unique_variant http://purl.obolibrary.org/obo/SO_0001765 kareneilbeck http://purl.obolibrary.org/obo/SO_0001765 2011-03-15T03:48:29Z http://purl.obolibrary.org/obo/SO_0001765 rare variant http://purl.obolibrary.org/obo/SO_0001765 sequence http://purl.obolibrary.org/obo/SO_0001765 SO:0001765 http://purl.obolibrary.org/obo/SO_0001765 rare_variant http://purl.obolibrary.org/obo/SO_0001766 kareneilbeck http://purl.obolibrary.org/obo/SO_0001766 2011-03-15T03:48:51Z http://purl.obolibrary.org/obo/SO_0001766 polymorphic variant http://purl.obolibrary.org/obo/SO_0001766 sequence http://purl.obolibrary.org/obo/SO_0001766 SO:0001766 http://purl.obolibrary.org/obo/SO_0001766 polymorphic_variant http://purl.obolibrary.org/obo/SO_0001767 kareneilbeck http://purl.obolibrary.org/obo/SO_0001767 2011-03-15T03:50:36Z http://purl.obolibrary.org/obo/SO_0001767 common variant http://purl.obolibrary.org/obo/SO_0001767 sequence http://purl.obolibrary.org/obo/SO_0001767 SO:0001767 http://purl.obolibrary.org/obo/SO_0001767 common_variant http://purl.obolibrary.org/obo/SO_0001768 kareneilbeck http://purl.obolibrary.org/obo/SO_0001768 2011-03-15T03:50:53Z http://purl.obolibrary.org/obo/SO_0001768 fixed variant http://purl.obolibrary.org/obo/SO_0001768 sequence http://purl.obolibrary.org/obo/SO_0001768 SO:0001768 http://purl.obolibrary.org/obo/SO_0001768 fixed_variant PMID:17597783 SO:ke http://purl.obolibrary.org/obo/SO_0001769 A quality inhering in a variant by virtue of its phenotype. http://purl.obolibrary.org/obo/SO_0001769 kareneilbeck http://purl.obolibrary.org/obo/SO_0001769 2011-03-15T03:53:15Z http://purl.obolibrary.org/obo/SO_0001769 variant phenotype http://purl.obolibrary.org/obo/SO_0001769 sequence http://purl.obolibrary.org/obo/SO_0001769 SO:0001769 http://purl.obolibrary.org/obo/SO_0001769 variant_phenotype http://purl.obolibrary.org/obo/SO_0001770 kareneilbeck http://purl.obolibrary.org/obo/SO_0001770 2011-03-15T03:55:40Z http://purl.obolibrary.org/obo/SO_0001770 benign variant http://purl.obolibrary.org/obo/SO_0001770 sequence http://purl.obolibrary.org/obo/SO_0001770 SO:0001770 http://purl.obolibrary.org/obo/SO_0001770 benign_variant http://purl.obolibrary.org/obo/SO_0001771 kareneilbeck http://purl.obolibrary.org/obo/SO_0001771 2011-03-15T04:05:16Z http://purl.obolibrary.org/obo/SO_0001771 disease associated variant http://purl.obolibrary.org/obo/SO_0001771 sequence http://purl.obolibrary.org/obo/SO_0001771 SO:0001771 http://purl.obolibrary.org/obo/SO_0001771 disease_associated_variant http://purl.obolibrary.org/obo/SO_0001772 kareneilbeck http://purl.obolibrary.org/obo/SO_0001772 2011-03-15T04:05:46Z http://purl.obolibrary.org/obo/SO_0001772 disease causing variant http://purl.obolibrary.org/obo/SO_0001772 sequence http://purl.obolibrary.org/obo/SO_0001772 SO:0001772 http://purl.obolibrary.org/obo/SO_0001772 disease_causing_variant http://purl.obolibrary.org/obo/SO_0001773 kareneilbeck http://purl.obolibrary.org/obo/SO_0001773 2011-03-15T04:06:22Z http://purl.obolibrary.org/obo/SO_0001773 lethal variant http://purl.obolibrary.org/obo/SO_0001773 sequence http://purl.obolibrary.org/obo/SO_0001773 SO:0001773 http://purl.obolibrary.org/obo/SO_0001773 lethal_variant http://purl.obolibrary.org/obo/SO_0001774 kareneilbeck http://purl.obolibrary.org/obo/SO_0001774 2011-03-15T04:28:13Z http://purl.obolibrary.org/obo/SO_0001774 quantitative variant http://purl.obolibrary.org/obo/SO_0001774 sequence http://purl.obolibrary.org/obo/SO_0001774 SO:0001774 http://purl.obolibrary.org/obo/SO_0001774 quantitative_variant http://purl.obolibrary.org/obo/SO_0001775 kareneilbeck http://purl.obolibrary.org/obo/SO_0001775 2011-03-15T04:30:23Z http://purl.obolibrary.org/obo/SO_0001775 maternal variant http://purl.obolibrary.org/obo/SO_0001775 sequence http://purl.obolibrary.org/obo/SO_0001775 SO:0001775 http://purl.obolibrary.org/obo/SO_0001775 maternal_variant http://purl.obolibrary.org/obo/SO_0001776 kareneilbeck http://purl.obolibrary.org/obo/SO_0001776 2011-03-15T04:30:47Z http://purl.obolibrary.org/obo/SO_0001776 paternal variant http://purl.obolibrary.org/obo/SO_0001776 sequence http://purl.obolibrary.org/obo/SO_0001776 SO:0001776 http://purl.obolibrary.org/obo/SO_0001776 paternal_variant http://purl.obolibrary.org/obo/SO_0001777 kareneilbeck http://purl.obolibrary.org/obo/SO_0001777 2011-03-15T04:31:12Z http://purl.obolibrary.org/obo/SO_0001777 somatic variant http://purl.obolibrary.org/obo/SO_0001777 sequence http://purl.obolibrary.org/obo/SO_0001777 SO:0001777 http://purl.obolibrary.org/obo/SO_0001777 somatic_variant http://purl.obolibrary.org/obo/SO_0001778 kareneilbeck http://purl.obolibrary.org/obo/SO_0001778 2011-03-15T04:31:46Z http://purl.obolibrary.org/obo/SO_0001778 germline variant http://purl.obolibrary.org/obo/SO_0001778 sequence http://purl.obolibrary.org/obo/SO_0001778 SO:0001778 http://purl.obolibrary.org/obo/SO_0001778 germline_variant http://purl.obolibrary.org/obo/SO_0001779 kareneilbeck http://purl.obolibrary.org/obo/SO_0001779 2011-03-15T04:32:18Z http://purl.obolibrary.org/obo/SO_0001779 pedigree specific variant http://purl.obolibrary.org/obo/SO_0001779 sequence http://purl.obolibrary.org/obo/SO_0001779 SO:0001779 http://purl.obolibrary.org/obo/SO_0001779 pedigree_specific_variant http://purl.obolibrary.org/obo/SO_0001780 kareneilbeck http://purl.obolibrary.org/obo/SO_0001780 2011-03-15T04:33:05Z http://purl.obolibrary.org/obo/SO_0001780 population specific variant http://purl.obolibrary.org/obo/SO_0001780 sequence http://purl.obolibrary.org/obo/SO_0001780 SO:0001780 http://purl.obolibrary.org/obo/SO_0001780 population_specific_variant http://purl.obolibrary.org/obo/SO_0001781 kareneilbeck http://purl.obolibrary.org/obo/SO_0001781 2011-03-15T04:33:34Z http://purl.obolibrary.org/obo/SO_0001781 de novo variant http://purl.obolibrary.org/obo/SO_0001781 sequence http://purl.obolibrary.org/obo/SO_0001781 SO:0001781 http://purl.obolibrary.org/obo/SO_0001781 de_novo_variant EBI:fc http://purl.obolibrary.org/obo/SO_0001782 A sequence variant located within a transcription factor binding site. http://purl.obolibrary.org/obo/SO_0001782 kareneilbeck http://purl.obolibrary.org/obo/SO_0001782 2011-03-17T10:59:20Z http://purl.obolibrary.org/obo/SO_0001782 TF binding site variant http://purl.obolibrary.org/obo/SO_0001782 sequence http://purl.obolibrary.org/obo/SO_0001782 SO:0001782 http://purl.obolibrary.org/obo/SO_0001782 TF_binding_site_variant FB:reference_manual NCBI:th SO:ke http://purl.obolibrary.org/obo/SO_0001784 A structural sequence alteration or rearrangement encompassing one or more genome fragments, with 4 or more breakpoints. http://purl.obolibrary.org/obo/SO_0001784 kareneilbeck http://purl.obolibrary.org/obo/SO_0001784 2011-03-23T03:21:19Z http://purl.obolibrary.org/obo/SO_0001784 SO:1000146 http://purl.obolibrary.org/obo/SO_0001784 complex chromosomal mutation http://purl.obolibrary.org/obo/SO_0001784 complex_chromosomal_mutation http://purl.obolibrary.org/obo/SO_0001784 sequence http://www.ncbi.nlm.nih.gov/dbvar/ http://purl.obolibrary.org/obo/so-xp.obo#dbvar http://purl.obolibrary.org/obo/SO_0001784 complex http://purl.obolibrary.org/obo/SO_0001784 SO:0001784 http://purl.obolibrary.org/obo/SO_0001784 http://purl.obolibrary.org/obo/so-xp.obo#DBVAR http://purl.obolibrary.org/obo/SO_0001784 complex_structural_alteration http://purl.obolibrary.org/obo/SO_0001785 kareneilbeck http://purl.obolibrary.org/obo/SO_0001785 2011-03-25T02:27:41Z http://purl.obolibrary.org/obo/SO_0001785 structural alteration http://purl.obolibrary.org/obo/SO_0001785 sequence http://purl.obolibrary.org/obo/SO_0001785 SO:0001785 http://purl.obolibrary.org/obo/SO_0001785 http://purl.obolibrary.org/obo/so-xp.obo#DBVAR http://purl.obolibrary.org/obo/SO_0001785 structural_alteration SO:ke http://purl.obolibrary.org/obo/SO_0001786 A functional variant whereby the sequence alteration causes a loss of function of one allele of a gene. http://purl.obolibrary.org/obo/SO_0001786 kareneilbeck http://purl.obolibrary.org/obo/SO_0001786 2011-03-25T02:32:58Z http://purl.obolibrary.org/obo/SO_0001786 LOH http://purl.obolibrary.org/obo/SO_0001786 loss of heterozygosity http://purl.obolibrary.org/obo/SO_0001786 sequence http://purl.obolibrary.org/obo/SO_0001786 SO:0001786 http://purl.obolibrary.org/obo/SO_0001786 http://purl.obolibrary.org/obo/so-xp.obo#DBVAR http://purl.obolibrary.org/obo/SO_0001786 loss_of_heterozygosity EBI:gr http://purl.obolibrary.org/obo/SO_0001787 A sequence variant that causes a change at the 5th base pair after the start of the intron in the orientation of the transcript. http://purl.obolibrary.org/obo/SO_0001787 kareneilbeck http://purl.obolibrary.org/obo/SO_0001787 2011-04-05T04:16:28Z http://purl.obolibrary.org/obo/SO_0001787 splice donor 5th base variant http://purl.obolibrary.org/obo/SO_0001787 sequence http://purl.obolibrary.org/obo/SO_0001787 SO:0001787 http://purl.obolibrary.org/obo/SO_0001787 splice_donor_5th_base_variant PMID:10556309 PMID:11577982 PMID:9649446 http://purl.obolibrary.org/obo/SO_0001788 An U-box is a conserved T-rich region upstream of a retroviral polypurine tract that is involved in PPT primer creation during reverse transcription. http://purl.obolibrary.org/obo/SO_0001788 kareneilbeck http://purl.obolibrary.org/obo/SO_0001788 2011-04-08T10:39:14Z http://purl.obolibrary.org/obo/SO_0001788 U-box http://purl.obolibrary.org/obo/SO_0001788 sequence http://purl.obolibrary.org/obo/SO_0001788 SO:0001788 http://purl.obolibrary.org/obo/SO_0001788 U_box SO:ke http://purl.obolibrary.org/obo/SO_0001789 A specialized region in the genomes of some yeast and fungi, the genes of which regulate mating type. http://purl.obolibrary.org/obo/SO_0001789 kareneilbeck http://purl.obolibrary.org/obo/SO_0001789 2011-04-08T11:14:07Z http://purl.obolibrary.org/obo/SO_0001789 http://en.wikipedia.org/wiki/Mating-type_region http://purl.obolibrary.org/obo/SO_0001789 mating type region http://purl.obolibrary.org/obo/SO_0001789 sequence http://purl.obolibrary.org/obo/SO_0001789 SO:0001789 http://purl.obolibrary.org/obo/SO_0001789 mating_type_region SO:ke http://purl.obolibrary.org/obo/SO_0001790 An assembly region that has been sequenced from both ends resulting in a read_pair (mate_pair). http://purl.obolibrary.org/obo/SO_0001790 kareneilbeck http://purl.obolibrary.org/obo/SO_0001790 2011-04-14T01:48:20Z http://purl.obolibrary.org/obo/SO_0001790 paired end fragment http://purl.obolibrary.org/obo/SO_0001790 sequence http://purl.obolibrary.org/obo/SO_0001790 SO:0001790 http://purl.obolibrary.org/obo/SO_0001790 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0001790 paired_end_fragment SO:ke http://purl.obolibrary.org/obo/SO_0001791 A sequence variant that changes exon sequence. http://purl.obolibrary.org/obo/SO_0001791 kareneilbeck http://purl.obolibrary.org/obo/SO_0001791 2011-05-06T01:51:17Z http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001791 ANNOVAR:exonic http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001791 VAAST:exon_variant http://purl.obolibrary.org/obo/SO_0001791 exon variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001791 snpEff:EXON http://purl.obolibrary.org/obo/SO_0001791 sequence http://purl.obolibrary.org/obo/SO_0001791 SO:0001791 http://purl.obolibrary.org/obo/SO_0001791 exon_variant EBI:fc SO:ke http://purl.obolibrary.org/obo/SO_0001792 A sequence variant that changes non-coding exon sequence in a non-coding transcript. http://purl.obolibrary.org/obo/SO_0001792 kareneilbeck http://purl.obolibrary.org/obo/SO_0001792 2011-05-06T01:51:59Z http://purl.obolibrary.org/obo/SO_0001792 non coding transcript exon variant http://purl.obolibrary.org/obo/SO_0001792 sequence http://purl.obolibrary.org/obo/SO_0001792 SO:0001792 http://purl.obolibrary.org/obo/SO_0001792 non_coding_transcript_exon_variant SO:ke http://purl.obolibrary.org/obo/SO_0001793 A read from an end of the clone sequence. http://purl.obolibrary.org/obo/SO_0001793 kareneilbeck http://purl.obolibrary.org/obo/SO_0001793 2011-05-13T11:32:27Z http://purl.obolibrary.org/obo/SO_0001793 clone end http://purl.obolibrary.org/obo/SO_0001793 sequence http://purl.obolibrary.org/obo/SO_0001793 SO:0001793 http://purl.obolibrary.org/obo/SO_0001793 clone_end PMID:7502067 SO:vw http://purl.obolibrary.org/obo/SO_0001794 A point centromere is a relatively small centromere (about 125 bp DNA) in discrete sequence, found in some yeast including S. cerevisiae. http://purl.obolibrary.org/obo/SO_0001794 kareneilbeck http://purl.obolibrary.org/obo/SO_0001794 2011-05-31T12:42:35Z http://purl.obolibrary.org/obo/SO_0001794 point centromere http://purl.obolibrary.org/obo/SO_0001794 sequence http://purl.obolibrary.org/obo/SO_0001794 SO:0001794 http://purl.obolibrary.org/obo/SO_0001794 point_centromere PMID:7502067 SO:vw http://purl.obolibrary.org/obo/SO_0001795 A regional centromere is a large modular centromere found in fission yeast and higher eukaryotes. It consist of a central core region flanked by inverted inner and outer repeat regions. http://purl.obolibrary.org/obo/SO_0001795 kareneilbeck http://purl.obolibrary.org/obo/SO_0001795 2011-05-31T12:43:07Z http://purl.obolibrary.org/obo/SO_0001795 regional centromere http://purl.obolibrary.org/obo/SO_0001795 sequence http://purl.obolibrary.org/obo/SO_0001795 SO:0001795 http://purl.obolibrary.org/obo/SO_0001795 regional_centromere SO:vw http://purl.obolibrary.org/obo/SO_0001796 A conserved region within the central region of a modular centromere, where the kinetochore is formed. http://purl.obolibrary.org/obo/SO_0001796 kareneilbeck http://purl.obolibrary.org/obo/SO_0001796 2011-05-31T12:56:30Z http://purl.obolibrary.org/obo/SO_0001796 regional centromere central core http://purl.obolibrary.org/obo/SO_0001796 sequence http://purl.obolibrary.org/obo/SO_0001796 SO:0001796 http://purl.obolibrary.org/obo/SO_0001796 regional_centromere_central_core SO:ke http://purl.obolibrary.org/obo/SO_0001797 A repeat region found within the modular centromere. http://purl.obolibrary.org/obo/SO_0001797 kareneilbeck http://purl.obolibrary.org/obo/SO_0001797 2011-05-31T12:59:27Z http://purl.obolibrary.org/obo/SO_0001797 centromeric repeat http://purl.obolibrary.org/obo/SO_0001797 sequence http://purl.obolibrary.org/obo/SO_0001797 SO:0001797 http://purl.obolibrary.org/obo/SO_0001797 centromeric_repeat SO:vw http://purl.obolibrary.org/obo/SO_0001798 The inner inverted repeat region of a modular centromere and part of the central core surrounding a non-conserved central region. This region is adjacent to the central core, on each chromosome arm. http://purl.obolibrary.org/obo/SO_0001798 kareneilbeck http://purl.obolibrary.org/obo/SO_0001798 2011-05-31T01:01:08Z http://purl.obolibrary.org/obo/SO_0001798 lmr repeat http://purl.obolibrary.org/obo/SO_0001798 lmr1L http://purl.obolibrary.org/obo/SO_0001798 lmr1R http://purl.obolibrary.org/obo/SO_0001798 regional centromere inner repeat region http://purl.obolibrary.org/obo/SO_0001798 sequence http://purl.obolibrary.org/obo/SO_0001798 SO:0001798 http://purl.obolibrary.org/obo/SO_0001798 regional_centromere_inner_repeat_region SO:vw http://purl.obolibrary.org/obo/SO_0001799 The heterochromatic outer repeat region of a modular centromere. These repeats exist in tandem arrays on both chromosome arms. http://purl.obolibrary.org/obo/SO_0001799 kareneilbeck http://purl.obolibrary.org/obo/SO_0001799 2011-05-31T01:03:23Z http://purl.obolibrary.org/obo/SO_0001799 regional centromere outer repeat region http://purl.obolibrary.org/obo/SO_0001799 sequence http://purl.obolibrary.org/obo/SO_0001799 SO:0001799 http://purl.obolibrary.org/obo/SO_0001799 regional_centromere_outer_repeat_region PMID:16145017 http://purl.obolibrary.org/obo/SO_0001800 The sequence of a 21 nucleotide double stranded, polyadenylated non coding RNA, transcribed from the TAS gene. http://purl.obolibrary.org/obo/SO_0001800 kareneilbeck http://purl.obolibrary.org/obo/SO_0001800 2011-05-31T03:24:06Z http://purl.obolibrary.org/obo/SO_0001800 sequence http://purl.obolibrary.org/obo/SO_0001800 trans acting small interfering RNA http://purl.obolibrary.org/obo/SO_0001800 SO:0001800 http://purl.obolibrary.org/obo/SO_0001800 tasiRNA PMID:16145017 http://purl.obolibrary.org/obo/SO_0001801 A primary transcript encoding a tasiRNA. http://purl.obolibrary.org/obo/SO_0001801 kareneilbeck http://purl.obolibrary.org/obo/SO_0001801 2011-05-31T03:27:35Z http://purl.obolibrary.org/obo/SO_0001801 tasiRNA primary transcript http://purl.obolibrary.org/obo/SO_0001801 sequence http://purl.obolibrary.org/obo/SO_0001801 SO:0001801 http://purl.obolibrary.org/obo/SO_0001801 tasiRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0001802 A transcript processing variant whereby polyadenylation of the encoded transcript is increased with respect to the reference. http://purl.obolibrary.org/obo/SO_0001802 kareneilbeck http://purl.obolibrary.org/obo/SO_0001802 2011-06-01T10:53:12Z http://purl.obolibrary.org/obo/SO_0001802 increased polyadenylation variant http://purl.obolibrary.org/obo/SO_0001802 sequence http://purl.obolibrary.org/obo/SO_0001802 SO:0001802 http://purl.obolibrary.org/obo/SO_0001802 Term requested by M. Dumontier, June 1 2011. http://purl.obolibrary.org/obo/SO_0001802 increased_polyadenylation_variant SO:ke http://purl.obolibrary.org/obo/SO_0001803 A transcript processing variant whereby polyadenylation of the encoded transcript is decreased with respect to the reference. http://purl.obolibrary.org/obo/SO_0001803 kareneilbeck http://purl.obolibrary.org/obo/SO_0001803 2011-06-01T10:53:40Z http://purl.obolibrary.org/obo/SO_0001803 decreased polyadenylation variant http://purl.obolibrary.org/obo/SO_0001803 sequence http://purl.obolibrary.org/obo/SO_0001803 SO:0001803 http://purl.obolibrary.org/obo/SO_0001803 Term requested by M. Dumontier, June 1 2011. http://purl.obolibrary.org/obo/SO_0001803 decreased_polyadenylation_variant PMID:18794354 PMID:19818632 http://purl.obolibrary.org/obo/SO_0001804 A conserved polypeptide motif that mediates protein-protein interaction and defines adaptor proteins for DDB1/cullin 4 ubiquitin ligases. http://purl.obolibrary.org/obo/SO_0001804 kareneilbeck http://purl.obolibrary.org/obo/SO_0001804 2011-06-17T12:10:44Z http://purl.obolibrary.org/obo/SO_0001804 DDB box http://purl.obolibrary.org/obo/SO_0001804 DDB-box http://purl.obolibrary.org/obo/SO_0001804 sequence http://purl.obolibrary.org/obo/SO_0001804 SO:0001804 http://purl.obolibrary.org/obo/SO_0001804 Note: PMID:18794354 describes the DDB box, and has lots of alignments, but doesn't actually come out with a consensus sequence. http://purl.obolibrary.org/obo/SO_0001804 DDB_box PMID:12208841 PMID:1842691 http://purl.obolibrary.org/obo/SO_0001805 A conserved polypeptide motif that can be recognized by both Fizzy/Cdc20- and FZR/Cdh1-activated anaphase-promoting complex/cyclosome (APC/C) and targets a protein for ubiquitination and subsequent degradation by the APC/C. The consensus sequence is RXXLXXXXN. http://purl.obolibrary.org/obo/SO_0001805 kareneilbeck http://purl.obolibrary.org/obo/SO_0001805 2011-06-17T12:16:02Z http://purl.obolibrary.org/obo/SO_0001805 D-box http://purl.obolibrary.org/obo/SO_0001805 destruction box http://purl.obolibrary.org/obo/SO_0001805 sequence http://purl.obolibrary.org/obo/SO_0001805 SO:0001805 http://purl.obolibrary.org/obo/SO_0001805 destruction_box PMID:2077689 doi:10.1093/jxb/50.331.157 http://purl.obolibrary.org/obo/SO_0001806 A C-terminal tetrapeptide motif that mediates retention of a protein in (or retrieval to) the endoplasmic reticulum. In mammals the sequence is KDEL, and in fungi HDEL or DDEL. http://purl.obolibrary.org/obo/SO_0001806 kareneilbeck http://purl.obolibrary.org/obo/SO_0001806 2011-06-17T12:19:49Z http://purl.obolibrary.org/obo/SO_0001806 ER retention signal http://purl.obolibrary.org/obo/SO_0001806 endoplasmic reticulum retention signal http://purl.obolibrary.org/obo/SO_0001806 sequence http://purl.obolibrary.org/obo/SO_0001806 SO:0001806 http://purl.obolibrary.org/obo/SO_0001806 ER_retention_signal PMID:10733526 PMID:1220884 PMID:18426916 http://purl.obolibrary.org/obo/SO_0001807 A conserved polypeptide motif that can be recognized by FZR/Cdh1-activated anaphase-promoting complex/cyclosome (APC/C) and targets a protein for ubiquitination and subsequent degradation by the APC/C. The consensus sequence is KENXXXN. http://purl.obolibrary.org/obo/SO_0001807 kareneilbeck http://purl.obolibrary.org/obo/SO_0001807 2011-06-17T12:24:14Z http://purl.obolibrary.org/obo/SO_0001807 KEN box http://purl.obolibrary.org/obo/SO_0001807 sequence http://purl.obolibrary.org/obo/SO_0001807 SO:0001807 http://purl.obolibrary.org/obo/SO_0001807 KEN_box PomBase:mah http://purl.obolibrary.org/obo/SO_0001808 A polypeptide region that targets a polypeptide to the mitochondrion. http://purl.obolibrary.org/obo/SO_0001808 kareneilbeck http://purl.obolibrary.org/obo/SO_0001808 2011-06-17T12:26:35Z http://purl.obolibrary.org/obo/SO_0001808 MTS http://purl.obolibrary.org/obo/SO_0001808 mitochondrial signal sequence http://purl.obolibrary.org/obo/SO_0001808 mitochondrial targeting signal http://purl.obolibrary.org/obo/SO_0001808 sequence http://purl.obolibrary.org/obo/SO_0001808 SO:0001808 http://purl.obolibrary.org/obo/SO_0001808 mitochondrial_targeting_signal http://www.cbs.dtu.dk/services/SignalP/background/biobackground.php http://purl.obolibrary.org/obo/SO_0001809 A signal sequence that is not cleaved from the polypeptide. Anchors a Type II membrane protein to the membrane. http://purl.obolibrary.org/obo/SO_0001809 kareneilbeck http://purl.obolibrary.org/obo/SO_0001809 2011-06-17T12:28:53Z http://purl.obolibrary.org/obo/SO_0001809 signal anchor http://purl.obolibrary.org/obo/SO_0001809 uncleaved signal peptide http://purl.obolibrary.org/obo/SO_0001809 sequence http://purl.obolibrary.org/obo/SO_0001809 SO:0001809 http://purl.obolibrary.org/obo/SO_0001809 signal_anchor PMID:9631646 http://purl.obolibrary.org/obo/SO_0001810 A polypeptide region that mediates binding to PCNA. The consensus sequence is QXX(hh)XX(aa), where (h) denotes residues with moderately hydrophobic side chains and (a) denotes residues with highly hydrophobic aromatic side chains. http://purl.obolibrary.org/obo/SO_0001810 kareneilbeck http://purl.obolibrary.org/obo/SO_0001810 2011-06-17T12:33:25Z http://purl.obolibrary.org/obo/SO_0001810 PIP box http://purl.obolibrary.org/obo/SO_0001810 sequence http://purl.obolibrary.org/obo/SO_0001810 SO:0001810 http://purl.obolibrary.org/obo/SO_0001810 PIP_box PomBase:mah http://purl.obolibrary.org/obo/SO_0001811 A post-translationally modified region in which residues of the protein are modified by phosphorylation. http://purl.obolibrary.org/obo/SO_0001811 kareneilbeck http://purl.obolibrary.org/obo/SO_0001811 2011-06-17T12:36:20Z http://purl.obolibrary.org/obo/SO_0001811 phosphorylation site http://purl.obolibrary.org/obo/SO_0001811 sequence http://purl.obolibrary.org/obo/SO_0001811 SO:0001811 http://purl.obolibrary.org/obo/SO_0001811 phosphorylation_site PomBase:mah http://purl.obolibrary.org/obo/SO_0001812 A region that traverses the lipid bilayer and adopts a helical secondary structure. http://purl.obolibrary.org/obo/SO_0001812 kareneilbeck http://purl.obolibrary.org/obo/SO_0001812 2011-06-17T12:39:46Z http://purl.obolibrary.org/obo/SO_0001812 transmembrane helix http://purl.obolibrary.org/obo/SO_0001812 sequence http://purl.obolibrary.org/obo/SO_0001812 SO:0001812 http://purl.obolibrary.org/obo/SO_0001812 transmembrane_helix PomBase:mah http://purl.obolibrary.org/obo/SO_0001813 A polypeptide region that targets a polypeptide to the vacuole. http://purl.obolibrary.org/obo/SO_0001813 kareneilbeck http://purl.obolibrary.org/obo/SO_0001813 2011-06-17T12:42:48Z http://purl.obolibrary.org/obo/SO_0001813 vacuolar sorting signal http://purl.obolibrary.org/obo/SO_0001813 sequence http://purl.obolibrary.org/obo/SO_0001813 SO:0001813 http://purl.obolibrary.org/obo/SO_0001813 vacuolar_sorting_signal http://purl.obolibrary.org/obo/SO_0001814 kareneilbeck http://purl.obolibrary.org/obo/SO_0001814 2011-06-24T03:32:25Z http://purl.obolibrary.org/obo/SO_0001814 coding variant quality http://purl.obolibrary.org/obo/SO_0001814 sequence http://purl.obolibrary.org/obo/SO_0001814 SO:0001814 http://purl.obolibrary.org/obo/SO_0001814 coding_variant_quality http://purl.obolibrary.org/obo/SO_0001815 kareneilbeck http://purl.obolibrary.org/obo/SO_0001815 2011-06-24T03:33:16Z http://purl.obolibrary.org/obo/SO_0001815 sequence http://purl.obolibrary.org/obo/SO_0001815 SO:0001815 http://purl.obolibrary.org/obo/SO_0001815 synonymous http://purl.obolibrary.org/obo/SO_0001816 kareneilbeck http://purl.obolibrary.org/obo/SO_0001816 2011-06-24T03:33:36Z http://purl.obolibrary.org/obo/SO_0001816 sequence http://purl.obolibrary.org/obo/SO_0001816 non synonymous http://purl.obolibrary.org/obo/SO_0001816 SO:0001816 http://purl.obolibrary.org/obo/SO_0001816 non_synonymous SO:ke http://purl.obolibrary.org/obo/SO_0001817 An attribute describing a sequence that contains a mutation involving the deletion or insertion of one or more bases, where this number is divisible by 3. http://purl.obolibrary.org/obo/SO_0001817 kareneilbeck http://purl.obolibrary.org/obo/SO_0001817 2011-06-24T03:34:03Z http://purl.obolibrary.org/obo/SO_0001817 sequence http://purl.obolibrary.org/obo/SO_0001817 SO:0001817 http://purl.obolibrary.org/obo/SO_0001817 inframe EBI:gr http://purl.obolibrary.org/obo/SO_0001818 A sequence_variant which is predicted to change the protein encoded in the coding sequence. http://purl.obolibrary.org/obo/SO_0001818 kareneilbeck http://purl.obolibrary.org/obo/SO_0001818 2011-06-24T03:38:02Z http://purl.obolibrary.org/obo/SO_0001818 protein altering variant http://purl.obolibrary.org/obo/SO_0001818 sequence http://purl.obolibrary.org/obo/SO_0001818 SO:0001818 http://purl.obolibrary.org/obo/SO_0001818 protein_altering_variant SO:ke http://purl.obolibrary.org/obo/SO_0001819 A sequence variant where there is no resulting change to the encoded amino acid. http://purl.obolibrary.org/obo/SO_0001819 kareneilbeck http://purl.obolibrary.org/obo/SO_0001819 2011-06-24T03:38:30Z http://purl.obolibrary.org/obo/SO_0001819 SO:0001588 http://purl.obolibrary.org/obo/SO_0001819 EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html wiki http://purl.obolibrary.org/obo/SO_0001819 http://en.wikipedia.org/wiki/Silent_mutation http://purl.obolibrary.org/obo/SO_0001819 http://en.wikipedia.org/wiki/Synonymous_mutation http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001819 VAAST:synonymous_codon ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd http://purl.obolibrary.org/obo/SO_0001819 coding-synon http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001819 snpEff:SYNONYMOUS_CODING http://purl.obolibrary.org/obo/SO_0001819 synonymous codon http://purl.obolibrary.org/obo/SO_0001819 synonymous_coding http://purl.obolibrary.org/obo/SO_0001819 synonymous_codon http://purl.obolibrary.org/obo/SO_0001819 sequence http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001819 ANNOVAR:synonymous SNV http://purl.obolibrary.org/obo/SO_0001819 silent mutation http://purl.obolibrary.org/obo/SO_0001819 silent substitution http://purl.obolibrary.org/obo/SO_0001819 silent_mutation http://purl.obolibrary.org/obo/SO_0001819 SO:0001819 http://purl.obolibrary.org/obo/SO_0001819 EBI term: Synonymous SNPs - In coding sequence, not resulting in an amino acid change (i.e. silent mutation). This term is sometimes used synonomously with the more general term 'silent mutation', although a silent mutation may occur in non coding sequence. The best practice is to annotate to the most specific term. http://purl.obolibrary.org/obo/SO_0001819 synonymous_variant SO:ke http://purl.obolibrary.org/obo/SO_0001820 A coding sequence variant where the change does not alter the frame of the transcript. http://purl.obolibrary.org/obo/SO_0001820 kareneilbeck http://purl.obolibrary.org/obo/SO_0001820 2011-06-27T11:25:33Z http://purl.obolibrary.org/obo/SO_0001820 inframe change in CDS length http://purl.obolibrary.org/obo/SO_0001820 inframe indel http://purl.obolibrary.org/obo/SO_0001820 sequence http://purl.obolibrary.org/obo/SO_0001820 SO:0001820 http://purl.obolibrary.org/obo/SO_0001820 inframe_indel EBI:gr http://purl.obolibrary.org/obo/SO_0001821 An inframe non synonymous variant that inserts bases into in the coding sequence. http://purl.obolibrary.org/obo/SO_0001821 kareneilbeck http://purl.obolibrary.org/obo/SO_0001821 2011-06-27T11:26:22Z http://purl.obolibrary.org/obo/SO_0001821 SO:0001651 http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001821 ANNOVAR:nonframeshift insertion http://purl.obolibrary.org/obo/SO_0001821 inframe increase in CDS length http://purl.obolibrary.org/obo/SO_0001821 inframe insertion http://purl.obolibrary.org/obo/SO_0001821 inframe_codon_gain http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001821 snpEFF:CODON_INSERTION http://purl.obolibrary.org/obo/SO_0001821 sequence http://purl.obolibrary.org/obo/SO_0001821 inframe codon gain http://purl.obolibrary.org/obo/SO_0001821 SO:0001821 http://purl.obolibrary.org/obo/SO_0001821 inframe_insertion EBI:gr http://purl.obolibrary.org/obo/SO_0001822 An inframe non synonymous variant that deletes bases from the coding sequence. http://purl.obolibrary.org/obo/SO_0001822 kareneilbeck http://purl.obolibrary.org/obo/SO_0001822 2011-06-27T11:27:10Z http://purl.obolibrary.org/obo/SO_0001822 SO:0001652 http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001822 ANNOVAR:nonframeshift deletion http://purl.obolibrary.org/obo/SO_0001822 inframe decrease in CDS length http://purl.obolibrary.org/obo/SO_0001822 inframe_codon_loss http://purl.obolibrary.org/obo/SO_0001822 sequence http://purl.obolibrary.org/obo/SO_0001822 inframe codon loss http://purl.obolibrary.org/obo/SO_0001822 inframe deletion http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001822 snpEff:CODON_DELETION http://purl.obolibrary.org/obo/SO_0001822 SO:0001822 http://purl.obolibrary.org/obo/SO_0001822 inframe_deletion EBI:gr http://purl.obolibrary.org/obo/SO_0001823 An inframe increase in cds length that inserts one or more codons into the coding sequence between existing codons. http://purl.obolibrary.org/obo/SO_0001823 kareneilbeck http://purl.obolibrary.org/obo/SO_0001823 2011-06-27T11:28:02Z http://purl.obolibrary.org/obo/SO_0001823 conservative increase in CDS length http://purl.obolibrary.org/obo/SO_0001823 conservative inframe insertion http://purl.obolibrary.org/obo/SO_0001823 sequence http://purl.obolibrary.org/obo/SO_0001823 SO:0001823 http://purl.obolibrary.org/obo/SO_0001823 conservative_inframe_insertion EBI:gr http://purl.obolibrary.org/obo/SO_0001824 An inframe increase in cds length that inserts one or more codons into the coding sequence within an existing codon. http://purl.obolibrary.org/obo/SO_0001824 kareneilbeck http://purl.obolibrary.org/obo/SO_0001824 2011-06-27T11:28:37Z http://purl.obolibrary.org/obo/SO_0001824 disruptive increase in CDS length http://purl.obolibrary.org/obo/SO_0001824 disruptive inframe insertion http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001824 snpEff:CODON_CHANGE_PLUS_CODON_INSERTION http://purl.obolibrary.org/obo/SO_0001824 sequence http://purl.obolibrary.org/obo/SO_0001824 SO:0001824 http://purl.obolibrary.org/obo/SO_0001824 disruptive_inframe_insertion EBI:gr http://purl.obolibrary.org/obo/SO_0001825 An inframe decrease in cds length that deletes one or more entire codons from the coding sequence but does not change any remaining codons. http://purl.obolibrary.org/obo/SO_0001825 kareneilbeck http://purl.obolibrary.org/obo/SO_0001825 2011-06-27T11:30:43Z http://purl.obolibrary.org/obo/SO_0001825 conservative inframe deletion http://purl.obolibrary.org/obo/SO_0001825 sequence http://purl.obolibrary.org/obo/SO_0001825 conservative decrease in CDS length http://purl.obolibrary.org/obo/SO_0001825 SO:0001825 http://purl.obolibrary.org/obo/SO_0001825 conservative_inframe_deletion EBI:gr http://purl.obolibrary.org/obo/SO_0001826 An inframe decrease in cds length that deletes bases from the coding sequence starting within an existing codon. http://purl.obolibrary.org/obo/SO_0001826 kareneilbeck http://purl.obolibrary.org/obo/SO_0001826 2011-06-27T11:31:31Z http://purl.obolibrary.org/obo/SO_0001826 disruptive decrease in CDS length http://purl.obolibrary.org/obo/SO_0001826 disruptive inframe deletion http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001826 snpEff:CODON_CHANGE_PLUS_CODON_DELETION http://purl.obolibrary.org/obo/SO_0001826 sequence http://purl.obolibrary.org/obo/SO_0001826 SO:0001826 http://purl.obolibrary.org/obo/SO_0001826 disruptive_inframe_deletion SO:ke http://purl.obolibrary.org/obo/SO_0001827 A sequencer read of an mRNA substrate. http://purl.obolibrary.org/obo/SO_0001827 kareneilbeck http://purl.obolibrary.org/obo/SO_0001827 2011-06-28T04:04:32Z http://purl.obolibrary.org/obo/SO_0001827 mRNA read http://purl.obolibrary.org/obo/SO_0001827 sequence http://purl.obolibrary.org/obo/SO_0001827 SO:0001827 http://purl.obolibrary.org/obo/SO_0001827 Requested by Bayer Cropscience June, 2011. http://purl.obolibrary.org/obo/SO_0001827 mRNA_read SO:ke http://purl.obolibrary.org/obo/SO_0001828 A sequencer read of a genomic DNA substrate. http://purl.obolibrary.org/obo/SO_0001828 kareneilbeck http://purl.obolibrary.org/obo/SO_0001828 2011-06-28T04:06:10Z http://purl.obolibrary.org/obo/SO_0001828 genomic DNA read http://purl.obolibrary.org/obo/SO_0001828 sequence http://purl.obolibrary.org/obo/SO_0001828 SO:0001828 http://purl.obolibrary.org/obo/SO_0001828 genomic_DNA_read SO:ke http://purl.obolibrary.org/obo/SO_0001829 A contig composed of mRNA_reads. http://purl.obolibrary.org/obo/SO_0001829 kareneilbeck http://purl.obolibrary.org/obo/SO_0001829 2011-06-28T04:07:09Z http://purl.obolibrary.org/obo/SO_0001829 sequence http://purl.obolibrary.org/obo/SO_0001829 mRNA contig http://purl.obolibrary.org/obo/SO_0001829 SO:0001829 http://purl.obolibrary.org/obo/SO_0001829 Requested by Bayer Cropscience June, 2011. http://purl.obolibrary.org/obo/SO_0001829 mRNA_contig GMOD:ea http://purl.obolibrary.org/obo/SO_0001830 A PCR product obtained by applying the AFLP technique, based on a restriction enzyme digestion of genomic DNA and an amplification of the resulting fragments. http://purl.obolibrary.org/obo/SO_0001830 kareneilbeck http://purl.obolibrary.org/obo/SO_0001830 2011-07-14T12:12:35Z wiki http://purl.obolibrary.org/obo/SO_0001830 http://en.wikipedia.org/wiki/Amplified_fragment_length_polymorphism http://purl.obolibrary.org/obo/SO_0001830 AFLP http://purl.obolibrary.org/obo/SO_0001830 AFLP fragment http://purl.obolibrary.org/obo/SO_0001830 AFLP-PCR http://purl.obolibrary.org/obo/SO_0001830 amplified fragment length polymorphism http://purl.obolibrary.org/obo/SO_0001830 amplified fragment length polymorphism PCR http://purl.obolibrary.org/obo/SO_0001830 sequence http://purl.obolibrary.org/obo/SO_0001830 SO:0001830 http://purl.obolibrary.org/obo/SO_0001830 Requested by Bayer Cropscience June, 2011. http://purl.obolibrary.org/obo/SO_0001830 AFLP_fragment SO:ke http://purl.obolibrary.org/obo/SO_0001831 A match to a protein HMM such as pfam. http://purl.obolibrary.org/obo/SO_0001831 kareneilbeck http://purl.obolibrary.org/obo/SO_0001831 2011-08-11T03:20:27Z http://purl.obolibrary.org/obo/SO_0001831 protein hmm match http://purl.obolibrary.org/obo/SO_0001831 sequence http://purl.obolibrary.org/obo/SO_0001831 SO:0001831 http://purl.obolibrary.org/obo/SO_0001831 protein_hmm_match SO:ke http://purl.obolibrary.org/obo/SO_0001832 A region of immunoglobulin sequence, either constant or variable. http://purl.obolibrary.org/obo/SO_0001832 kareneilbeck http://purl.obolibrary.org/obo/SO_0001832 2011-09-01T03:27:20Z http://purl.obolibrary.org/obo/SO_0001832 immunoglobulin region http://purl.obolibrary.org/obo/SO_0001832 sequence http://purl.obolibrary.org/obo/SO_0001832 SO:0001832 http://purl.obolibrary.org/obo/SO_0001832 immunoglobulin_region SO:ke http://purl.obolibrary.org/obo/SO_0001833 The variable region of an immunoglobulin polypeptide sequence. http://purl.obolibrary.org/obo/SO_0001833 kareneilbeck http://purl.obolibrary.org/obo/SO_0001833 2011-09-01T03:28:40Z http://purl.obolibrary.org/obo/SO_0001833 V region http://purl.obolibrary.org/obo/SO_0001833 sequence http://purl.obolibrary.org/obo/SO_0001833 SO:0001833 http://purl.obolibrary.org/obo/SO_0001833 V_region SO:ke http://purl.obolibrary.org/obo/SO_0001834 The constant region of an immunoglobulin polypeptide sequence. http://purl.obolibrary.org/obo/SO_0001834 kareneilbeck http://purl.obolibrary.org/obo/SO_0001834 2011-09-01T03:29:41Z http://purl.obolibrary.org/obo/SO_0001834 C region http://purl.obolibrary.org/obo/SO_0001834 sequence http://purl.obolibrary.org/obo/SO_0001834 SO:0001834 http://purl.obolibrary.org/obo/SO_0001834 C_region SO:ke http://purl.obolibrary.org/obo/SO_0001835 Extra nucleotides inserted between rearranged immunoglobulin segments. http://purl.obolibrary.org/obo/SO_0001835 kareneilbeck http://purl.obolibrary.org/obo/SO_0001835 2011-09-01T03:50:16Z http://purl.obolibrary.org/obo/SO_0001835 N-region http://purl.obolibrary.org/obo/SO_0001835 sequence http://purl.obolibrary.org/obo/SO_0001835 SO:0001835 http://purl.obolibrary.org/obo/SO_0001835 N_region SO:ke http://purl.obolibrary.org/obo/SO_0001836 The switch region of immunoglobulin heavy chains; it is involved in the rearrangement of heavy chain DNA leading to the expression of a different immunoglobulin classes from the same B-cell. http://purl.obolibrary.org/obo/SO_0001836 kareneilbeck http://purl.obolibrary.org/obo/SO_0001836 2011-09-01T03:52:05Z http://purl.obolibrary.org/obo/SO_0001836 S region http://purl.obolibrary.org/obo/SO_0001836 sequence http://purl.obolibrary.org/obo/SO_0001836 SO:0001836 http://purl.obolibrary.org/obo/SO_0001836 S_region EBI:dvga http://purl.obolibrary.org/obo/SO_0001837 A kind of insertion where the inserted sequence is a mobile element. http://purl.obolibrary.org/obo/SO_0001837 kareneilbeck http://purl.obolibrary.org/obo/SO_0001837 2011-10-04T12:36:52Z http://purl.obolibrary.org/obo/SO_0001837 mobile element insertion http://purl.obolibrary.org/obo/SO_0001837 sequence http://purl.obolibrary.org/obo/SO_0001837 SO:0001837 http://purl.obolibrary.org/obo/SO_0001837 Requested by the EBI. http://purl.obolibrary.org/obo/SO_0001837 mobile_element_insertion NCBI:th http://purl.obolibrary.org/obo/SO_0001838 An insertion the sequence of which cannot be mapped to the reference genome. http://purl.obolibrary.org/obo/SO_0001838 kareneilbeck http://purl.obolibrary.org/obo/SO_0001838 2011-10-04T01:14:50Z http://purl.obolibrary.org/obo/SO_0001838 novel sequence insertion http://purl.obolibrary.org/obo/SO_0001838 sequence http://purl.obolibrary.org/obo/SO_0001838 SO:0001838 http://purl.obolibrary.org/obo/SO_0001838 Requested by the NCBI. http://purl.obolibrary.org/obo/SO_0001838 novel_sequence_insertion PMID:19101542 http://purl.obolibrary.org/obo/SO_0001839 A promoter element with consensus sequence GTGRGAA, bound by CSL (CBF1/RBP-JK/Suppressor of Hairless/LAG-1) transcription factors. http://purl.obolibrary.org/obo/SO_0001839 kareneilbeck http://purl.obolibrary.org/obo/SO_0001839 2011-10-07T03:37:43Z http://purl.obolibrary.org/obo/SO_0001839 CSL response element http://purl.obolibrary.org/obo/SO_0001839 sequence http://purl.obolibrary.org/obo/SO_0001839 SO:0001839 http://purl.obolibrary.org/obo/SO_0001839 CSL_response_element PMID:8321208 http://purl.obolibrary.org/obo/SO_0001840 A GATA transcription factor element containing the consensus sequence WGATAR (in which W indicates A/T and R indicates A/G). http://purl.obolibrary.org/obo/SO_0001840 kareneilbeck http://purl.obolibrary.org/obo/SO_0001840 2011-10-07T03:42:05Z http://purl.obolibrary.org/obo/SO_0001840 GATA box http://purl.obolibrary.org/obo/SO_0001840 sequence http://purl.obolibrary.org/obo/SO_0001840 GATA element http://purl.obolibrary.org/obo/SO_0001840 SO:0001840 http://purl.obolibrary.org/obo/SO_0001840 GATA_box JAX:hd http://purl.obolibrary.org/obo/SO_0001841 Pseudogene owing to a SNP/DIP but in other individuals/haplotypes/strains the gene is translated. http://purl.obolibrary.org/obo/SO_0001841 kareneilbeck http://purl.obolibrary.org/obo/SO_0001841 2011-10-07T03:46:57Z http://purl.obolibrary.org/obo/SO_0001841 polymorphic psuedogene http://purl.obolibrary.org/obo/SO_0001841 sequence http://purl.obolibrary.org/obo/SO_0001841 SO:0001841 http://purl.obolibrary.org/obo/SO_0001841 This terms is used by Ensembl and Vega. http://purl.obolibrary.org/obo/SO_0001841 polymorphic_pseudogene PMID:1899230 PMID:3034432 PMID:3125983 http://purl.obolibrary.org/obo/SO_0001842 A promoter element with consensus sequence TGACTCA, bound by AP-1 and related transcription factors. http://purl.obolibrary.org/obo/SO_0001842 kareneilbeck http://purl.obolibrary.org/obo/SO_0001842 2011-10-07T03:54:52Z http://purl.obolibrary.org/obo/SO_0001842 AP-1 binding site http://purl.obolibrary.org/obo/SO_0001842 sequence http://purl.obolibrary.org/obo/SO_0001842 SO:0001842 http://purl.obolibrary.org/obo/SO_0001842 AP_1_binding_site PMID:11483355 PMID:11483993 http://purl.obolibrary.org/obo/SO_0001843 A promoter element with consensus sequence TGACGTCA; bound by the ATF/CREB family of transcription factors. http://purl.obolibrary.org/obo/SO_0001843 kareneilbeck http://purl.obolibrary.org/obo/SO_0001843 2011-10-07T03:58:48Z PMID:11483993 http://purl.obolibrary.org/obo/SO_0001843 ATF/CRE site http://purl.obolibrary.org/obo/SO_0001843 cyclic AMP response element http://purl.obolibrary.org/obo/SO_0001843 sequence http://purl.obolibrary.org/obo/SO_0001843 SO:0001843 http://purl.obolibrary.org/obo/SO_0001843 CRE PMID:10593913 PMID:9188496 PMID:9211922 http://purl.obolibrary.org/obo/SO_0001844 A promoter element bound by copper ion-sensing transcription factors such as S. cerevisiae Mac1p or S. pombe Cuf1; the consensus sequence is HTHNNGCTGD (more specifically TTTGCKCR in budding yeast). http://purl.obolibrary.org/obo/SO_0001844 kareneilbeck http://purl.obolibrary.org/obo/SO_0001844 2011-10-07T04:02:51Z http://purl.obolibrary.org/obo/SO_0001844 copper-response element http://purl.obolibrary.org/obo/SO_0001844 sequence http://purl.obolibrary.org/obo/SO_0001844 SO:0001844 http://purl.obolibrary.org/obo/SO_0001844 CuRE PMID:11073995 PMID:8668127 http://purl.obolibrary.org/obo/SO_0001845 A promoter element with consensus sequence CGWGGWNGMM, bound by transcription factors related to RecA and found in promoters of genes expressed following several types of DNA damage or inhibition of DNA synthesis. http://purl.obolibrary.org/obo/SO_0001845 kareneilbeck http://purl.obolibrary.org/obo/SO_0001845 2011-10-07T04:17:25Z http://purl.obolibrary.org/obo/SO_0001845 DNA damage response element http://purl.obolibrary.org/obo/SO_0001845 sequence http://purl.obolibrary.org/obo/SO_0001845 SO:0001845 http://purl.obolibrary.org/obo/SO_0001845 DRE PMID:10747048 PMID:14871934 http://purl.obolibrary.org/obo/SO_0001846 A promoter element that has consensus sequence GTAAACAAACAAAM and contains a heptameric core GTAAACA, bound by transcription factors with a forkhead DNA-binding domain. http://purl.obolibrary.org/obo/SO_0001846 kareneilbeck http://purl.obolibrary.org/obo/SO_0001846 2011-10-07T04:20:01Z http://purl.obolibrary.org/obo/SO_0001846 sequence http://purl.obolibrary.org/obo/SO_0001846 FLEX element http://purl.obolibrary.org/obo/SO_0001846 SO:0001846 http://purl.obolibrary.org/obo/SO_0001846 FLEX_element PMID:15195092 http://purl.obolibrary.org/obo/SO_0001847 A promoter element with consensus sequence TTTRTTTACA, bound by transcription factors with a forkhead DNA-binding domain. http://purl.obolibrary.org/obo/SO_0001847 kareneilbeck http://purl.obolibrary.org/obo/SO_0001847 2011-10-07T04:22:06Z http://purl.obolibrary.org/obo/SO_0001847 forkhead motif http://purl.obolibrary.org/obo/SO_0001847 sequence http://purl.obolibrary.org/obo/SO_0001847 SO:0001847 http://purl.obolibrary.org/obo/SO_0001847 forkhead_motif PMID:7501449 PMID:8458332 http://purl.obolibrary.org/obo/SO_0001848 A core promoter element that has the consensus sequence CAGTCACA (or its inverted form TGTGACTG), and plays the role of a TATA box in promoters that do not contain a canonical TATA sequence. http://purl.obolibrary.org/obo/SO_0001848 kareneilbeck http://purl.obolibrary.org/obo/SO_0001848 2011-10-07T04:24:14Z http://purl.obolibrary.org/obo/SO_0001848 homol D box http://purl.obolibrary.org/obo/SO_0001848 sequence http://purl.obolibrary.org/obo/SO_0001848 SO:0001848 http://purl.obolibrary.org/obo/SO_0001848 homol_D_box PMID:7501449 http://purl.obolibrary.org/obo/SO_0001849 A core promoter element that has the consensus sequence ACCCTACCCT (or its inverted form AGGGTAGGGT), and is found near the homol D box in some promoters that use a homol D box instead of a canonical TATA sequence. http://purl.obolibrary.org/obo/SO_0001849 kareneilbeck http://purl.obolibrary.org/obo/SO_0001849 2011-10-07T04:26:09Z http://purl.obolibrary.org/obo/SO_0001849 homol E box http://purl.obolibrary.org/obo/SO_0001849 sequence http://purl.obolibrary.org/obo/SO_0001849 SO:0001849 http://purl.obolibrary.org/obo/SO_0001849 homol_E_box PMID:17347150 PMID:8689565 http://purl.obolibrary.org/obo/SO_0001850 A promoter element that consists of at least three copies of the pentanucleotide NGAAN, bound by the heat shock transcription factor HSF. http://purl.obolibrary.org/obo/SO_0001850 kareneilbeck http://purl.obolibrary.org/obo/SO_0001850 2011-10-07T04:29:10Z http://purl.obolibrary.org/obo/SO_0001850 heat shock element http://purl.obolibrary.org/obo/SO_0001850 sequence http://purl.obolibrary.org/obo/SO_0001850 SO:0001850 http://purl.obolibrary.org/obo/SO_0001850 HSE PMID:11956219 PMID:17211681 http://purl.obolibrary.org/obo/SO_0001851 A GATA promoter element with consensus sequence WGATAA, found in promoters of genes repressed in the presence of iron. http://purl.obolibrary.org/obo/SO_0001851 kareneilbeck http://purl.obolibrary.org/obo/SO_0001851 2011-10-07T04:32:42Z http://purl.obolibrary.org/obo/SO_0001851 IDP (GATA) http://purl.obolibrary.org/obo/SO_0001851 iron repressed GATA element http://purl.obolibrary.org/obo/SO_0001851 sequence http://purl.obolibrary.org/obo/SO_0001851 SO:0001851 http://purl.obolibrary.org/obo/SO_0001851 The synonym IDP (GATA) is found in an annotation but un-traced as far as literature goes. http://purl.obolibrary.org/obo/SO_0001851 iron_repressed_GATA_element PMID:9233811 http://purl.obolibrary.org/obo/SO_0001852 A promoter element with consensus sequence ACAAT, found in promoters of mating type M-specific genes in fission yeast and bound by the transcription factor Mat1-Mc. http://purl.obolibrary.org/obo/SO_0001852 kareneilbeck http://purl.obolibrary.org/obo/SO_0001852 2011-10-07T04:39:43Z http://purl.obolibrary.org/obo/SO_0001852 mating type M-box http://purl.obolibrary.org/obo/SO_0001852 sequence http://purl.obolibrary.org/obo/SO_0001852 SO:0001852 http://purl.obolibrary.org/obo/SO_0001852 Note that this should not be confused with the M-box that has consensus sequence CATGTG and is bound by bHLH transcription factors such as MITF. http://purl.obolibrary.org/obo/SO_0001852 mating_type_M_box PMID:21796522 http://purl.obolibrary.org/obo/SO_0001853 A non-palindromic sequence found in the promoters of genes whose expression is regulated in response to androgen. http://purl.obolibrary.org/obo/SO_0001853 kareneilbeck http://purl.obolibrary.org/obo/SO_0001853 2011-10-10T04:52:44Z http://purl.obolibrary.org/obo/SO_0001853 ARE http://purl.obolibrary.org/obo/SO_0001853 androgen response element http://purl.obolibrary.org/obo/SO_0001853 sequence http://purl.obolibrary.org/obo/SO_0001853 SO:0001853 http://purl.obolibrary.org/obo/SO_0001853 androgen_response_element PMID:18806792 http://purl.obolibrary.org/obo/SO_0001854 A smFISH is a probe that binds RNA in a single molecule in situ hybridization experiment. http://purl.obolibrary.org/obo/SO_0001854 kareneilbeck http://purl.obolibrary.org/obo/SO_0001854 2011-10-10T05:00:30Z http://purl.obolibrary.org/obo/SO_0001854 single molecule fish probe http://purl.obolibrary.org/obo/SO_0001854 sequence http://purl.obolibrary.org/obo/SO_0001854 smFISH probe http://purl.obolibrary.org/obo/SO_0001854 SO:0001854 http://purl.obolibrary.org/obo/SO_0001854 smFISH_probe PMID:16285853 http://purl.obolibrary.org/obo/SO_0001855 A promoter element with consensus sequence ACGCGT, bound by the transcription factor complex MBF (MCB-binding factor) and found in promoters of genes expressed during the G1/S transition of the cell cycle. http://purl.obolibrary.org/obo/SO_0001855 kareneilbeck http://purl.obolibrary.org/obo/SO_0001855 2011-10-10T05:09:45Z http://purl.obolibrary.org/obo/SO_0001855 MluI cell cycle box http://purl.obolibrary.org/obo/SO_0001855 sequence http://purl.obolibrary.org/obo/SO_0001855 SO:0001855 http://purl.obolibrary.org/obo/SO_0001855 MCB PMID:16963626 http://purl.obolibrary.org/obo/SO_0001856 A promoter element with consensus sequence CCAAT, bound by a protein complex that represses transcription in response to low iron levels. http://purl.obolibrary.org/obo/SO_0001856 kareneilbeck http://purl.obolibrary.org/obo/SO_0001856 2011-10-10T05:13:54Z http://purl.obolibrary.org/obo/SO_0001856 CCAAT motif http://purl.obolibrary.org/obo/SO_0001856 sequence http://purl.obolibrary.org/obo/SO_0001856 SO:0001856 http://purl.obolibrary.org/obo/SO_0001856 CCAAT_motif PMID:16678171 http://purl.obolibrary.org/obo/SO_0001857 A promoter element with consensus sequence CCAGCC, bound by the fungal transcription factor Ace2. http://purl.obolibrary.org/obo/SO_0001857 kareneilbeck http://purl.obolibrary.org/obo/SO_0001857 2011-10-10T05:19:10Z http://purl.obolibrary.org/obo/SO_0001857 Ace2 upstream activating sequence http://purl.obolibrary.org/obo/SO_0001857 sequence http://purl.obolibrary.org/obo/SO_0001857 SO:0001857 http://purl.obolibrary.org/obo/SO_0001857 Ace2_UAS PMID:1657709 http://purl.obolibrary.org/obo/SO_0001858 A promoter element with consensus sequence TTCTTTGTTY, bound an HMG-box transcription factor such as S. pombe Ste11, and found in promoters of genes up-regulated early in meiosis. http://purl.obolibrary.org/obo/SO_0001858 kareneilbeck http://purl.obolibrary.org/obo/SO_0001858 2011-10-10T05:22:13Z http://purl.obolibrary.org/obo/SO_0001858 TR box http://purl.obolibrary.org/obo/SO_0001858 sequence http://purl.obolibrary.org/obo/SO_0001858 SO:0001858 http://purl.obolibrary.org/obo/SO_0001858 TR_box PMID:11739717 http://purl.obolibrary.org/obo/SO_0001859 A promoter element with consensus sequence CCCCTC, bound by the PKA-responsive zinc finger transcription factor Rst2. http://purl.obolibrary.org/obo/SO_0001859 kareneilbeck http://purl.obolibrary.org/obo/SO_0001859 2011-10-14T10:25:02Z http://purl.obolibrary.org/obo/SO_0001859 stress-starvation response element of Schizosaccharomyces pombe http://purl.obolibrary.org/obo/SO_0001859 sequence http://purl.obolibrary.org/obo/SO_0001859 STREP motif http://purl.obolibrary.org/obo/SO_0001859 SO:0001859 http://purl.obolibrary.org/obo/SO_0001859 STREP_motif PMID:9016645 http://purl.obolibrary.org/obo/SO_0001860 A DNA motif that contains a core consensus sequence AGGTAAGGGTAATGCAC, is found in the intergenic regions of rDNA repeats, and is bound by an RNA polymerase I transcription termination factor (e.g. S. pombe Reb1). http://purl.obolibrary.org/obo/SO_0001860 kareneilbeck http://purl.obolibrary.org/obo/SO_0001860 2011-10-19T11:23:09Z http://purl.obolibrary.org/obo/SO_0001860 rDIS http://purl.obolibrary.org/obo/SO_0001860 sequence http://purl.obolibrary.org/obo/SO_0001860 SO:0001860 http://purl.obolibrary.org/obo/SO_0001860 rDNA_intergenic_spacer_element GO:mah PMID:11111080 PMID:16537923 http://purl.obolibrary.org/obo/SO_0001861 A 10-bp promoter element bound by sterol regulatory element binding proteins (SREBPs), found in promoters of genes involved in sterol metabolism. Many variants of the sequence ATCACCCCAC function as SREs. http://purl.obolibrary.org/obo/SO_0001861 kareneilbeck http://purl.obolibrary.org/obo/SO_0001861 2011-10-19T03:02:05Z GO:mah http://purl.obolibrary.org/obo/SO_0001861 SRE http://purl.obolibrary.org/obo/SO_0001861 sequence http://purl.obolibrary.org/obo/SO_0001861 SO:0001861 http://purl.obolibrary.org/obo/SO_0001861 sterol_regulatory_element SO:ke http://purl.obolibrary.org/obo/SO_0001862 A dinucleotide repeat region composed of GT repeating elements. http://purl.obolibrary.org/obo/SO_0001862 kareneilbeck http://purl.obolibrary.org/obo/SO_0001862 2011-10-19T03:54:37Z http://purl.obolibrary.org/obo/SO_0001862 d(GT)n http://purl.obolibrary.org/obo/SO_0001862 sequence http://purl.obolibrary.org/obo/SO_0001862 SO:0001862 http://purl.obolibrary.org/obo/SO_0001862 paper:PMID:16043634. http://purl.obolibrary.org/obo/SO_0001862 GT_dinucleotide_repeat SO:ke http://purl.obolibrary.org/obo/SO_0001863 A trinucleotide repeat region composed of GTT repeating elements. http://purl.obolibrary.org/obo/SO_0001863 kareneilbeck http://purl.obolibrary.org/obo/SO_0001863 2011-10-19T03:56:54Z http://purl.obolibrary.org/obo/SO_0001863 d(GTT) http://purl.obolibrary.org/obo/SO_0001863 sequence http://purl.obolibrary.org/obo/SO_0001863 SO:0001863 http://purl.obolibrary.org/obo/SO_0001863 GTT_trinucleotide_repeat PMID:16166653 PMID:7651412 http://purl.obolibrary.org/obo/SO_0001864 A DNA motif to which the S. pombe Sap1 protein binds. The consensus sequence is 5'-TARGCAGNTNYAACGMG-3'; it is found at the mating type locus, where it is important for mating type switching, and at replication fork barriers in rDNA repeats. http://purl.obolibrary.org/obo/SO_0001864 kareneilbeck http://purl.obolibrary.org/obo/SO_0001864 2011-10-19T04:24:16Z http://purl.obolibrary.org/obo/SO_0001864 Sap1 recognitions site http://purl.obolibrary.org/obo/SO_0001864 sequence http://purl.obolibrary.org/obo/SO_0001864 SO:0001864 http://purl.obolibrary.org/obo/SO_0001864 Sap1_recognition_motif PMID:16928959 http://purl.obolibrary.org/obo/SO_0001865 An RNA polymerase II promoter element found in the promoters of genes regulated by calcineurin. The consensus sequence is GNGGCKCA. http://purl.obolibrary.org/obo/SO_0001865 kareneilbeck http://purl.obolibrary.org/obo/SO_0001865 2011-10-20T10:12:19Z http://purl.obolibrary.org/obo/SO_0001865 CDRE motif PMID:16928959 http://purl.obolibrary.org/obo/SO_0001865 calcineurin-dependent response element http://purl.obolibrary.org/obo/SO_0001865 sequence http://purl.obolibrary.org/obo/SO_0001865 SO:0001865 http://purl.obolibrary.org/obo/SO_0001865 CDRE_motif GMOD:ea http://purl.obolibrary.org/obo/SO_0001866 A contig of BAC reads. http://purl.obolibrary.org/obo/SO_0001866 kareneilbeck http://purl.obolibrary.org/obo/SO_0001866 2012-01-17T02:45:04Z http://purl.obolibrary.org/obo/SO_0001866 BAC read contig http://purl.obolibrary.org/obo/SO_0001866 sequence http://purl.obolibrary.org/obo/SO_0001866 SO:0001866 http://purl.obolibrary.org/obo/SO_0001866 Requested by Bayer Cropscience December, 2011. http://purl.obolibrary.org/obo/SO_0001866 BAC_read_contig GMOD:ea http://purl.obolibrary.org/obo/SO_0001867 A gene suspected of being involved in the expression of a trait. http://purl.obolibrary.org/obo/SO_0001867 kareneilbeck http://purl.obolibrary.org/obo/SO_0001867 2012-01-17T02:53:03Z http://purl.obolibrary.org/obo/SO_0001867 candidate gene http://purl.obolibrary.org/obo/SO_0001867 target gene http://purl.obolibrary.org/obo/SO_0001867 sequence http://purl.obolibrary.org/obo/SO_0001867 SO:0001867 http://purl.obolibrary.org/obo/SO_0001867 Requested by Bayer Cropscience December, 2011. http://purl.obolibrary.org/obo/SO_0001867 candidate_gene GMOD:ea http://purl.obolibrary.org/obo/SO_0001868 A candidate gene whose association with a trait is based on the gene's location on a chromosome. http://purl.obolibrary.org/obo/SO_0001868 kareneilbeck http://purl.obolibrary.org/obo/SO_0001868 2012-01-17T02:54:42Z http://purl.obolibrary.org/obo/SO_0001868 positional candidate gene http://purl.obolibrary.org/obo/SO_0001868 sequence http://purl.obolibrary.org/obo/SO_0001868 positional target gene http://purl.obolibrary.org/obo/SO_0001868 SO:0001868 http://purl.obolibrary.org/obo/SO_0001868 Requested by Bayer Cropscience December, 2011. http://purl.obolibrary.org/obo/SO_0001868 positional_candidate_gene GMOD:ea http://purl.obolibrary.org/obo/SO_0001869 A candidate gene whose function has something in common biologically with the trait under investigation. http://purl.obolibrary.org/obo/SO_0001869 kareneilbeck http://purl.obolibrary.org/obo/SO_0001869 2012-01-17T02:57:30Z http://purl.obolibrary.org/obo/SO_0001869 functional candidate gene http://purl.obolibrary.org/obo/SO_0001869 functional target gene http://purl.obolibrary.org/obo/SO_0001869 sequence http://purl.obolibrary.org/obo/SO_0001869 SO:0001869 http://purl.obolibrary.org/obo/SO_0001869 Requested by Bayer Cropscience December, 2011. http://purl.obolibrary.org/obo/SO_0001869 functional_candidate_gene SO:cjm doi:10.1038/465173a http://purl.obolibrary.org/obo/SO_0001870 A short ncRNA that is transcribed from an enhancer. May have a regulatory function. http://purl.obolibrary.org/obo/SO_0001870 kareneilbeck http://purl.obolibrary.org/obo/SO_0001870 2012-01-17T03:09:35Z http://purl.obolibrary.org/obo/SO_0001870 eRNA http://purl.obolibrary.org/obo/SO_0001870 sequence http://purl.obolibrary.org/obo/SO_0001870 SO:0001870 http://purl.obolibrary.org/obo/SO_0001870 enhancerRNA GO:mah PMID:12411492 http://purl.obolibrary.org/obo/SO_0001871 A promoter element with consensus sequence GNAACR, bound by the transcription factor complex PBF (PCB-binding factor) and found in promoters of genes expressed during the M/G1 transition of the cell cycle. http://purl.obolibrary.org/obo/SO_0001871 kareneilbeck http://purl.obolibrary.org/obo/SO_0001871 2012-01-17T03:14:02Z http://purl.obolibrary.org/obo/SO_0001871 sequence http://purl.obolibrary.org/obo/SO_0001871 SO:0001871 http://purl.obolibrary.org/obo/SO_0001871 PCB NCBI:th PMID:18564416 http://purl.obolibrary.org/obo/SO_0001872 A region of a chromosome, where the chromosome has undergone a large structural rearrangement that altered the genome organization. There is no longer synteny to the reference genome. http://purl.obolibrary.org/obo/SO_0001872 kareneilbeck http://purl.obolibrary.org/obo/SO_0001872 2012-02-03T04:38:35Z http://purl.obolibrary.org/obo/SO_0001872 rearrangement region http://purl.obolibrary.org/obo/SO_0001872 sequence http://purl.obolibrary.org/obo/SO_0001872 SO:0001872 http://purl.obolibrary.org/obo/SO_0001872 NCBI definition: An orphan rearrangement between chromosomal location observed in isolation. http://purl.obolibrary.org/obo/SO_0001872 rearrangement_region NCBI:th http://purl.obolibrary.org/obo/SO_0001873 A rearrangement breakpoint between two different chromosomes. http://purl.obolibrary.org/obo/SO_0001873 kareneilbeck http://purl.obolibrary.org/obo/SO_0001873 2012-02-03T04:43:45Z http://purl.obolibrary.org/obo/SO_0001873 interchromosomal breakpoint http://purl.obolibrary.org/obo/SO_0001873 sequence http://purl.obolibrary.org/obo/SO_0001873 SO:0001873 http://purl.obolibrary.org/obo/SO_0001873 interchromosomal_breakpoint NCBI:th http://purl.obolibrary.org/obo/SO_0001874 A rearrangement breakpoint within the same chromosome. http://purl.obolibrary.org/obo/SO_0001874 kareneilbeck http://purl.obolibrary.org/obo/SO_0001874 2012-02-03T04:44:53Z http://purl.obolibrary.org/obo/SO_0001874 intrachromosomal breakpoint http://purl.obolibrary.org/obo/SO_0001874 sequence http://purl.obolibrary.org/obo/SO_0001874 SO:0001874 http://purl.obolibrary.org/obo/SO_0001874 intrachromosomal_breakpoint GMOD:ea http://purl.obolibrary.org/obo/SO_0001875 A supercontig that is not been assigned to any ultracontig during a genome assembly project. http://purl.obolibrary.org/obo/SO_0001875 kareneilbeck http://purl.obolibrary.org/obo/SO_0001875 2012-02-14T05:02:20Z http://purl.obolibrary.org/obo/SO_0001875 unassigned supercontig http://purl.obolibrary.org/obo/SO_0001875 sequence http://purl.obolibrary.org/obo/SO_0001875 unassigned scaffold http://purl.obolibrary.org/obo/SO_0001875 SO:0001875 http://purl.obolibrary.org/obo/SO_0001875 Requested by Bayer Cropscience January, 2012. http://purl.obolibrary.org/obo/SO_0001875 unassigned_supercontig GMOD:ea http://purl.obolibrary.org/obo/SO_0001876 A partial DNA sequence assembly of a chromosome or full genome, which contains gaps that are filled with N's. http://purl.obolibrary.org/obo/SO_0001876 kareneilbeck http://purl.obolibrary.org/obo/SO_0001876 2012-02-14T05:05:32Z http://purl.obolibrary.org/obo/SO_0001876 pseudomolecule http://purl.obolibrary.org/obo/SO_0001876 partial genomic sequence assembly http://purl.obolibrary.org/obo/SO_0001876 sequence assembly with N-gaps http://purl.obolibrary.org/obo/SO_0001876 sequence http://purl.obolibrary.org/obo/SO_0001876 SO:0001876 http://purl.obolibrary.org/obo/SO_0001876 Requested by Bayer Cropscience January, 2012. http://purl.obolibrary.org/obo/SO_0001876 partial_genomic_sequence_assembly HGNC:mw http://purl.obolibrary.org/obo/SO_0001877 A non-coding RNA over 200nucleotides in length. http://purl.obolibrary.org/obo/SO_0001877 kareneilbeck http://purl.obolibrary.org/obo/SO_0001877 2012-02-14T05:18:01Z http://purl.obolibrary.org/obo/SO_0001877 long non-coding RNA http://purl.obolibrary.org/obo/SO_0001877 sequence http://purl.obolibrary.org/obo/SO_0001877 SO:0001877 http://purl.obolibrary.org/obo/SO_0001877 lnc_RNA EBI:fc SO:ke http://purl.obolibrary.org/obo/SO_0001878 A sequence variant that falls entirely or partially within a genomic feature. http://purl.obolibrary.org/obo/SO_0001878 kareneilbeck http://purl.obolibrary.org/obo/SO_0001878 2012-04-03T11:27:27Z http://purl.obolibrary.org/obo/SO_0001878 feature alteration http://purl.obolibrary.org/obo/SO_0001878 sequence http://purl.obolibrary.org/obo/SO_0001878 SO:0001878 http://purl.obolibrary.org/obo/SO_0001878 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001878 feature_variant SO:ke http://purl.obolibrary.org/obo/SO_0001879 A sequence variant, caused by an alteration of the genomic sequence, where the deletion, is greater than the extent of the underlying genomic features. http://purl.obolibrary.org/obo/SO_0001879 kareneilbeck http://purl.obolibrary.org/obo/SO_0001879 2012-04-03T11:36:48Z http://purl.obolibrary.org/obo/SO_0001879 feature ablation http://purl.obolibrary.org/obo/SO_0001879 sequence http://purl.obolibrary.org/obo/SO_0001879 SO:0001879 http://purl.obolibrary.org/obo/SO_0001879 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001879 feature_ablation SO:ke http://purl.obolibrary.org/obo/SO_0001880 A sequence variant, caused by an alteration of the genomic sequence, where the structural change, an amplification of sequence, is greater than the extent of the underlying genomic features. http://purl.obolibrary.org/obo/SO_0001880 kareneilbeck http://purl.obolibrary.org/obo/SO_0001880 2012-04-03T11:37:48Z http://purl.obolibrary.org/obo/SO_0001880 feature amplification http://purl.obolibrary.org/obo/SO_0001880 sequence http://purl.obolibrary.org/obo/SO_0001880 SO:0001880 http://purl.obolibrary.org/obo/SO_0001880 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001880 feature_amplification SO:ke http://purl.obolibrary.org/obo/SO_0001881 A sequence variant, caused by an alteration of the genomic sequence, where the structural change, a translocation, is greater than the extent of the underlying genomic features. http://purl.obolibrary.org/obo/SO_0001881 kareneilbeck http://purl.obolibrary.org/obo/SO_0001881 2012-04-03T11:38:52Z http://purl.obolibrary.org/obo/SO_0001881 feature translocation http://purl.obolibrary.org/obo/SO_0001881 sequence http://purl.obolibrary.org/obo/SO_0001881 SO:0001881 http://purl.obolibrary.org/obo/SO_0001881 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001881 feature_translocation SO:ke http://purl.obolibrary.org/obo/SO_0001882 A sequence variant, caused by an alteration of the genomic sequence, where a deletion fuses genomic features. http://purl.obolibrary.org/obo/SO_0001882 kareneilbeck http://purl.obolibrary.org/obo/SO_0001882 2012-04-03T11:39:20Z http://purl.obolibrary.org/obo/SO_0001882 feature fusion http://purl.obolibrary.org/obo/SO_0001882 sequence http://purl.obolibrary.org/obo/SO_0001882 SO:0001882 http://purl.obolibrary.org/obo/SO_0001882 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001882 feature_fusion SO:ke http://purl.obolibrary.org/obo/SO_0001883 A feature translocation where the region contains a transcript. http://purl.obolibrary.org/obo/SO_0001883 kareneilbeck http://purl.obolibrary.org/obo/SO_0001883 2012-04-03T12:29:52Z http://purl.obolibrary.org/obo/SO_0001883 transcript translocation http://purl.obolibrary.org/obo/SO_0001883 sequence http://purl.obolibrary.org/obo/SO_0001883 SO:0001883 http://purl.obolibrary.org/obo/SO_0001883 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001883 transcript_translocation SO:ke http://purl.obolibrary.org/obo/SO_0001884 A feature translocation where the region contains a regulatory region. http://purl.obolibrary.org/obo/SO_0001884 kareneilbeck http://purl.obolibrary.org/obo/SO_0001884 2012-04-03T12:31:04Z http://purl.obolibrary.org/obo/SO_0001884 regulatory region translocation http://purl.obolibrary.org/obo/SO_0001884 sequence http://purl.obolibrary.org/obo/SO_0001884 SO:0001884 http://purl.obolibrary.org/obo/SO_0001884 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001884 regulatory_region_translocation SO:ke http://purl.obolibrary.org/obo/SO_0001885 A feature translocation where the region contains a transcription factor binding site. http://purl.obolibrary.org/obo/SO_0001885 kareneilbeck http://purl.obolibrary.org/obo/SO_0001885 2012-04-03T12:31:15Z http://purl.obolibrary.org/obo/SO_0001885 TFBS binding site translocation http://purl.obolibrary.org/obo/SO_0001885 transcription factor binding site translocation http://purl.obolibrary.org/obo/SO_0001885 sequence http://purl.obolibrary.org/obo/SO_0001885 SO:0001885 http://purl.obolibrary.org/obo/SO_0001885 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001885 TFBS_translocation SO:ke http://purl.obolibrary.org/obo/SO_0001886 A feature fusion where the deletion brings together transcript regions. http://purl.obolibrary.org/obo/SO_0001886 kareneilbeck http://purl.obolibrary.org/obo/SO_0001886 2012-04-03T12:34:56Z http://purl.obolibrary.org/obo/SO_0001886 transcript fusion http://purl.obolibrary.org/obo/SO_0001886 sequence http://purl.obolibrary.org/obo/SO_0001886 SO:0001886 http://purl.obolibrary.org/obo/SO_0001886 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001886 transcript_fusion SO:ke http://purl.obolibrary.org/obo/SO_0001887 A feature fusion where the deletion brings together regulatory regions. http://purl.obolibrary.org/obo/SO_0001887 kareneilbeck http://purl.obolibrary.org/obo/SO_0001887 2012-04-03T12:35:58Z http://purl.obolibrary.org/obo/SO_0001887 regulatory region fusion http://purl.obolibrary.org/obo/SO_0001887 sequence http://purl.obolibrary.org/obo/SO_0001887 SO:0001887 http://purl.obolibrary.org/obo/SO_0001887 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001887 regulatory_region_fusion SO:ke http://purl.obolibrary.org/obo/SO_0001888 A fusion where the deletion brings together transcription factor binding sites. http://purl.obolibrary.org/obo/SO_0001888 kareneilbeck http://purl.obolibrary.org/obo/SO_0001888 2012-04-03T12:36:42Z http://purl.obolibrary.org/obo/SO_0001888 TFBS fusion http://purl.obolibrary.org/obo/SO_0001888 transcription factor binding site fusion http://purl.obolibrary.org/obo/SO_0001888 sequence http://purl.obolibrary.org/obo/SO_0001888 SO:0001888 http://purl.obolibrary.org/obo/SO_0001888 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001888 TFBS_fusion SO:ke http://purl.obolibrary.org/obo/SO_0001889 A feature amplification of a region containing a transcript. http://purl.obolibrary.org/obo/SO_0001889 kareneilbeck http://purl.obolibrary.org/obo/SO_0001889 2012-04-03T12:39:23Z http://purl.obolibrary.org/obo/SO_0001889 transcript amplification http://purl.obolibrary.org/obo/SO_0001889 sequence http://purl.obolibrary.org/obo/SO_0001889 SO:0001889 http://purl.obolibrary.org/obo/SO_0001889 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001889 transcript_amplification SO:ke http://purl.obolibrary.org/obo/SO_0001890 A feature fusion where the deletion brings together a regulatory region and a transcript region. http://purl.obolibrary.org/obo/SO_0001890 kareneilbeck http://purl.obolibrary.org/obo/SO_0001890 2012-04-03T12:40:17Z http://purl.obolibrary.org/obo/SO_0001890 transcript regulatory region fusion http://purl.obolibrary.org/obo/SO_0001890 sequence http://purl.obolibrary.org/obo/SO_0001890 SO:0001890 http://purl.obolibrary.org/obo/SO_0001890 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001890 transcript_regulatory_region_fusion SO:ke http://purl.obolibrary.org/obo/SO_0001891 A feature amplification of a region containing a regulatory region. http://purl.obolibrary.org/obo/SO_0001891 kareneilbeck http://purl.obolibrary.org/obo/SO_0001891 2012-04-03T12:41:28Z http://purl.obolibrary.org/obo/SO_0001891 regulatory region amplification http://purl.obolibrary.org/obo/SO_0001891 sequence http://purl.obolibrary.org/obo/SO_0001891 SO:0001891 http://purl.obolibrary.org/obo/SO_0001891 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001891 regulatory_region_amplification SO:ke http://purl.obolibrary.org/obo/SO_0001892 A feature amplification of a region containing a transcription factor binding site. http://purl.obolibrary.org/obo/SO_0001892 kareneilbeck http://purl.obolibrary.org/obo/SO_0001892 2012-04-03T12:42:48Z http://purl.obolibrary.org/obo/SO_0001892 TFBS amplification http://purl.obolibrary.org/obo/SO_0001892 transcription factor binding site amplification http://purl.obolibrary.org/obo/SO_0001892 sequence http://purl.obolibrary.org/obo/SO_0001892 SO:0001892 http://purl.obolibrary.org/obo/SO_0001892 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001892 TFBS_amplification SO:ke http://purl.obolibrary.org/obo/SO_0001893 A feature ablation whereby the deleted region includes a transcript feature. http://purl.obolibrary.org/obo/SO_0001893 kareneilbeck http://purl.obolibrary.org/obo/SO_0001893 2012-04-03T12:44:19Z http://purl.obolibrary.org/obo/SO_0001893 transcript ablation http://purl.obolibrary.org/obo/SO_0001893 sequence http://purl.obolibrary.org/obo/SO_0001893 SO:0001893 http://purl.obolibrary.org/obo/SO_0001893 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001893 transcript_ablation SO:ke http://purl.obolibrary.org/obo/SO_0001894 A feature ablation whereby the deleted region includes a regulatory region. http://purl.obolibrary.org/obo/SO_0001894 kareneilbeck http://purl.obolibrary.org/obo/SO_0001894 2012-04-03T12:45:13Z http://purl.obolibrary.org/obo/SO_0001894 regulatory region ablation http://purl.obolibrary.org/obo/SO_0001894 sequence http://purl.obolibrary.org/obo/SO_0001894 SO:0001894 http://purl.obolibrary.org/obo/SO_0001894 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001894 regulatory_region_ablation SO:ke http://purl.obolibrary.org/obo/SO_0001895 A feature ablation whereby the deleted region includes a transcription factor binding site. http://purl.obolibrary.org/obo/SO_0001895 kareneilbeck http://purl.obolibrary.org/obo/SO_0001895 2012-04-03T12:45:56Z http://purl.obolibrary.org/obo/SO_0001895 TFBS ablation http://purl.obolibrary.org/obo/SO_0001895 transcription factor binding site ablation http://purl.obolibrary.org/obo/SO_0001895 sequence http://purl.obolibrary.org/obo/SO_0001895 SO:0001895 http://purl.obolibrary.org/obo/SO_0001895 Created in conjunction with the EBI. http://purl.obolibrary.org/obo/SO_0001895 TFBS_ablation SO:ke http://purl.obolibrary.org/obo/SO_0001896 A CDS that is part of a transposable element. http://purl.obolibrary.org/obo/SO_0001896 kareneilbeck http://purl.obolibrary.org/obo/SO_0001896 2012-04-05T01:57:04Z http://purl.obolibrary.org/obo/SO_0001896 transposable element CDS http://purl.obolibrary.org/obo/SO_0001896 sequence http://purl.obolibrary.org/obo/SO_0001896 SO:0001896 http://purl.obolibrary.org/obo/SO_0001896 transposable_element_CDS SO:ke http://purl.obolibrary.org/obo/SO_0001897 A pseudogene contained within a transposable element. http://purl.obolibrary.org/obo/SO_0001897 kareneilbeck http://purl.obolibrary.org/obo/SO_0001897 2012-04-05T04:09:45Z http://purl.obolibrary.org/obo/SO_0001897 transposable element pseudogene http://purl.obolibrary.org/obo/SO_0001897 sequence http://purl.obolibrary.org/obo/SO_0001897 SO:0001897 http://purl.obolibrary.org/obo/SO_0001897 transposable_element_pseudogene PMID:16407326 SO:vw http://purl.obolibrary.org/obo/SO_0001898 A repeat region which is part of the regional centromere outer repeat region. http://purl.obolibrary.org/obo/SO_0001898 kareneilbeck http://purl.obolibrary.org/obo/SO_0001898 2012-04-06T11:48:48Z http://purl.obolibrary.org/obo/SO_0001898 dg repeat http://purl.obolibrary.org/obo/SO_0001898 sequence http://purl.obolibrary.org/obo/SO_0001898 SO:0001898 http://purl.obolibrary.org/obo/SO_0001898 For the S. pombe project - requested by Val Wood. http://purl.obolibrary.org/obo/SO_0001898 dg_repeat PMID:16407326 SO:vw http://purl.obolibrary.org/obo/SO_0001899 A repeat region which is part of the regional centromere outer repeat region. http://purl.obolibrary.org/obo/SO_0001899 kareneilbeck http://purl.obolibrary.org/obo/SO_0001899 2012-04-06T11:50:07Z http://purl.obolibrary.org/obo/SO_0001899 dh repeat http://purl.obolibrary.org/obo/SO_0001899 sequence http://purl.obolibrary.org/obo/SO_0001899 SO:0001899 http://purl.obolibrary.org/obo/SO_0001899 For the S. pombe project - requested by Val Wood. http://purl.obolibrary.org/obo/SO_0001899 dh_repeat PMID:15448137 http://purl.obolibrary.org/obo/SO_0001900 A promoter element that contains a core sequence TGACGT, bound by a protein complex that regulates transcription of genes encoding PKA pathway components. http://purl.obolibrary.org/obo/SO_0001900 kareneilbeck http://purl.obolibrary.org/obo/SO_0001900 2012-04-06T12:02:10Z http://purl.obolibrary.org/obo/SO_0001900 m26 site http://purl.obolibrary.org/obo/SO_0001900 sequence http://purl.obolibrary.org/obo/SO_0001900 SO:0001900 http://purl.obolibrary.org/obo/SO_0001900 M26_binding_site PMID:17452352 PMID:4092687 http://purl.obolibrary.org/obo/SO_0001901 A conserved 17-bp sequence (5'-ATCA(C/A)AACCCTAACCCT-3') commonly present upstream of the start site of histone transcription units functioning as a transcription factor binding site. http://purl.obolibrary.org/obo/SO_0001901 kareneilbeck http://purl.obolibrary.org/obo/SO_0001901 2012-04-06T12:05:24Z http://purl.obolibrary.org/obo/SO_0001901 AACCCT box http://purl.obolibrary.org/obo/SO_0001901 sequence http://purl.obolibrary.org/obo/SO_0001901 SO:0001901 http://purl.obolibrary.org/obo/SO_0001901 AACCCT_box SO:bm http://purl.obolibrary.org/obo/SO_0001902 A region surrounding a cis_splice site, either within 1-3 bases of the exon or 3-8 bases of the intron. http://purl.obolibrary.org/obo/SO_0001902 kareneilbeck http://purl.obolibrary.org/obo/SO_0001902 2012-04-06T12:23:32Z http://purl.obolibrary.org/obo/SO_0001902 sequence http://purl.obolibrary.org/obo/SO_0001902 splice region http://purl.obolibrary.org/obo/SO_0001902 SO:0001902 http://purl.obolibrary.org/obo/SO_0001902 splice_region PMID:19071207 SO:ke http://purl.obolibrary.org/obo/SO_0001903 A lnc_RNA totally contained within an intron. http://purl.obolibrary.org/obo/SO_0001903 kareneilbeck http://purl.obolibrary.org/obo/SO_0001903 2012-04-06T04:34:17Z http://purl.obolibrary.org/obo/SO_0001903 intronic lncRNA http://purl.obolibrary.org/obo/SO_0001903 sequence http://purl.obolibrary.org/obo/SO_0001903 SO:0001903 http://purl.obolibrary.org/obo/SO_0001903 intronic_lncRNA PMID:19638999 http://purl.obolibrary.org/obo/SO_0001904 Non-coding RNA transcribed from the opposite DNA strand compared with other transcripts and overlap in part with sense RNA. http://purl.obolibrary.org/obo/SO_0001904 kareneilbeck http://purl.obolibrary.org/obo/SO_0001904 2012-04-06T04:36:44Z http://purl.obolibrary.org/obo/SO_0001904 natural antisense transcript http://purl.obolibrary.org/obo/SO_0001904 sequence http://purl.obolibrary.org/obo/SO_0001904 antisense lncRNA http://purl.obolibrary.org/obo/SO_0001904 SO:0001904 http://purl.obolibrary.org/obo/SO_0001904 antisense_lncRNA PomBase:mah http://purl.obolibrary.org/obo/SO_0001905 A transcript that is transcribed from the outer repeat region of a regional centromere. http://purl.obolibrary.org/obo/SO_0001905 kareneilbeck http://purl.obolibrary.org/obo/SO_0001905 2012-04-11T04:54:22Z http://purl.obolibrary.org/obo/SO_0001905 centromere outer repeat transcript http://purl.obolibrary.org/obo/SO_0001905 regional centromere outer repeat region transcript http://purl.obolibrary.org/obo/SO_0001905 regional_centromere_outer_repeat_region_transcript http://purl.obolibrary.org/obo/SO_0001905 sequence http://purl.obolibrary.org/obo/SO_0001905 SO:0001905 http://purl.obolibrary.org/obo/SO_0001905 regional_centromere_outer_repeat_transcript SO:ke http://purl.obolibrary.org/obo/SO_0001906 A sequence variant that causes the reduction of a genomic feature, with regard to the reference sequence. http://purl.obolibrary.org/obo/SO_0001906 kareneilbeck http://purl.obolibrary.org/obo/SO_0001906 2012-04-12T05:05:28Z http://purl.obolibrary.org/obo/SO_0001906 feature truncation http://purl.obolibrary.org/obo/SO_0001906 sequence http://purl.obolibrary.org/obo/SO_0001906 SO:0001906 http://purl.obolibrary.org/obo/SO_0001906 feature_truncation SO:ke http://purl.obolibrary.org/obo/SO_0001907 A sequence variant that causes the extension of a genomic feature, with regard to the reference sequence. http://purl.obolibrary.org/obo/SO_0001907 kareneilbeck http://purl.obolibrary.org/obo/SO_0001907 2012-04-12T05:05:56Z http://purl.obolibrary.org/obo/SO_0001907 feature elongation http://purl.obolibrary.org/obo/SO_0001907 sequence http://purl.obolibrary.org/obo/SO_0001907 SO:0001907 http://purl.obolibrary.org/obo/SO_0001907 feature_elongation SO:ke http://purl.obolibrary.org/obo/SO_0001908 A sequence variant that causes the extension of a genomic feature from within the feature rather than from the terminus of the feature, with regard to the reference sequence. http://purl.obolibrary.org/obo/SO_0001908 kareneilbeck http://purl.obolibrary.org/obo/SO_0001908 2012-04-12T05:06:20Z http://purl.obolibrary.org/obo/SO_0001908 internal feature elongation http://purl.obolibrary.org/obo/SO_0001908 sequence http://purl.obolibrary.org/obo/SO_0001908 SO:0001908 http://purl.obolibrary.org/obo/SO_0001908 internal_feature_elongation SO:ke http://purl.obolibrary.org/obo/SO_0001909 A frameshift variant that causes the translational reading frame to be extended relative to the reference feature. http://purl.obolibrary.org/obo/SO_0001909 kareneilbeck http://purl.obolibrary.org/obo/SO_0001909 2012-04-12T05:10:05Z http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001909 ANNOVAR:frameshift insertion http://purl.obolibrary.org/obo/SO_0001909 frameshift elongation http://purl.obolibrary.org/obo/SO_0001909 sequence http://purl.obolibrary.org/obo/SO_0001909 SO:0001909 http://purl.obolibrary.org/obo/SO_0001909 frameshift_elongation SO:ke http://purl.obolibrary.org/obo/SO_0001910 A frameshift variant that causes the translational reading frame to be shortened relative to the reference feature. http://purl.obolibrary.org/obo/SO_0001910 kareneilbeck http://purl.obolibrary.org/obo/SO_0001910 2012-04-12T05:10:45Z http://www.openbioinformatics.org/annovar/annovar_download.html http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants http://purl.obolibrary.org/obo/SO_0001910 ANNOVAR:frameshit deletion http://purl.obolibrary.org/obo/SO_0001910 frameshft truncation http://purl.obolibrary.org/obo/SO_0001910 sequence http://purl.obolibrary.org/obo/SO_0001910 SO:0001910 http://purl.obolibrary.org/obo/SO_0001910 frameshift_truncation SO:ke http://purl.obolibrary.org/obo/SO_0001911 A sequence variant where copies of a feature are increased relative to the reference. http://purl.obolibrary.org/obo/SO_0001911 kareneilbeck http://purl.obolibrary.org/obo/SO_0001911 2012-04-13T11:26:32Z http://purl.obolibrary.org/obo/SO_0001911 copy number increase http://purl.obolibrary.org/obo/SO_0001911 sequence http://purl.obolibrary.org/obo/SO_0001911 SO:0001911 http://purl.obolibrary.org/obo/SO_0001911 copy_number_increase SO:ke http://purl.obolibrary.org/obo/SO_0001912 A sequence variant where copies of a feature are decreased relative to the reference. http://purl.obolibrary.org/obo/SO_0001912 kareneilbeck http://purl.obolibrary.org/obo/SO_0001912 2012-04-13T11:27:52Z http://purl.obolibrary.org/obo/SO_0001912 sequence http://purl.obolibrary.org/obo/SO_0001912 SO:0001912 http://purl.obolibrary.org/obo/SO_0001912 copy_number_decrease Invitrogen:kc http://purl.obolibrary.org/obo/SO_0001913 A bacterial promoter with sigma ecf factor binding dependency. This is a type of bacterial promoters that requires a sigma ECF factor to bind to identified -10 and -35 sequence regions in order to mediate binding of the RNA polymerase to the promoter region as part of transcription initiation. http://purl.obolibrary.org/obo/SO_0001913 kareneilbeck http://purl.obolibrary.org/obo/SO_0001913 2012-06-11T02:41:33Z http://purl.obolibrary.org/obo/SO_0001913 bacterial RNApol promoter sigma ecf http://purl.obolibrary.org/obo/SO_0001913 sequence http://purl.obolibrary.org/obo/SO_0001913 SO:0001913 http://purl.obolibrary.org/obo/SO_0001913 Requested by Kevin Clancy - invitrogen -May 2012. http://purl.obolibrary.org/obo/SO_0001913 bacterial_RNApol_promoter_sigma_ecf PMID:14645529 http://purl.obolibrary.org/obo/SO_0001914 A DNA motif that is found in eukaryotic rDNA repeats, and is a site of replication fork pausing. http://purl.obolibrary.org/obo/SO_0001914 kareneilbeck http://purl.obolibrary.org/obo/SO_0001914 2012-06-11T02:55:02Z http://purl.obolibrary.org/obo/SO_0001914 DNA spacer replication fork barrier http://purl.obolibrary.org/obo/SO_0001914 RFB http://purl.obolibrary.org/obo/SO_0001914 RTS1 barrier http://purl.obolibrary.org/obo/SO_0001914 RTS1 element http://purl.obolibrary.org/obo/SO_0001914 rDNA replication fork barrier http://purl.obolibrary.org/obo/SO_0001914 sequence http://purl.obolibrary.org/obo/SO_0001914 SO:0001914 http://purl.obolibrary.org/obo/SO_0001914 Requested by Midori - June 2012. http://purl.obolibrary.org/obo/SO_0001914 rDNA_replication_fork_barrier PMID:19624849 PMID:21372179 SO:andrewgibson http://purl.obolibrary.org/obo/SO_0001915 A region defined by a cluster of experimentally determined transcription starting sites. http://purl.obolibrary.org/obo/SO_0001915 kareneilbeck http://purl.obolibrary.org/obo/SO_0001915 2012-10-17T12:09:50Z http://purl.obolibrary.org/obo/SO_0001915 TSC http://purl.obolibrary.org/obo/SO_0001915 TSS cluster http://purl.obolibrary.org/obo/SO_0001915 transcriptional initiation cluster http://purl.obolibrary.org/obo/SO_0001915 transcriptional start site cluster http://purl.obolibrary.org/obo/SO_0001915 sequence http://purl.obolibrary.org/obo/SO_0001915 SO:0001915 http://purl.obolibrary.org/obo/SO_0001915 transcription_start_cluster SO:andrewgibson http://purl.obolibrary.org/obo/SO_0001916 A CAGE tag is a sequence tag hat corresponds to 5' ends of mRNA at cap sites, produced by cap analysis gene expression and used to identify transcriptional start sites. http://purl.obolibrary.org/obo/SO_0001916 kareneilbeck http://purl.obolibrary.org/obo/SO_0001916 2012-10-17T12:36:58Z http://purl.obolibrary.org/obo/SO_0001916 CAGE tag http://purl.obolibrary.org/obo/SO_0001916 sequence http://purl.obolibrary.org/obo/SO_0001916 SO:0001916 http://purl.obolibrary.org/obo/SO_0001916 CAGE_tag PMID:16645617 SO:andrewgibson http://purl.obolibrary.org/obo/SO_0001917 A kind of transcription_initiation_cluster defined by the clustering of CAGE tags on a sequence region. http://purl.obolibrary.org/obo/SO_0001917 kareneilbeck http://purl.obolibrary.org/obo/SO_0001917 2012-10-17T12:42:03Z http://purl.obolibrary.org/obo/SO_0001917 CAGE cluster http://purl.obolibrary.org/obo/SO_0001917 CAGE peak http://purl.obolibrary.org/obo/SO_0001917 CAGE_peak http://purl.obolibrary.org/obo/SO_0001917 sequence http://purl.obolibrary.org/obo/SO_0001917 SO:0001917 http://purl.obolibrary.org/obo/SO_0001917 CAGE_cluster SO:rtapella http://purl.obolibrary.org/obo/SO_0001918 A cytosine methylated at the 5 carbon. http://purl.obolibrary.org/obo/SO_0001918 kareneilbeck http://purl.obolibrary.org/obo/SO_0001918 2012-10-17T12:46:10Z http://purl.obolibrary.org/obo/SO_0001918 http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html#7.4.2 http://purl.obolibrary.org/obo/SO_0001918 http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf http://purl.obolibrary.org/obo/SO_0001918 5 methylcytosine http://purl.obolibrary.org/obo/SO_0001918 5-mC http://purl.obolibrary.org/obo/SO_0001918 m-5C http://purl.obolibrary.org/obo/SO_0001918 m5c http://purl.obolibrary.org/obo/SO_0001918 sequence http://purl.obolibrary.org/obo/SO_0001918 SO:0001918 http://purl.obolibrary.org/obo/SO_0001918 5_methylcytosine SO:rtapella http://purl.obolibrary.org/obo/SO_0001919 A cytosine methylated at the 4 nitrogen. http://purl.obolibrary.org/obo/SO_0001919 kareneilbeck http://purl.obolibrary.org/obo/SO_0001919 2012-10-17T12:50:40Z http://purl.obolibrary.org/obo/SO_0001919 http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html#7.4.2 http://purl.obolibrary.org/obo/SO_0001919 http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf http://purl.obolibrary.org/obo/SO_0001919 4-mC http://purl.obolibrary.org/obo/SO_0001919 4-methylcytosine http://purl.obolibrary.org/obo/SO_0001919 N4 methylcytosine http://purl.obolibrary.org/obo/SO_0001919 N4-methylcytosine http://purl.obolibrary.org/obo/SO_0001919 N4_methylcytosine http://purl.obolibrary.org/obo/SO_0001919 m-4C http://purl.obolibrary.org/obo/SO_0001919 m4c http://purl.obolibrary.org/obo/SO_0001919 sequence http://purl.obolibrary.org/obo/SO_0001919 SO:0001919 http://purl.obolibrary.org/obo/SO_0001919 4_methylcytosine SO:rtapella http://purl.obolibrary.org/obo/SO_0001920 An adenine methylated at the 6 nitrogen. http://purl.obolibrary.org/obo/SO_0001920 kareneilbeck http://purl.obolibrary.org/obo/SO_0001920 2012-10-17T12:54:23Z http://purl.obolibrary.org/obo/SO_0001920 http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf http://purl.obolibrary.org/obo/SO_0001920 6-mA http://purl.obolibrary.org/obo/SO_0001920 6-methyladenine http://purl.obolibrary.org/obo/SO_0001920 6mA http://purl.obolibrary.org/obo/SO_0001920 N6-methyladenine http://purl.obolibrary.org/obo/SO_0001920 m-6A http://purl.obolibrary.org/obo/SO_0001920 m6a http://purl.obolibrary.org/obo/SO_0001920 sequence http://purl.obolibrary.org/obo/SO_0001920 SO:0001920 http://purl.obolibrary.org/obo/SO_0001920 N6_methyladenine GMOD:ea http://purl.obolibrary.org/obo/SO_0001921 A contig of mitochondria derived sequences. http://purl.obolibrary.org/obo/SO_0001921 kareneilbeck http://purl.obolibrary.org/obo/SO_0001921 2012-10-31T12:34:38Z http://purl.obolibrary.org/obo/SO_0001921 mitochondrial contig http://purl.obolibrary.org/obo/SO_0001921 sequence http://purl.obolibrary.org/obo/SO_0001921 SO:0001921 http://purl.obolibrary.org/obo/SO_0001921 Requested by Bayer Cropscience, October, 2012. http://purl.obolibrary.org/obo/SO_0001921 mitochondrial_contig GMOD:ea http://purl.obolibrary.org/obo/SO_0001922 A scaffold composed of mitochondrial contigs. http://purl.obolibrary.org/obo/SO_0001922 kareneilbeck http://purl.obolibrary.org/obo/SO_0001922 2012-10-31T12:42:45Z http://purl.obolibrary.org/obo/SO_0001922 mitochondrial scaffold http://purl.obolibrary.org/obo/SO_0001922 mitochondrial supercontig http://purl.obolibrary.org/obo/SO_0001922 mitochondrial_scaffold http://purl.obolibrary.org/obo/SO_0001922 sequence http://purl.obolibrary.org/obo/SO_0001922 SO:0001922 http://purl.obolibrary.org/obo/SO_0001922 mitochondrial_supercontig PMID:22139915 http://purl.obolibrary.org/obo/SO_0001923 A non-coding RNA transcript, derived from the transcription of the telomere. These transcripts contain G rich telomeric RNA repeats and RNA tracts corresponding to adjacent subtelomeric sequences. They are 100-9000 bases long. http://purl.obolibrary.org/obo/SO_0001923 kareneilbeck http://purl.obolibrary.org/obo/SO_0001923 2012-10-31T01:06:40Z http://purl.obolibrary.org/obo/SO_0001923 sequence http://purl.obolibrary.org/obo/SO_0001923 telomeric repeat containing RNA http://purl.obolibrary.org/obo/SO_0001923 SO:0001923 http://purl.obolibrary.org/obo/SO_0001923 Telomeric transcription has been documented in mammals, birds, fish, plants and yeast. Requested by Antonia Lock, October 2012. http://purl.obolibrary.org/obo/SO_0001923 TERRA PMID:2139915 http://purl.obolibrary.org/obo/SO_0001924 A non coding RNA transcript, complementary to subtelomeric tract of TERRA transcript but devoid of the repeats. http://purl.obolibrary.org/obo/SO_0001924 kareneilbeck http://purl.obolibrary.org/obo/SO_0001924 2012-10-31T01:11:49Z http://purl.obolibrary.org/obo/SO_0001924 sequence http://purl.obolibrary.org/obo/SO_0001924 SO:0001924 http://purl.obolibrary.org/obo/SO_0001924 Telomeric transcription has been documented in mammals, birds, fish, plants and yeast. Requested by Antonia Lock, October 2012. http://purl.obolibrary.org/obo/SO_0001924 ARRET PMID:22139915 http://purl.obolibrary.org/obo/SO_0001925 A non-coding RNA transcript, derived from the transcription of the telomere. These transcripts consist of C rich repeats. http://purl.obolibrary.org/obo/SO_0001925 kareneilbeck http://purl.obolibrary.org/obo/SO_0001925 2012-10-31T01:24:37Z http://purl.obolibrary.org/obo/SO_0001925 sequence http://purl.obolibrary.org/obo/SO_0001925 SO:0001925 http://purl.obolibrary.org/obo/SO_0001925 Telomeric transcription has been documented in mammals, birds, fish, plants and yeast. Requested by Antonia Lock, October 2012. http://purl.obolibrary.org/obo/SO_0001925 ARIA PMID:22139915 http://purl.obolibrary.org/obo/SO_0001926 A non-coding RNA transcript, derived from the transcription of the telomere. These transcripts are antisense of ARRET transcripts. http://purl.obolibrary.org/obo/SO_0001926 kareneilbeck http://purl.obolibrary.org/obo/SO_0001926 2012-10-31T01:40:22Z http://purl.obolibrary.org/obo/SO_0001926 anti-ARRET http://purl.obolibrary.org/obo/SO_0001926 sequence http://purl.obolibrary.org/obo/SO_0001926 SO:0001926 http://purl.obolibrary.org/obo/SO_0001926 Telomeric transcription has been documented in mammals, birds, fish, plants and yeast. Requested by Antonia Lock, October 2012. http://purl.obolibrary.org/obo/SO_0001926 anti_ARRET PMID:22139915 http://purl.obolibrary.org/obo/SO_0001927 A non-coding transcript derived from the transcript of the telomere. http://purl.obolibrary.org/obo/SO_0001927 kareneilbeck http://purl.obolibrary.org/obo/SO_0001927 2012-10-31T01:42:15Z http://purl.obolibrary.org/obo/SO_0001927 telomeric transcript http://purl.obolibrary.org/obo/SO_0001927 sequence http://purl.obolibrary.org/obo/SO_0001927 SO:0001927 http://purl.obolibrary.org/obo/SO_0001927 telomeric_transcript SO:bm http://purl.obolibrary.org/obo/SO_0001928 A duplication of the distal region of a chromosome. http://purl.obolibrary.org/obo/SO_0001928 kareneilbeck http://purl.obolibrary.org/obo/SO_0001928 2012-10-31T01:56:44Z http://purl.obolibrary.org/obo/SO_0001928 distal duplication http://purl.obolibrary.org/obo/SO_0001928 sequence http://purl.obolibrary.org/obo/SO_0001928 SO:0001928 http://purl.obolibrary.org/obo/SO_0001928 This term is used by Complete Genomics in the structural variant analysis files. http://purl.obolibrary.org/obo/SO_0001928 distal_duplication GMOD:ea http://purl.obolibrary.org/obo/SO_0001929 A sequencer read of a mitochondrial DNA sample. http://purl.obolibrary.org/obo/SO_0001929 kareneilbeck http://purl.obolibrary.org/obo/SO_0001929 2012-11-14T04:39:56Z http://purl.obolibrary.org/obo/SO_0001929 mitochondrial DNA read http://purl.obolibrary.org/obo/SO_0001929 sequence http://purl.obolibrary.org/obo/SO_0001929 SO:0001929 http://purl.obolibrary.org/obo/SO_0001929 Requested by Bayer Cropscience, October, 2012. http://purl.obolibrary.org/obo/SO_0001929 mitochondrial_DNA_read GMOD:ea http://purl.obolibrary.org/obo/SO_0001930 A sequencer read of a chloroplast DNA sample. http://purl.obolibrary.org/obo/SO_0001930 kareneilbeck http://purl.obolibrary.org/obo/SO_0001930 2012-11-14T04:43:45Z http://purl.obolibrary.org/obo/SO_0001930 chloroplast DNA read http://purl.obolibrary.org/obo/SO_0001930 sequence http://purl.obolibrary.org/obo/SO_0001930 SO:0001930 http://purl.obolibrary.org/obo/SO_0001930 Requested by Bayer Cropscience, October, 2012. http://purl.obolibrary.org/obo/SO_0001930 chloroplast_DNA_read GMOD:ea http://purl.obolibrary.org/obo/SO_0001931 Genomic DNA sequence produced from some base calling or alignment algorithm which uses aligned or assembled multiple gDNA sequences as input. http://purl.obolibrary.org/obo/SO_0001931 kareneilbeck http://purl.obolibrary.org/obo/SO_0001931 2012-11-28T12:53:14Z http://purl.obolibrary.org/obo/SO_0001931 consensus gDNA http://purl.obolibrary.org/obo/SO_0001931 consensus genomic DNA http://purl.obolibrary.org/obo/SO_0001931 sequence http://purl.obolibrary.org/obo/SO_0001931 SO:0001931 http://purl.obolibrary.org/obo/SO_0001931 Requested by Bayer Cropscience November, 2012. http://purl.obolibrary.org/obo/SO_0001931 consensus_gDNA SO:ke http://purl.obolibrary.org/obo/SO_0001932 A terminal region of DNA sequence where the end of the region is not blunt ended and the exposed single strand terminates at the 5' end. http://purl.obolibrary.org/obo/SO_0001932 kareneilbeck http://purl.obolibrary.org/obo/SO_0001932 2013-03-06T09:50:44Z http://purl.obolibrary.org/obo/SO_0001932 restriction enzyme five prime single strand overhang http://purl.obolibrary.org/obo/SO_0001932 sequence http://purl.obolibrary.org/obo/SO_0001932 SO:0001932 http://purl.obolibrary.org/obo/SO_0001932 restriction_enzyme_five_prime_single_strand_overhang SO:ke http://purl.obolibrary.org/obo/SO_0001933 A terminal region of DNA sequence where the end of the region is not blunt ended and the exposed single strand terminates at the 3' end. http://purl.obolibrary.org/obo/SO_0001933 kareneilbeck http://purl.obolibrary.org/obo/SO_0001933 2013-03-06T09:52:14Z http://purl.obolibrary.org/obo/SO_0001933 restriction enzyme three prime single strand overhang http://purl.obolibrary.org/obo/SO_0001933 sequence http://purl.obolibrary.org/obo/SO_0001933 SO:0001933 http://purl.obolibrary.org/obo/SO_0001933 restriction_enzyme_three_prime_single_strand_overhang SO:ke http://purl.obolibrary.org/obo/SO_0001934 A repeat_region containing repeat_units of 1 bp that is repeated multiple times in tandem. http://purl.obolibrary.org/obo/SO_0001934 kareneilbeck http://purl.obolibrary.org/obo/SO_0001934 2013-03-06T09:59:15Z http://purl.obolibrary.org/obo/SO_0001934 monomeric repeat http://purl.obolibrary.org/obo/SO_0001934 sequence http://purl.obolibrary.org/obo/SO_0001934 SO:0001934 http://purl.obolibrary.org/obo/SO_0001934 monomeric_repeat EBI:nj http://purl.obolibrary.org/obo/SO_0001935 A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H3 protein is tri-methylated. http://purl.obolibrary.org/obo/SO_0001935 kareneilbeck http://purl.obolibrary.org/obo/SO_0001935 2013-03-06T10:13:48Z http://purl.obolibrary.org/obo/SO_0001935 H3K20 trimethylation site http://purl.obolibrary.org/obo/SO_0001935 sequence http://purl.obolibrary.org/obo/SO_0001935 SO:0001935 http://purl.obolibrary.org/obo/SO_0001935 H3K20_trimethylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001936 A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is acylated. http://purl.obolibrary.org/obo/SO_0001936 kareneilbeck http://purl.obolibrary.org/obo/SO_0001936 2013-03-06T10:16:55Z http://purl.obolibrary.org/obo/SO_0001936 H3K36 acetylation site http://purl.obolibrary.org/obo/SO_0001936 H3K36ac http://purl.obolibrary.org/obo/SO_0001936 sequence http://purl.obolibrary.org/obo/SO_0001936 SO:0001936 http://purl.obolibrary.org/obo/SO_0001936 H3K36_acetylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001937 A kind of histone modification site, whereby the 12th residue (a lysine), from the start of the H2B protein is methylated. http://purl.obolibrary.org/obo/SO_0001937 kareneilbeck http://purl.obolibrary.org/obo/SO_0001937 2013-03-06T10:19:13Z http://purl.obolibrary.org/obo/SO_0001937 H2BK12 acetylation site http://purl.obolibrary.org/obo/SO_0001937 sequence http://purl.obolibrary.org/obo/SO_0001937 H2BK12ac http://purl.obolibrary.org/obo/SO_0001937 SO:0001937 http://purl.obolibrary.org/obo/SO_0001937 H2BK12_acetylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001938 A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H2A histone protein is acetylated. http://purl.obolibrary.org/obo/SO_0001938 kareneilbeck http://purl.obolibrary.org/obo/SO_0001938 2013-03-06T10:20:57Z http://purl.obolibrary.org/obo/SO_0001938 H2AK5 acetylation site http://purl.obolibrary.org/obo/SO_0001938 H2AK5ac http://purl.obolibrary.org/obo/SO_0001938 sequence http://purl.obolibrary.org/obo/SO_0001938 SO:0001938 http://purl.obolibrary.org/obo/SO_0001938 H2AK5_acetylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001939 A kind of histone modification site, whereby the 12th residue (a lysine), from the start of the H4 histone protein is acetylated. http://purl.obolibrary.org/obo/SO_0001939 kareneilbeck http://purl.obolibrary.org/obo/SO_0001939 2013-03-06T10:26:15Z http://purl.obolibrary.org/obo/SO_0001939 H4K12 acetylation site http://purl.obolibrary.org/obo/SO_0001939 H4K12ac http://purl.obolibrary.org/obo/SO_0001939 sequence http://purl.obolibrary.org/obo/SO_0001939 SO:0001939 http://purl.obolibrary.org/obo/SO_0001939 H4K12_acetylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001940 A kind of histone modification site, whereby the 120th residue (a lysine), from the start of the H2B histone protein is acetylated. http://purl.obolibrary.org/obo/SO_0001940 kareneilbeck http://purl.obolibrary.org/obo/SO_0001940 2013-03-06T10:28:38Z http://purl.obolibrary.org/obo/SO_0001940 H2BK120 acetylation site http://purl.obolibrary.org/obo/SO_0001940 H2BK120ac http://purl.obolibrary.org/obo/SO_0001940 sequence http://purl.obolibrary.org/obo/SO_0001940 SO:0001940 http://purl.obolibrary.org/obo/SO_0001940 H2BK120_acetylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001941 A kind of histone modification site, whereby the 91st residue (a lysine), from the start of the H4 histone protein is acetylated. http://purl.obolibrary.org/obo/SO_0001941 kareneilbeck http://purl.obolibrary.org/obo/SO_0001941 2013-03-06T10:41:04Z http://purl.obolibrary.org/obo/SO_0001941 H4K91 acetylation site http://purl.obolibrary.org/obo/SO_0001941 sequence http://purl.obolibrary.org/obo/SO_0001941 SO:0001941 http://purl.obolibrary.org/obo/SO_0001941 H4K91_acetylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001942 A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H2B histone protein is acetylated. http://purl.obolibrary.org/obo/SO_0001942 kareneilbeck http://purl.obolibrary.org/obo/SO_0001942 2013-03-06T10:44:31Z http://purl.obolibrary.org/obo/SO_0001942 H2BK20ac http://purl.obolibrary.org/obo/SO_0001942 sequence http://purl.obolibrary.org/obo/SO_0001942 H2BK20 acetylation site http://purl.obolibrary.org/obo/SO_0001942 SO:0001942 http://purl.obolibrary.org/obo/SO_0001942 H2BK20_acetylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001943 A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 histone protein is acetylated. http://purl.obolibrary.org/obo/SO_0001943 kareneilbeck http://purl.obolibrary.org/obo/SO_0001943 2013-03-06T10:46:32Z http://purl.obolibrary.org/obo/SO_0001943 H3K4ac http://purl.obolibrary.org/obo/SO_0001943 H3K4ac acetylation site http://purl.obolibrary.org/obo/SO_0001943 sequence http://purl.obolibrary.org/obo/SO_0001943 SO:0001943 http://purl.obolibrary.org/obo/SO_0001943 H3K4ac_acetylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001944 A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H2A histone protein is acetylated. http://purl.obolibrary.org/obo/SO_0001944 kareneilbeck http://purl.obolibrary.org/obo/SO_0001944 2013-03-06T10:48:11Z http://purl.obolibrary.org/obo/SO_0001944 H2AK9 acetylation site http://purl.obolibrary.org/obo/SO_0001944 H2AK9ac http://purl.obolibrary.org/obo/SO_0001944 sequence http://purl.obolibrary.org/obo/SO_0001944 SO:0001944 http://purl.obolibrary.org/obo/SO_0001944 H2AK9_acetylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001945 A kind of histone modification site, whereby the 56th residue (a lysine), from the start of the H3 histone protein is acetylated. http://purl.obolibrary.org/obo/SO_0001945 kareneilbeck http://purl.obolibrary.org/obo/SO_0001945 2013-03-06T10:51:14Z http://purl.obolibrary.org/obo/SO_0001945 H3K56 acetylation site http://purl.obolibrary.org/obo/SO_0001945 H3K56ac http://purl.obolibrary.org/obo/SO_0001945 sequence http://purl.obolibrary.org/obo/SO_0001945 SO:0001945 http://purl.obolibrary.org/obo/SO_0001945 H3K56_acetylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001946 A kind of histone modification site, whereby the 15th residue (a lysine), from the start of the H2B histone protein is acetylated. http://purl.obolibrary.org/obo/SO_0001946 kareneilbeck http://purl.obolibrary.org/obo/SO_0001946 2013-03-06T10:53:23Z http://purl.obolibrary.org/obo/SO_0001946 H2BK15 acetylation site http://purl.obolibrary.org/obo/SO_0001946 H2BK15ac http://purl.obolibrary.org/obo/SO_0001946 sequence http://purl.obolibrary.org/obo/SO_0001946 SO:0001946 http://purl.obolibrary.org/obo/SO_0001946 H2BK15_acetylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001947 A kind of histone modification site, whereby the 2nd residue (an arginine), from the start of the H3 protein is mono-methylated. http://purl.obolibrary.org/obo/SO_0001947 kareneilbeck http://purl.obolibrary.org/obo/SO_0001947 2013-03-06T10:57:13Z http://purl.obolibrary.org/obo/SO_0001947 H3R2me1 http://purl.obolibrary.org/obo/SO_0001947 H3R2 monomethylation site http://purl.obolibrary.org/obo/SO_0001947 sequence http://purl.obolibrary.org/obo/SO_0001947 SO:0001947 http://purl.obolibrary.org/obo/SO_0001947 H3R2_monomethylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001948 A kind of histone modification site, whereby the 2nd residue (an arginine), from the start of the H3 protein is di-methylated. http://purl.obolibrary.org/obo/SO_0001948 kareneilbeck http://purl.obolibrary.org/obo/SO_0001948 2013-03-06T10:59:17Z http://purl.obolibrary.org/obo/SO_0001948 H3R2 dimethylation site http://purl.obolibrary.org/obo/SO_0001948 H3R2me2 http://purl.obolibrary.org/obo/SO_0001948 sequence http://purl.obolibrary.org/obo/SO_0001948 SO:0001948 http://purl.obolibrary.org/obo/SO_0001948 H3R2_dimethylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001949 A kind of histone modification site, whereby the 3nd residue (an arginine), from the start of the H4 protein is di-methylated. http://purl.obolibrary.org/obo/SO_0001949 kareneilbeck http://purl.obolibrary.org/obo/SO_0001949 2013-03-06T11:01:27Z http://purl.obolibrary.org/obo/SO_0001949 H4R3 dimethylation site http://purl.obolibrary.org/obo/SO_0001949 H4R3me2 http://purl.obolibrary.org/obo/SO_0001949 sequence http://purl.obolibrary.org/obo/SO_0001949 SO:0001949 http://purl.obolibrary.org/obo/SO_0001949 H4R3_dimethylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001950 A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H4 protein is tri-methylated. http://purl.obolibrary.org/obo/SO_0001950 kareneilbeck http://purl.obolibrary.org/obo/SO_0001950 2013-03-06T11:03:29Z http://purl.obolibrary.org/obo/SO_0001950 H4K4me3 http://purl.obolibrary.org/obo/SO_0001950 H4K4 trimethylation site http://purl.obolibrary.org/obo/SO_0001950 sequence http://purl.obolibrary.org/obo/SO_0001950 SO:0001950 http://purl.obolibrary.org/obo/SO_0001950 H4K4_trimethylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001951 A kind of histone modification site, whereby the 23rd residue (a lysine), from the start of the H3 protein is di-methylated. http://purl.obolibrary.org/obo/SO_0001951 kareneilbeck http://purl.obolibrary.org/obo/SO_0001951 2013-03-06T11:05:33Z http://purl.obolibrary.org/obo/SO_0001951 H3K23 dimethylation site http://purl.obolibrary.org/obo/SO_0001951 H3K23me2 http://purl.obolibrary.org/obo/SO_0001951 sequence http://purl.obolibrary.org/obo/SO_0001951 SO:0001951 http://purl.obolibrary.org/obo/SO_0001951 H3K23_dimethylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001952 A region immediately adjacent to a promoter which may or may not contain transcription factor binding sites. http://purl.obolibrary.org/obo/SO_0001952 kareneilbeck http://purl.obolibrary.org/obo/SO_0001952 2013-03-06T11:36:25Z http://purl.obolibrary.org/obo/SO_0001952 promoter flanking region http://purl.obolibrary.org/obo/SO_0001952 sequence http://purl.obolibrary.org/obo/SO_0001952 SO:0001952 http://purl.obolibrary.org/obo/SO_0001952 promoter_flanking_region SO:ke http://purl.obolibrary.org/obo/SO_0001953 A region of DNA sequence formed from the ligation of two sticky ends where the palindrome is broken and no longer comprises the recognition site and thus cannot be re-cut by the restriction enzymes used to create the sticky ends. http://purl.obolibrary.org/obo/SO_0001953 kareneilbeck http://purl.obolibrary.org/obo/SO_0001953 2013-03-06T03:18:11Z http://purl.obolibrary.org/obo/SO_0001953 sequence http://purl.obolibrary.org/obo/SO_0001953 SO:0001953 http://purl.obolibrary.org/obo/SO_0001953 restriction_enzyme_assembly_scar SO:ke http://purl.obolibrary.org/obo/SO_0001954 A region related to restriction enzyme function. http://purl.obolibrary.org/obo/SO_0001954 kareneilbeck http://purl.obolibrary.org/obo/SO_0001954 2013-03-06T03:23:34Z http://purl.obolibrary.org/obo/SO_0001954 sequence http://purl.obolibrary.org/obo/SO_0001954 restriction enzyme region http://purl.obolibrary.org/obo/SO_0001954 SO:0001954 http://purl.obolibrary.org/obo/SO_0001954 Not a great term for annotation, but used to classify the various regions related to restriction enzymes. http://purl.obolibrary.org/obo/SO_0001954 restriction_enzyme_region SO:ke http://purl.obolibrary.org/obo/SO_0001955 A polypeptide region that proves structure in a protein that affects the stability of the protein. http://purl.obolibrary.org/obo/SO_0001955 kareneilbeck http://purl.obolibrary.org/obo/SO_0001955 2013-03-06T03:32:47Z http://purl.obolibrary.org/obo/SO_0001955 sequence http://purl.obolibrary.org/obo/SO_0001955 protein stability element http://purl.obolibrary.org/obo/SO_0001955 SO:0001955 http://purl.obolibrary.org/obo/SO_0001955 protein_stability_element SO:ke http://purl.obolibrary.org/obo/SO_0001956 A polypeptide_region that codes for a protease cleavage site. http://purl.obolibrary.org/obo/SO_0001956 kareneilbeck http://purl.obolibrary.org/obo/SO_0001956 2013-03-06T03:36:28Z http://purl.obolibrary.org/obo/SO_0001956 protease site http://purl.obolibrary.org/obo/SO_0001956 sequence http://purl.obolibrary.org/obo/SO_0001956 SO:0001956 http://purl.obolibrary.org/obo/SO_0001956 protease_site SO:ke http://purl.obolibrary.org/obo/SO_0001957 RNA secondary structure that affects the stability of an RNA molecule. http://purl.obolibrary.org/obo/SO_0001957 kareneilbeck http://purl.obolibrary.org/obo/SO_0001957 2013-03-06T03:38:35Z http://purl.obolibrary.org/obo/SO_0001957 sequence http://purl.obolibrary.org/obo/SO_0001957 rna stability element http://purl.obolibrary.org/obo/SO_0001957 SO:0001957 http://purl.obolibrary.org/obo/SO_0001957 RNA_stability_element http://purl.obolibrary.org/obo/SO_0001957 true SO:ke http://purl.obolibrary.org/obo/SO_0001958 A kind of intron whereby the excision is driven by lariat formation. http://purl.obolibrary.org/obo/SO_0001958 kareneilbeck http://purl.obolibrary.org/obo/SO_0001958 2013-03-07T10:58:40Z http://purl.obolibrary.org/obo/SO_0001958 lariat intron http://purl.obolibrary.org/obo/SO_0001958 sequence http://purl.obolibrary.org/obo/SO_0001958 SO:0001958 http://purl.obolibrary.org/obo/SO_0001958 Requested by PomBase 3604508. http://purl.obolibrary.org/obo/SO_0001958 lariat_intron PMID:20801935 SO:myl http://purl.obolibrary.org/obo/SO_0001959 A cis-regulatory element, conserved sequence YYC+1TTTYY, and spans -2 to +6 relative to +1 TSS. It is present in most ribosomal protein genes in Drosophila and mammals but not in the yeast Saccharomyces cerevisiae. Resembles the initiator (TCAKTY in Drosophila) but functionally distinct from initiator. http://purl.obolibrary.org/obo/SO_0001959 kareneilbeck http://purl.obolibrary.org/obo/SO_0001959 2013-05-17T04:38:48Z http://purl.obolibrary.org/obo/SO_0001959 TCT element http://purl.obolibrary.org/obo/SO_0001959 polypyrimidine initiator http://purl.obolibrary.org/obo/SO_0001959 sequence http://purl.obolibrary.org/obo/SO_0001959 SO:0001959 http://purl.obolibrary.org/obo/SO_0001959 TCT_motif SO:ke http://purl.obolibrary.org/obo/SO_0001960 A modified DNA cytosine base feature, modified by a hydroxymethyl group at the 5 carbon. http://purl.obolibrary.org/obo/SO_0001960 kareneilbeck http://purl.obolibrary.org/obo/SO_0001960 2013-05-17T05:05:31Z http://purl.obolibrary.org/obo/SO_0001960 http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf http://purl.obolibrary.org/obo/SO_0001960 5-hmC http://purl.obolibrary.org/obo/SO_0001960 5-hydroxymethylcytosine http://purl.obolibrary.org/obo/SO_0001960 sequence http://purl.obolibrary.org/obo/SO_0001960 SO:0001960 http://purl.obolibrary.org/obo/SO_0001960 5_hydroxymethylcytosine SO:ke http://purl.obolibrary.org/obo/SO_0001961 A modified DNA cytosine base feature, modified by a formyl group at the 5 carbon. http://purl.obolibrary.org/obo/SO_0001961 kareneilbeck http://purl.obolibrary.org/obo/SO_0001961 2013-05-17T05:06:13Z http://purl.obolibrary.org/obo/SO_0001961 http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf http://purl.obolibrary.org/obo/SO_0001961 5-fC http://purl.obolibrary.org/obo/SO_0001961 5-formylcytosine http://purl.obolibrary.org/obo/SO_0001961 sequence http://purl.obolibrary.org/obo/SO_0001961 SO:0001961 http://purl.obolibrary.org/obo/SO_0001961 5_formylcytosine SO:ke http://purl.obolibrary.org/obo/SO_0001962 A modified adenine DNA base feature. http://purl.obolibrary.org/obo/SO_0001962 kareneilbeck http://purl.obolibrary.org/obo/SO_0001962 2013-05-20T01:22:30Z http://purl.obolibrary.org/obo/SO_0001962 sequence http://purl.obolibrary.org/obo/SO_0001962 SO:0001962 http://purl.obolibrary.org/obo/SO_0001962 modified_adenine SO:ke http://purl.obolibrary.org/obo/SO_0001963 A modified cytosine DNA base feature. http://purl.obolibrary.org/obo/SO_0001963 kareneilbeck http://purl.obolibrary.org/obo/SO_0001963 2013-05-20T01:23:47Z http://purl.obolibrary.org/obo/SO_0001963 sequence http://purl.obolibrary.org/obo/SO_0001963 SO:0001963 http://purl.obolibrary.org/obo/SO_0001963 modified_cytosine SO:ke http://purl.obolibrary.org/obo/SO_0001964 A modified guanine DNA base feature. http://purl.obolibrary.org/obo/SO_0001964 kareneilbeck http://purl.obolibrary.org/obo/SO_0001964 2013-05-20T01:25:31Z http://purl.obolibrary.org/obo/SO_0001964 sequence http://purl.obolibrary.org/obo/SO_0001964 SO:0001964 http://purl.obolibrary.org/obo/SO_0001964 modified_guanine SO:ke http://purl.obolibrary.org/obo/SO_0001965 A modified DNA guanine base,at the 8 carbon, often the product of DNA damage. http://purl.obolibrary.org/obo/SO_0001965 kareneilbeck http://purl.obolibrary.org/obo/SO_0001965 2013-05-20T01:27:51Z http://purl.obolibrary.org/obo/SO_0001965 http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf http://purl.obolibrary.org/obo/SO_0001965 8-oxoG http://purl.obolibrary.org/obo/SO_0001965 8-oxoguanine http://purl.obolibrary.org/obo/SO_0001965 sequence http://purl.obolibrary.org/obo/SO_0001965 SO:0001965 http://purl.obolibrary.org/obo/SO_0001965 8_oxoguanine SO:ke http://purl.obolibrary.org/obo/SO_0001966 A modified DNA cytosine base feature, modified by a carboxy group at the 5 carbon. http://purl.obolibrary.org/obo/SO_0001966 kareneilbeck http://purl.obolibrary.org/obo/SO_0001966 2013-05-20T01:30:01Z http://purl.obolibrary.org/obo/SO_0001966 http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf http://purl.obolibrary.org/obo/SO_0001966 5-caC http://purl.obolibrary.org/obo/SO_0001966 5-carboxycytosine http://purl.obolibrary.org/obo/SO_0001966 sequence http://purl.obolibrary.org/obo/SO_0001966 SO:0001966 http://purl.obolibrary.org/obo/SO_0001966 5_carboxylcytosine SO:ke http://purl.obolibrary.org/obo/SO_0001967 A modified DNA adenine base,at the 8 carbon, often the product of DNA damage. http://purl.obolibrary.org/obo/SO_0001967 kareneilbeck http://purl.obolibrary.org/obo/SO_0001967 2013-05-20T01:31:05Z http://purl.obolibrary.org/obo/SO_0001967 http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf http://purl.obolibrary.org/obo/SO_0001967 8-oxoA http://purl.obolibrary.org/obo/SO_0001967 8-oxoadenine http://purl.obolibrary.org/obo/SO_0001967 sequence http://purl.obolibrary.org/obo/SO_0001967 SO:0001967 http://purl.obolibrary.org/obo/SO_0001967 8_oxoadenine SO:ke http://purl.obolibrary.org/obo/SO_0001968 A transcript variant of a protein coding gene. http://purl.obolibrary.org/obo/SO_0001968 kareneilbeck http://purl.obolibrary.org/obo/SO_0001968 2013-05-22T04:34:49Z http://purl.obolibrary.org/obo/SO_0001968 coding transcript variant http://purl.obolibrary.org/obo/SO_0001968 sequence http://purl.obolibrary.org/obo/SO_0001968 SO:0001968 http://purl.obolibrary.org/obo/SO_0001968 coding_transcript_variant SO:ke http://purl.obolibrary.org/obo/SO_0001969 A transcript variant occurring within an intron of a coding transcript. http://purl.obolibrary.org/obo/SO_0001969 kareneilbeck http://purl.obolibrary.org/obo/SO_0001969 2013-05-23T10:54:17Z http://purl.obolibrary.org/obo/SO_0001969 coding sequence intron variant http://purl.obolibrary.org/obo/SO_0001969 sequence http://purl.obolibrary.org/obo/SO_0001969 SO:0001969 http://purl.obolibrary.org/obo/SO_0001969 coding_transcript_intron_variant SO:ke http://purl.obolibrary.org/obo/SO_0001970 A transcript variant occurring within an intron of a non coding transcript. http://purl.obolibrary.org/obo/SO_0001970 kareneilbeck http://purl.obolibrary.org/obo/SO_0001970 2013-05-23T10:55:03Z http://purl.obolibrary.org/obo/SO_0001970 non coding transcript intron variant http://purl.obolibrary.org/obo/SO_0001970 sequence http://purl.obolibrary.org/obo/SO_0001970 SO:0001970 http://purl.obolibrary.org/obo/SO_0001970 non_coding_transcript_intron_variant http://purl.obolibrary.org/obo/SO_0001971 kareneilbeck http://purl.obolibrary.org/obo/SO_0001971 2013-07-29T04:41:53Z http://purl.obolibrary.org/obo/SO_0001971 zinc finger binding site unirot:features http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0001971 zinc_fing http://purl.obolibrary.org/obo/SO_0001971 sequence http://purl.obolibrary.org/obo/SO_0001971 SO:0001971 http://purl.obolibrary.org/obo/SO_0001971 zinc_finger_binding_site EBI:nj SO:ke http://purl.obolibrary.org/obo/SO_0001972 A histone 4 modification where the modification is the acylation of the residue. http://purl.obolibrary.org/obo/SO_0001972 kareneilbeck http://purl.obolibrary.org/obo/SO_0001972 2013-07-30T10:43:04Z http://purl.obolibrary.org/obo/SO_0001972 H4ac http://purl.obolibrary.org/obo/SO_0001972 sequence http://purl.obolibrary.org/obo/SO_0001972 SO:0001972 http://purl.obolibrary.org/obo/SO_0001972 histone_4_acylation_site EBI:nj SO:ke http://purl.obolibrary.org/obo/SO_0001973 A histone 3 modification where the modification is the acylation of the residue. http://purl.obolibrary.org/obo/SO_0001973 kareneilbeck http://purl.obolibrary.org/obo/SO_0001973 2013-07-30T10:46:42Z http://purl.obolibrary.org/obo/SO_0001973 H3ac http://purl.obolibrary.org/obo/SO_0001973 sequence http://purl.obolibrary.org/obo/SO_0001973 SO:0001973 http://purl.obolibrary.org/obo/SO_0001973 histone_3_acetylation_site EBI:nj http://purl.obolibrary.org/obo/SO_0001974 A transcription factor binding site with consensus sequence CCGCGNGGNGGCAG, bound by CCCTF-binding factor. http://purl.obolibrary.org/obo/SO_0001974 kareneilbeck http://purl.obolibrary.org/obo/SO_0001974 2013-07-30T10:59:11Z http://purl.obolibrary.org/obo/SO_0001974 CCCTF binding site http://purl.obolibrary.org/obo/SO_0001974 CTCF binding site http://purl.obolibrary.org/obo/SO_0001974 sequence http://purl.obolibrary.org/obo/SO_0001974 SO:0001974 http://purl.obolibrary.org/obo/SO_0001974 CTCF_binding_site SO:ke http://purl.obolibrary.org/obo/SO_0001975 A restriction enzyme recognition site that, when cleaved, results in 5 prime overhangs. http://purl.obolibrary.org/obo/SO_0001975 kareneilbeck http://purl.obolibrary.org/obo/SO_0001975 2013-07-30T11:32:16Z http://purl.obolibrary.org/obo/SO_0001975 five prime sticky end restriction enzyme cleavage site http://purl.obolibrary.org/obo/SO_0001975 sequence http://purl.obolibrary.org/obo/SO_0001975 SO:0001975 http://purl.obolibrary.org/obo/SO_0001975 Requested by Jackie Quinn. The sticky restriction sites are different from junctions because they include the sequence that is cut, inclusive of the five prime junction and the three prime junction. http://purl.obolibrary.org/obo/SO_0001975 five_prime_sticky_end_restriction_enzyme_cleavage_site SO:ke http://purl.obolibrary.org/obo/SO_0001976 A restriction enzyme recognition site that, when cleaved, results in 3 prime overhangs. http://purl.obolibrary.org/obo/SO_0001976 kareneilbeck http://purl.obolibrary.org/obo/SO_0001976 2013-07-30T11:37:19Z http://purl.obolibrary.org/obo/SO_0001976 three prime sticky end restriction enzyme cleavage site http://purl.obolibrary.org/obo/SO_0001976 sequence http://purl.obolibrary.org/obo/SO_0001976 SO:0001976 http://purl.obolibrary.org/obo/SO_0001976 Requested by Jackie Quinn. The sticky restriction sites are different from junctions because they include the sequence that is cut, inclusive of the five prime junction and the three prime junction. http://purl.obolibrary.org/obo/SO_0001976 three_prime_sticky_end_restriction_enzyme_cleavage_site SO:ke http://purl.obolibrary.org/obo/SO_0001977 A region of a transcript encoding the cleavage site for a ribonuclease enzyme. http://purl.obolibrary.org/obo/SO_0001977 kareneilbeck http://purl.obolibrary.org/obo/SO_0001977 2013-07-30T11:41:06Z http://purl.obolibrary.org/obo/SO_0001977 ribonuclease site http://purl.obolibrary.org/obo/SO_0001977 sequence http://purl.obolibrary.org/obo/SO_0001977 SO:0001977 http://purl.obolibrary.org/obo/SO_0001977 ribonuclease_site SO:ke http://purl.obolibrary.org/obo/SO_0001978 A region of sequence where developer information is encoded. http://purl.obolibrary.org/obo/SO_0001978 kareneilbeck http://purl.obolibrary.org/obo/SO_0001978 2013-07-30T11:49:22Z http://purl.obolibrary.org/obo/SO_0001978 DNA signature http://purl.obolibrary.org/obo/SO_0001978 sequence http://purl.obolibrary.org/obo/SO_0001978 SO:0001978 http://purl.obolibrary.org/obo/SO_0001978 Requested by Jackie Quinn for use in synthetic biology. http://purl.obolibrary.org/obo/SO_0001978 signature PMID:22495308 SO:ke http://purl.obolibrary.org/obo/SO_0001979 A motif that affects the stability of RNA. http://purl.obolibrary.org/obo/SO_0001979 kareneilbeck http://purl.obolibrary.org/obo/SO_0001979 2013-07-30T03:33:53Z http://purl.obolibrary.org/obo/SO_0001979 RNA stability element http://purl.obolibrary.org/obo/SO_0001979 sequence http://purl.obolibrary.org/obo/SO_0001979 SO:0001979 http://purl.obolibrary.org/obo/SO_0001979 RNA_stability_element PMID:19249238 PMID:8571452 SO:ml http://purl.obolibrary.org/obo/SO_0001980 A regulatory promoter element identified in mutation experiments, with consensus sequence: CACGTG. Present in promoters, intergenic regions, coding regions, and introns. They are involved in gene expression responses to light and interact with G-box binding factor and I-box binding factor 1a. http://purl.obolibrary.org/obo/SO_0001980 kareneilbeck http://purl.obolibrary.org/obo/SO_0001980 2013-07-30T04:00:50Z http://purl.obolibrary.org/obo/SO_0001980 G-box http://purl.obolibrary.org/obo/SO_0001980 GBF binding sequence http://purl.obolibrary.org/obo/SO_0001980 sequence http://purl.obolibrary.org/obo/SO_0001980 SO:0001980 http://purl.obolibrary.org/obo/SO_0001980 A plant specific region. http://purl.obolibrary.org/obo/SO_0001980 G_box PMID:17381552 PMID:2902624 SO:ml http://purl.obolibrary.org/obo/SO_0001981 An orientation dependent regulatory promoter element, with consensus sequence of TTGCACAN4TTGCACA, found in plants. http://purl.obolibrary.org/obo/SO_0001981 kareneilbeck http://purl.obolibrary.org/obo/SO_0001981 2013-07-30T04:12:19Z http://purl.obolibrary.org/obo/SO_0001981 L-box http://purl.obolibrary.org/obo/SO_0001981 L-box promoter element http://purl.obolibrary.org/obo/SO_0001981 sequence http://purl.obolibrary.org/obo/SO_0001981 SO:0001981 http://purl.obolibrary.org/obo/SO_0001981 L_box PMID:2347304 PMID:2902624 SO:ml http://purl.obolibrary.org/obo/SO_0001982 A plant regulatory promoter motif, composed of a highly conserved hexamer GATAAG (I-box core). http://purl.obolibrary.org/obo/SO_0001982 kareneilbeck http://purl.obolibrary.org/obo/SO_0001982 2013-07-30T04:17:55Z http://purl.obolibrary.org/obo/SO_0001982 I-box promoter motif http://purl.obolibrary.org/obo/SO_0001982 sequence http://purl.obolibrary.org/obo/SO_0001982 SO:0001982 http://purl.obolibrary.org/obo/SO_0001982 I-box SANGER:am http://purl.obolibrary.org/obo/SO_0001983 A 5' UTR variant where a premature start codon is introduced, moved or lost. http://purl.obolibrary.org/obo/SO_0001983 kareneilbeck http://purl.obolibrary.org/obo/SO_0001983 2013-07-30T04:36:25Z http://purl.obolibrary.org/obo/SO_0001983 5' UTR premature start codon variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0001983 snpEff:START_GAINED http://purl.obolibrary.org/obo/SO_0001983 sequence http://purl.obolibrary.org/obo/SO_0001983 SO:0001983 http://purl.obolibrary.org/obo/SO_0001983 Requested by Andy Menzies at the Sanger. This isn't necessarily a protein coding change. A premature start codon can effect the production of a mature protein product by providing a competing translation start point. Some genes balance their expression this way, eg THPO requires the presence of a premature start to limit expression, its loss leads to Familial thrombocythemia. http://purl.obolibrary.org/obo/SO_0001983 5_prime_UTR_premature_start_codon_variant PomBase:mah http://purl.obolibrary.org/obo/SO_0001984 A gene cassette array that corresponds to a silenced version of a mating type region. http://purl.obolibrary.org/obo/SO_0001984 kareneilbeck http://purl.obolibrary.org/obo/SO_0001984 2013-07-31T02:40:38Z http://purl.obolibrary.org/obo/SO_0001984 sequence http://purl.obolibrary.org/obo/SO_0001984 silent mating-type cassette http://purl.obolibrary.org/obo/SO_0001984 SO:0001984 http://purl.obolibrary.org/obo/SO_0001984 silent_mating_type_cassette_array ISBN:0805350152 http://purl.obolibrary.org/obo/SO_0001985 Any of the DNA segments produced by discontinuous synthesis of the lagging strand during DNA replication. http://purl.obolibrary.org/obo/SO_0001985 kareneilbeck http://purl.obolibrary.org/obo/SO_0001985 2013-07-31T02:57:55Z http://purl.obolibrary.org/obo/SO_0001985 Okazaki fragment http://purl.obolibrary.org/obo/SO_0001985 sequence http://purl.obolibrary.org/obo/SO_0001985 SO:0001985 http://purl.obolibrary.org/obo/SO_0001985 Requested by Midori Harris, 2013. http://purl.obolibrary.org/obo/SO_0001985 Okazaki_fragment EBI:gr http://purl.obolibrary.org/obo/SO_0001986 A feature variant, where the alteration occurs upstream of the transcript TSS. http://purl.obolibrary.org/obo/SO_0001986 kareneilbeck http://purl.obolibrary.org/obo/SO_0001986 2013-07-31T03:46:14Z http://purl.obolibrary.org/obo/SO_0001986 upstream transcript variant http://purl.obolibrary.org/obo/SO_0001986 sequence http://purl.obolibrary.org/obo/SO_0001986 SO:0001986 http://purl.obolibrary.org/obo/SO_0001986 Requested by Graham Ritchie, EBI/Sanger. http://purl.obolibrary.org/obo/SO_0001986 upstream_transcript_variant http://purl.obolibrary.org/obo/SO_0001987 kareneilbeck http://purl.obolibrary.org/obo/SO_0001987 2013-07-31T03:47:51Z http://purl.obolibrary.org/obo/SO_0001987 downstream transcript variant http://purl.obolibrary.org/obo/SO_0001987 sequence http://purl.obolibrary.org/obo/SO_0001987 SO:0001987 http://purl.obolibrary.org/obo/SO_0001987 Requested by Graham Ritchie, EBI/Sanger. http://purl.obolibrary.org/obo/SO_0001987 downstream_transcript_variant Sanger:am http://purl.obolibrary.org/obo/SO_0001988 A 5' UTR variant where a premature start codon is gained. http://purl.obolibrary.org/obo/SO_0001988 kareneilbeck http://purl.obolibrary.org/obo/SO_0001988 2013-07-31T03:53:06Z http://purl.obolibrary.org/obo/SO_0001988 5 prime UTR premature start codon gain variant http://purl.obolibrary.org/obo/SO_0001988 sequence http://purl.obolibrary.org/obo/SO_0001988 SO:0001988 http://purl.obolibrary.org/obo/SO_0001988 5_prime_UTR_premature_start_codon_gain_variant SANGER:am http://purl.obolibrary.org/obo/SO_0001989 A 5' UTR variant where a premature start codon is lost. http://purl.obolibrary.org/obo/SO_0001989 kareneilbeck http://purl.obolibrary.org/obo/SO_0001989 2013-07-31T03:56:48Z http://purl.obolibrary.org/obo/SO_0001989 sequence http://purl.obolibrary.org/obo/SO_0001989 SO:0001989 http://purl.obolibrary.org/obo/SO_0001989 5_prime_UTR_premature_start_codon_loss_variant SANGER:am http://purl.obolibrary.org/obo/SO_0001990 A 5' UTR variant where a premature start codon is moved. http://purl.obolibrary.org/obo/SO_0001990 kareneilbeck http://purl.obolibrary.org/obo/SO_0001990 2013-07-31T03:57:47Z http://purl.obolibrary.org/obo/SO_0001990 sequence http://purl.obolibrary.org/obo/SO_0001990 SO:0001990 http://purl.obolibrary.org/obo/SO_0001990 five_prime_UTR_premature_start_codon_location_variant GMOD:ea http://purl.obolibrary.org/obo/SO_0001991 A consensus AFLP fragment is an AFLP sequence produced from any alignment algorithm which uses assembled multiple AFLP sequences as input. http://purl.obolibrary.org/obo/SO_0001991 kareneilbeck http://purl.obolibrary.org/obo/SO_0001991 2013-09-24T10:43:41Z http://purl.obolibrary.org/obo/SO_0001991 consensus AFLP fragment http://purl.obolibrary.org/obo/SO_0001991 consensus amplified fragment length polymorphism fragment http://purl.obolibrary.org/obo/SO_0001991 sequence http://purl.obolibrary.org/obo/SO_0001991 SO:0001991 http://purl.obolibrary.org/obo/SO_0001991 Requested by Bayer Cropscience September, 2013. http://purl.obolibrary.org/obo/SO_0001991 consensus_AFLP_fragment SO:ke http://purl.obolibrary.org/obo/SO_0001992 A non-synonymous variant is an inframe, protein altering variant, resulting in a codon change. http://purl.obolibrary.org/obo/SO_0001992 kareneilbeck http://purl.obolibrary.org/obo/SO_0001992 2013-10-16T11:47:51Z http://ensembl.org/info/docs/variation/index.html http://purl.obolibrary.org/obo/SO_0001992 non_synonymous_coding http://purl.obolibrary.org/obo/SO_0001992 nonsynonymous variant http://purl.obolibrary.org/obo/SO_0001992 sequence http://purl.obolibrary.org/obo/SO_0001992 SO:0001992 http://purl.obolibrary.org/obo/SO_0001992 nonsynonymous_variant SANGER:am http://purl.obolibrary.org/obo/SO_0001993 Intronic positions associated with cis-splicing. Contains the first and second positions immediately before the exon and the first, second and fifth positions immediately after. http://purl.obolibrary.org/obo/SO_0001993 kareneilbeck http://purl.obolibrary.org/obo/SO_0001993 2014-01-04T06:20:00Z http://purl.obolibrary.org/obo/SO_0001993 extended cis splice site http://purl.obolibrary.org/obo/SO_0001993 sequence http://purl.obolibrary.org/obo/SO_0001993 SO:0001993 http://purl.obolibrary.org/obo/SO_0001993 Added by Andy Menzies (Sanger). http://purl.obolibrary.org/obo/SO_0001993 extended_cis_splice_site SANGER:am http://purl.obolibrary.org/obo/SO_0001994 Fifth intronic position after the intron exon boundary, close to the 5' edge of the intron. http://purl.obolibrary.org/obo/SO_0001994 kareneilbeck http://purl.obolibrary.org/obo/SO_0001994 2014-01-04T06:26:02Z http://purl.obolibrary.org/obo/SO_0001994 intron base 5 http://purl.obolibrary.org/obo/SO_0001994 sequence http://purl.obolibrary.org/obo/SO_0001994 SO:0001994 http://purl.obolibrary.org/obo/SO_0001994 intron_base_5 sanger:am http://purl.obolibrary.org/obo/SO_0001995 A sequence variant occurring in the intron, within 10 bases of exon. http://purl.obolibrary.org/obo/SO_0001995 kareneilbeck http://purl.obolibrary.org/obo/SO_0001995 2014-01-04T06:37:27Z http://purl.obolibrary.org/obo/SO_0001995 extended intronic splice region variant http://purl.obolibrary.org/obo/SO_0001995 sequence http://purl.obolibrary.org/obo/SO_0001995 SO:0001995 http://purl.obolibrary.org/obo/SO_0001995 Added by Andy Menzies (Sanger). http://purl.obolibrary.org/obo/SO_0001995 extended_intronic_splice_region_variant SANGER:am http://purl.obolibrary.org/obo/SO_0001996 Region of intronic sequence within 10 bases of an exon. http://purl.obolibrary.org/obo/SO_0001996 kareneilbeck http://purl.obolibrary.org/obo/SO_0001996 2014-01-04T06:41:23Z http://purl.obolibrary.org/obo/SO_0001996 extended intronic splice region http://purl.obolibrary.org/obo/SO_0001996 sequence http://purl.obolibrary.org/obo/SO_0001996 SO:0001996 http://purl.obolibrary.org/obo/SO_0001996 extended_intronic_splice_region POMBE:al http://purl.obolibrary.org/obo/SO_0001997 A heterochromatic region of the chromosome, adjacent to the telomere (on the centromeric side) that contains repetitive DNA and sometimes genes and it is transcribed. http://purl.obolibrary.org/obo/SO_0001997 kareneilbeck http://purl.obolibrary.org/obo/SO_0001997 2014-01-05T07:02:01Z http://purl.obolibrary.org/obo/SO_0001997 sequence http://purl.obolibrary.org/obo/SO_0001997 SO:0001997 http://purl.obolibrary.org/obo/SO_0001997 subtelomere PMID:23934893 http://purl.obolibrary.org/obo/SO_0001998 A small RNA oligo, typically about 20 bases, that guides the cas nuclease to a target DNA sequence in the CRISPR/cas mutagenesis method. http://purl.obolibrary.org/obo/SO_0001998 kareneilbeck http://purl.obolibrary.org/obo/SO_0001998 2014-01-05T07:25:08Z http://purl.obolibrary.org/obo/SO_0001998 small guide RNA http://purl.obolibrary.org/obo/SO_0001998 sequence http://purl.obolibrary.org/obo/SO_0001998 gRNA http://purl.obolibrary.org/obo/SO_0001998 guide RNA http://purl.obolibrary.org/obo/SO_0001998 SO:0001998 http://purl.obolibrary.org/obo/SO_0001998 sgRNA SO:ke http://purl.obolibrary.org/obo/SO_0001999 DNA motif that is a component of a mating type region. http://purl.obolibrary.org/obo/SO_0001999 kareneilbeck http://purl.obolibrary.org/obo/SO_0001999 2014-01-05T07:30:17Z http://purl.obolibrary.org/obo/SO_0001999 mating type region motif http://purl.obolibrary.org/obo/SO_0001999 sequence http://purl.obolibrary.org/obo/SO_0001999 SO:0001999 http://purl.obolibrary.org/obo/SO_0001999 mating_type_region_motif SGD:jd http://purl.obolibrary.org/obo/SO_0002001 A segment of non-homology between a and alpha mating alleles, found at all three mating loci (HML, MAT, and HMR), has two forms (Ya and Yalpha). http://purl.obolibrary.org/obo/SO_0002001 kareneilbeck http://purl.obolibrary.org/obo/SO_0002001 2014-01-05T07:33:30Z http://purl.obolibrary.org/obo/SO_0002001 Y-region http://purl.obolibrary.org/obo/SO_0002001 sequence http://purl.obolibrary.org/obo/SO_0002001 SO:0002001 http://purl.obolibrary.org/obo/SO_0002001 Requested by Janos Demeter, SGD. http://purl.obolibrary.org/obo/SO_0002001 Y_region SGD:jd http://purl.obolibrary.org/obo/SO_0002002 A mating type region motif, one of two segments of homology found at all three mating loci (HML, MAT, and HMR). http://purl.obolibrary.org/obo/SO_0002002 kareneilbeck http://purl.obolibrary.org/obo/SO_0002002 2014-01-05T07:34:59Z http://purl.obolibrary.org/obo/SO_0002002 Z1-region http://purl.obolibrary.org/obo/SO_0002002 sequence http://purl.obolibrary.org/obo/SO_0002002 SO:0002002 http://purl.obolibrary.org/obo/SO_0002002 Requested by Janos Demeter, SGD. http://purl.obolibrary.org/obo/SO_0002002 Z1_region SGD:jd http://purl.obolibrary.org/obo/SO_0002003 A mating type region motif, the rightmost segment of homology in the HML and MAT mating loci (not present in HMR). http://purl.obolibrary.org/obo/SO_0002003 kareneilbeck http://purl.obolibrary.org/obo/SO_0002003 2014-01-05T07:36:45Z http://purl.obolibrary.org/obo/SO_0002003 Z2-segment http://purl.obolibrary.org/obo/SO_0002003 sequence http://purl.obolibrary.org/obo/SO_0002003 SO:0002003 http://purl.obolibrary.org/obo/SO_0002003 Requested by Janos Demeter, SGD. http://purl.obolibrary.org/obo/SO_0002003 Z2_region SGD:jd http://purl.obolibrary.org/obo/SO_0002004 The ACS is an 11-bp sequence of the form 5'-WTTTAYRTTTW-3' which is at the core of every yeast ARS, and is necessary but not sufficient for recognition and binding by the origin recognition complex (ORC). Functional ARSs require an ACS, as well as other cis elements in the 5' (C domain) and 3' (B domain) flanking sequences of the ACS. http://purl.obolibrary.org/obo/SO_0002004 kareneilbeck http://purl.obolibrary.org/obo/SO_0002004 2014-01-05T07:47:48Z http://purl.obolibrary.org/obo/SO_0002004 ACS http://purl.obolibrary.org/obo/SO_0002004 ARS consensus sequence http://purl.obolibrary.org/obo/SO_0002004 sequence http://purl.obolibrary.org/obo/SO_0002004 SO:0002004 http://purl.obolibrary.org/obo/SO_0002004 ARS_consensus_sequence PMID:22645662 http://purl.obolibrary.org/obo/SO_0002005 The determinant of selective removal (DSR) motif consists of repeats of U(U/C)AAAC. The motif targets meiotic transcripts for removal during mitosis via the exosome. http://purl.obolibrary.org/obo/SO_0002005 kareneilbeck http://purl.obolibrary.org/obo/SO_0002005 2014-01-05T07:51:27Z http://purl.obolibrary.org/obo/SO_0002005 DSR motif http://purl.obolibrary.org/obo/SO_0002005 sequence http://purl.obolibrary.org/obo/SO_0002005 SO:0002005 http://purl.obolibrary.org/obo/SO_0002005 Requested by Antonia Locke, (Pombe). http://purl.obolibrary.org/obo/SO_0002005 DSR_motif PMID:24003116 POMBE:mh http://purl.obolibrary.org/obo/SO_0002006 A promoter element that has the consensus sequence GNMGATC, and is found in promoters of genes repressed in the presence of zinc. http://purl.obolibrary.org/obo/SO_0002006 kareneilbeck http://purl.obolibrary.org/obo/SO_0002006 2014-01-05T09:23:27Z http://purl.obolibrary.org/obo/SO_0002006 zinc repressed element http://purl.obolibrary.org/obo/SO_0002006 sequence http://purl.obolibrary.org/obo/SO_0002006 SO:0002006 http://purl.obolibrary.org/obo/SO_0002006 This element is bound by Loz1 in S. pombe. The paper does not name the element. This term was requested by Midoris Harris, for Pombe. http://purl.obolibrary.org/obo/SO_0002006 zinc_repressed_element NCBI:th http://purl.obolibrary.org/obo/SO_0002007 An MNV is a multiple nucleotide variant (substitution) in which the inserted sequence is the same length as the replaced sequence. http://purl.obolibrary.org/obo/SO_0002007 kareneilbeck http://purl.obolibrary.org/obo/SO_0002007 2014-01-13T03:48:40Z http://purl.obolibrary.org/obo/SO_0002007 multiple nucleotide substitution http://purl.obolibrary.org/obo/SO_0002007 multiple nucleotide variant http://purl.obolibrary.org/obo/SO_0002007 sequence http://purl.obolibrary.org/obo/SO_0002007 SO:0002007 http://purl.obolibrary.org/obo/SO_0002007 MNV SO:ke http://purl.obolibrary.org/obo/SO_0002008 A sequence variant whereby at least one base of a codon encoding a rare amino acid is changed, resulting in a different encoded amino acid. http://purl.obolibrary.org/obo/SO_0002008 kareneilbeck http://purl.obolibrary.org/obo/SO_0002008 2014-03-24T02:24:01Z http://purl.obolibrary.org/obo/SO_0002008 rare amino acid variant http://purl.obolibrary.org/obo/SO_0002008 sequence http://purl.obolibrary.org/obo/SO_0002008 SO:0002008 http://purl.obolibrary.org/obo/SO_0002008 Request from Uma Devi Paila, UVA. Variants in the sites of rare amino acids e.g. Selenocysteine. These are important impact terms since a loss of such rare amino acids may lead to a loss of function. http://purl.obolibrary.org/obo/SO_0002008 rare_amino_acid_variant SO:ke http://purl.obolibrary.org/obo/SO_0002009 A sequence variant whereby at least one base of a codon encoding selenocysteine is changed, resulting in a different encoded amino acid. http://purl.obolibrary.org/obo/SO_0002009 kareneilbeck http://purl.obolibrary.org/obo/SO_0002009 2014-03-24T02:29:44Z http://purl.obolibrary.org/obo/SO_0002009 selenocysteine loss http://purl.obolibrary.org/obo/SO_0002009 sequence http://purl.obolibrary.org/obo/SO_0002009 SO:0002009 http://purl.obolibrary.org/obo/SO_0002009 Request from Uma Devi Paila, UVA. Variants in the sites of rare amino acids e.g. Selenocysteine. These are important impact terms since a loss of such rare amino acids may lead to a loss of function. http://purl.obolibrary.org/obo/SO_0002009 selenocysteine_loss SO:ke http://purl.obolibrary.org/obo/SO_0002010 A sequence variant whereby at least one base of a codon encoding pyrrolysine is changed, resulting in a different encoded amino acid. http://purl.obolibrary.org/obo/SO_0002010 kareneilbeck http://purl.obolibrary.org/obo/SO_0002010 2014-03-24T02:30:16Z http://purl.obolibrary.org/obo/SO_0002010 pyrrolysine loss http://purl.obolibrary.org/obo/SO_0002010 sequence http://purl.obolibrary.org/obo/SO_0002010 SO:0002010 http://purl.obolibrary.org/obo/SO_0002010 Request from Uma Devi Paila, UVA. Variants in the sites of rare amino acids e.g. Selenocysteine. These are important impact terms since a loss of such rare amino acids may lead to a loss of function. http://purl.obolibrary.org/obo/SO_0002010 pyrrolysine_loss SO:ke http://purl.obolibrary.org/obo/SO_0002011 A variant that occurs within a gene but falls outside of all transcript features. This occurs when alternate transcripts of a gene do not share overlapping sequence. http://purl.obolibrary.org/obo/SO_0002011 kareneilbeck http://purl.obolibrary.org/obo/SO_0002011 2014-03-24T02:33:13Z http://purl.obolibrary.org/obo/SO_0002011 intragenic variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0002011 snpEff:INTRAGENIC http://purl.obolibrary.org/obo/SO_0002011 sequence http://purl.obolibrary.org/obo/SO_0002011 SO:0002011 http://purl.obolibrary.org/obo/SO_0002011 Requested by Pablo Cingolani, for use in SnpEff. http://purl.obolibrary.org/obo/SO_0002011 intragenic_variant SO:ke http://purl.obolibrary.org/obo/SO_0002012 A codon variant that changes at least one base of the canonical start codon. http://purl.obolibrary.org/obo/SO_0002012 kareneilbeck http://purl.obolibrary.org/obo/SO_0002012 2014-03-24T02:41:28Z http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0002012 snpEff:START_LOST http://purl.obolibrary.org/obo/SO_0002012 sequence http://purl.obolibrary.org/obo/SO_0002012 SO:0002012 http://purl.obolibrary.org/obo/SO_0002012 Request from Uma Devi Paila, UVA. This term should not be applied to incomplete transcripts. http://purl.obolibrary.org/obo/SO_0002012 start_lost SO:ke http://purl.obolibrary.org/obo/SO_0002013 A sequence variant that causes the reduction of a the 5'UTR with regard to the reference sequence. http://purl.obolibrary.org/obo/SO_0002013 kareneilbeck http://purl.obolibrary.org/obo/SO_0002013 2014-03-25T10:46:42Z http://purl.obolibrary.org/obo/SO_0002013 5 prime UTR truncation http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0002013 snpEff:UTR_5_DELETED http://purl.obolibrary.org/obo/SO_0002013 sequence http://purl.obolibrary.org/obo/SO_0002013 SO:0002013 http://purl.obolibrary.org/obo/SO_0002013 5_prime_UTR_truncation SO:ke http://purl.obolibrary.org/obo/SO_0002014 A sequence variant that causes the extension of 5' UTR, with regard to the reference sequence. http://purl.obolibrary.org/obo/SO_0002014 kareneilbeck http://purl.obolibrary.org/obo/SO_0002014 2014-03-25T10:48:26Z http://purl.obolibrary.org/obo/SO_0002014 5 prime UTR elongation http://purl.obolibrary.org/obo/SO_0002014 sequence http://purl.obolibrary.org/obo/SO_0002014 SO:0002014 http://purl.obolibrary.org/obo/SO_0002014 5_prime_UTR_elongation SO:ke http://purl.obolibrary.org/obo/SO_0002015 A sequence variant that causes the reduction of a the 3' UTR with regard to the reference sequence. http://purl.obolibrary.org/obo/SO_0002015 kareneilbeck http://purl.obolibrary.org/obo/SO_0002015 2014-03-25T10:54:50Z http://purl.obolibrary.org/obo/SO_0002015 3 prime UTR truncation http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0002015 snpEff:UTR_3_DELETED http://purl.obolibrary.org/obo/SO_0002015 sequence http://purl.obolibrary.org/obo/SO_0002015 SO:0002015 http://purl.obolibrary.org/obo/SO_0002015 3_prime_UTR_truncation SO:ke http://purl.obolibrary.org/obo/SO_0002016 A sequence variant that causes the extension of 3' UTR, with regard to the reference sequence. http://purl.obolibrary.org/obo/SO_0002016 kareneilbeck http://purl.obolibrary.org/obo/SO_0002016 2014-03-25T10:55:33Z http://purl.obolibrary.org/obo/SO_0002016 3 prime UTR elongation http://purl.obolibrary.org/obo/SO_0002016 sequence http://purl.obolibrary.org/obo/SO_0002016 SO:0002016 http://purl.obolibrary.org/obo/SO_0002016 3_prime_UTR_elongation SO:ke http://purl.obolibrary.org/obo/SO_0002017 A sequence variant located in a conserved intergenic region, between genes. http://purl.obolibrary.org/obo/SO_0002017 kareneilbeck http://purl.obolibrary.org/obo/SO_0002017 2014-03-25T02:54:39Z http://purl.obolibrary.org/obo/SO_0002017 conserved intergenic variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0002017 snpEff:INTERGENIC_CONSERVED http://purl.obolibrary.org/obo/SO_0002017 sequence http://purl.obolibrary.org/obo/SO_0002017 SO:0002017 http://purl.obolibrary.org/obo/SO_0002017 Requested by Uma Paila (UVA) for snpEff. http://purl.obolibrary.org/obo/SO_0002017 conserved_intergenic_variant SO:ke http://purl.obolibrary.org/obo/SO_0002018 A transcript variant occurring within a conserved region of an intron. http://purl.obolibrary.org/obo/SO_0002018 kareneilbeck http://purl.obolibrary.org/obo/SO_0002018 2014-03-25T02:58:41Z http://purl.obolibrary.org/obo/SO_0002018 conserved intron variant http://purl.obolibrary.org/obo/so-xp.obo#VAR http://purl.obolibrary.org/obo/SO_0002018 snpEff:INTRON_CONSERVED http://purl.obolibrary.org/obo/SO_0002018 sequence http://purl.obolibrary.org/obo/SO_0002018 SO:0002018 http://purl.obolibrary.org/obo/SO_0002018 Requested by Uma Paila (UVA) for snpEff. http://purl.obolibrary.org/obo/SO_0002018 conserved_intron_variant SO:ke http://purl.obolibrary.org/obo/SO_0002019 A sequence variant where at least one base in the start codon is changed, but the start remains. http://purl.obolibrary.org/obo/SO_0002019 kareneilbeck http://purl.obolibrary.org/obo/SO_0002019 2014-03-28T10:08:41Z http://purl.obolibrary.org/obo/SO_0002019 sequence http://purl.obolibrary.org/obo/SO_0002019 SO:0002019 http://purl.obolibrary.org/obo/SO_0002019 Requested by Uma Paila as this term is annotated by snpEff. This would be used for non_AUG start codon annotation. http://purl.obolibrary.org/obo/SO_0002019 start_retained_variant PMID:24013502 http://purl.obolibrary.org/obo/SO_0002020 Boundary elements are DNA motifs that prevent heterochromatin from spreading into neighboring euchromatic regions. http://purl.obolibrary.org/obo/SO_0002020 kareneilbeck http://purl.obolibrary.org/obo/SO_0002020 2014-05-30T14:45:37Z http://purl.obolibrary.org/obo/SO_0002020 boundary element http://purl.obolibrary.org/obo/SO_0002020 sequence http://purl.obolibrary.org/obo/SO_0002020 SO:0002020 http://purl.obolibrary.org/obo/SO_0002020 Requested by Antonia Lock. http://purl.obolibrary.org/obo/SO_0002020 boundary_element PMID:17614787 http://purl.obolibrary.org/obo/SO_0002021 A DNA motif that is found in eukaryotic rDNA repeats, and is a site of replication fork pausing. http://purl.obolibrary.org/obo/SO_0002021 kareneilbeck http://purl.obolibrary.org/obo/SO_0002021 2014-05-30T14:57:26Z http://purl.obolibrary.org/obo/SO_0002021 mating type region replication fork barrier http://purl.obolibrary.org/obo/SO_0002021 sequence http://purl.obolibrary.org/obo/SO_0002021 SO:0002021 http://purl.obolibrary.org/obo/SO_0002021 Requested by Midori Harris. http://purl.obolibrary.org/obo/SO_0002021 mating_type_region_replication_fork_barrier PMID:20178743 PMID:24095277 PomBase:al http://purl.obolibrary.org/obo/SO_0002022 A small RNA molecule, 22-23 nt in size, that is the product of a longer RNA. The production of priRNAs is independent of dicer and involves binding of RNA by argonaute and trimming by triman. In fission yeast, priRNAs trigger the establishment of heterochromatin. PriRNAs are primarily generated from centromeric transcripts (dg and dh repeats), but may also be produced from degradation products of primary transcripts. http://purl.obolibrary.org/obo/SO_0002022 kareneilbeck http://purl.obolibrary.org/obo/SO_0002022 2014-05-30T15:01:24Z http://purl.obolibrary.org/obo/SO_0002022 primal small RNA http://purl.obolibrary.org/obo/SO_0002022 sequence http://purl.obolibrary.org/obo/SO_0002022 SO:0002022 http://purl.obolibrary.org/obo/SO_0002022 priRNA OBO:prs PMID:22574170 http://purl.obolibrary.org/obo/SO_0002023 A nucleic tag which is used in a ligation step of library preparation process to allow pooling of samples while maintaining ability to identify individual source material and creation of a multiplexed library. http://purl.obolibrary.org/obo/SO_0002023 kareneilbeck http://purl.obolibrary.org/obo/SO_0002023 2014-05-30T15:13:16Z http://purl.obolibrary.org/obo/SO_0002023 multiplexing sequence identifier http://purl.obolibrary.org/obo/SO_0002023 sequence http://purl.obolibrary.org/obo/SO_0002023 SO:0002023 http://purl.obolibrary.org/obo/SO_0002023 multiplexing_sequence_identifier SGD:jd http://purl.obolibrary.org/obo/SO_0002024 The leftmost segment of homology in the HML and MAT mating loci, but not present in HMR. http://purl.obolibrary.org/obo/SO_0002024 kareneilbeck http://purl.obolibrary.org/obo/SO_0002024 2014-07-11T13:20:08Z http://purl.obolibrary.org/obo/SO_0002024 SO:0002000 http://purl.obolibrary.org/obo/SO_0002024 W-region http://purl.obolibrary.org/obo/SO_0002024 sequence http://purl.obolibrary.org/obo/SO_0002024 SO:0002024 http://purl.obolibrary.org/obo/SO_0002024 MERGED COMMENT: TARGET COMMENT: Requested by Janos Demeter, SGD. -------------------- SOURCE COMMENT: Requested by Janos Demeter, SGD. http://purl.obolibrary.org/obo/SO_0002024 W_region PMID:22582262 PMID:23117617 PMID:24173580 PomBase:vw http://purl.obolibrary.org/obo/SO_0002025 A genome region where chromosome pairing occurs preferentially during homologous chromosome pairing during early meiotic prophase of Meiosis I. http://purl.obolibrary.org/obo/SO_0002025 kareneilbeck http://purl.obolibrary.org/obo/SO_0002025 2014-07-14T11:40:34Z http://purl.obolibrary.org/obo/SO_0002025 cis-acting homologous chromosome pairing region http://purl.obolibrary.org/obo/SO_0002025 sequence http://purl.obolibrary.org/obo/SO_0002025 SO:0002025 http://purl.obolibrary.org/obo/SO_0002025 Comment: An example of this is the Sme2 locus in fission yeast S. pombe, where is coincident with an ribonuclear complex termed the "Mei2 dot". This term was Requested by Val Wood, PomBase. http://purl.obolibrary.org/obo/SO_0002025 cis_acting_homologous_chromosome_pairing_region PMID:8165123 http://purl.obolibrary.org/obo/SO_0002026 The nucleotide sequence which encodes the intein portion of the precursor gene. http://purl.obolibrary.org/obo/SO_0002026 kareneilbeck http://purl.obolibrary.org/obo/SO_0002026 2014-07-14T11:53:21Z http://purl.obolibrary.org/obo/SO_0002026 sequence http://purl.obolibrary.org/obo/SO_0002026 SO:0002026 http://purl.obolibrary.org/obo/SO_0002026 Requested by Janos Demeter 2014. http://purl.obolibrary.org/obo/SO_0002026 intein_encoding_region PMID:12890013 PMID:16153175 POMBASE:mah http://purl.obolibrary.org/obo/SO_0002027 A short open reading frame that is found in the 5' untranslated region of an mRNA and plays a role in translational regulation. http://purl.obolibrary.org/obo/SO_0002027 kareneilbeck http://purl.obolibrary.org/obo/SO_0002027 2014-07-14T11:59:23Z http://purl.obolibrary.org/obo/SO_0002027 upstream ORF http://purl.obolibrary.org/obo/SO_0002027 sequence http://purl.obolibrary.org/obo/SO_0002027 SO:0002027 http://purl.obolibrary.org/obo/SO_0002027 uORF PMID:23970561 PMID:24705786 POMBASE:mah http://purl.obolibrary.org/obo/SO_0002028 An open reading frame that encodes a peptide of less than 100 amino acids. http://purl.obolibrary.org/obo/SO_0002028 kareneilbeck http://purl.obolibrary.org/obo/SO_0002028 2014-07-14T12:02:33Z http://purl.obolibrary.org/obo/SO_0002028 smORF http://purl.obolibrary.org/obo/SO_0002028 small ORF http://purl.obolibrary.org/obo/SO_0002028 sequence http://purl.obolibrary.org/obo/SO_0002028 SO:0002028 http://purl.obolibrary.org/obo/SO_0002028 sORF POMBASE:vw http://purl.obolibrary.org/obo/SO_0002029 A translated ORF encoded entirely within the antisense strand of a known protein coding gene. http://purl.obolibrary.org/obo/SO_0002029 kareneilbeck http://purl.obolibrary.org/obo/SO_0002029 2014-07-14T12:04:32Z http://purl.obolibrary.org/obo/SO_0002029 translated nested antisense gene http://purl.obolibrary.org/obo/SO_0002029 sequence http://purl.obolibrary.org/obo/SO_0002029 SO:0002029 http://purl.obolibrary.org/obo/SO_0002029 tnaORF SGD:jd http://purl.obolibrary.org/obo/SO_0002030 One of two segments of homology found at all three mating loci (HML, MAT and HMR). http://purl.obolibrary.org/obo/SO_0002030 kareneilbeck http://purl.obolibrary.org/obo/SO_0002030 2014-07-14T18:43:21Z http://purl.obolibrary.org/obo/SO_0002030 x-region http://purl.obolibrary.org/obo/SO_0002030 sequence http://purl.obolibrary.org/obo/SO_0002030 SO:0002030 http://purl.obolibrary.org/obo/SO_0002030 X_region PMID:6699500 SO:ke http://purl.obolibrary.org/obo/SO_0002031 A short hairpin RNA (shRNA) is an RNA transcript that makes a tight hairpin turn that can be used to silence target gene expression via RNA interference. http://purl.obolibrary.org/obo/SO_0002031 kareneilbeck http://purl.obolibrary.org/obo/SO_0002031 2014-10-23T09:16:29Z wikipedia http://purl.obolibrary.org/obo/SO_0002031 http:http:en.wikipedia.org/wiki/Small_hairpin_RNA http://purl.obolibrary.org/obo/SO_0002031 short hairpin RNA http://purl.obolibrary.org/obo/SO_0002031 small hairpin RNA http://purl.obolibrary.org/obo/SO_0002031 sequence http://purl.obolibrary.org/obo/SO_0002031 SO:0002031 http://purl.obolibrary.org/obo/SO_0002031 shRNA SO:ke http://purl.obolibrary.org/obo/SO_0002032 A non-coding transcript encoded by sequences adjacent to the ends of the 5' and 3' miR-encoding sequences that abut the loop in precursor miRNA. http://purl.obolibrary.org/obo/SO_0002032 kareneilbeck http://purl.obolibrary.org/obo/SO_0002032 2015-01-09T13:57:43Z http://purl.obolibrary.org/obo/SO_0002032 microRNA-offset RNA http://purl.obolibrary.org/obo/SO_0002032 sequence http://purl.obolibrary.org/obo/SO_0002032 SO:0002032 http://purl.obolibrary.org/obo/SO_0002032 MoRs are generated from miR hairpins that are longer and can produce two functional miR per strand. They are called moRs because they are not located next to the loop and thus their biogenesis process is a little different, but functionally, they are supposed to act like miRs. It is the same for loRs that are the loop fragments, they are generated differently than miRs or moRs but if loaded into the risc they are supposed to act the same way miRs do. Requested by Thomas Desvignes, Jan 2015. http://purl.obolibrary.org/obo/SO_0002032 moR SO:ke http://purl.obolibrary.org/obo/SO_0002033 A short, non coding transcript of loop-derived sequences encoded in precursor miRNA. http://purl.obolibrary.org/obo/SO_0002033 kareneilbeck http://purl.obolibrary.org/obo/SO_0002033 2015-01-09T14:02:02Z http://purl.obolibrary.org/obo/SO_0002033 loop-origin miRs http://purl.obolibrary.org/obo/SO_0002033 sequence http://purl.obolibrary.org/obo/SO_0002033 SO:0002033 http://purl.obolibrary.org/obo/SO_0002033 MoRs are generated from miR hairpins that are longer and can produce two functional miR per strand. They are called moRs because they are not located next to the loop and thus their biogenesis process is a little different, but functionally, they are supposed to act like miRs. It is the same for loRs that are the loop fragments, they are generated differently than miRs or moRs but if loaded into the risc they are supposed to act the same way miRs do. Requested by Thomas Desvignes, Jan 2015. http://purl.obolibrary.org/obo/SO_0002033 loR SO:ke http://purl.obolibrary.org/obo/SO_0002034 A snoRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA. http://purl.obolibrary.org/obo/SO_0002034 kareneilbeck http://purl.obolibrary.org/obo/SO_0002034 2015-01-09T15:02:13Z http://purl.obolibrary.org/obo/SO_0002034 miR encoding snoRNA primary transcript http://purl.obolibrary.org/obo/SO_0002034 sequence http://purl.obolibrary.org/obo/SO_0002034 SO:0002034 http://purl.obolibrary.org/obo/SO_0002034 miR_encoding_snoRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0002035 A primary transcript encoding a lncRNA. http://purl.obolibrary.org/obo/SO_0002035 kareneilbeck http://purl.obolibrary.org/obo/SO_0002035 2015-01-09T15:23:03Z http://purl.obolibrary.org/obo/SO_0002035 lncRNA primary transcript http://purl.obolibrary.org/obo/SO_0002035 sequence http://purl.obolibrary.org/obo/SO_0002035 SO:0002035 http://purl.obolibrary.org/obo/SO_0002035 lncRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0002036 A lncRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA. http://purl.obolibrary.org/obo/SO_0002036 kareneilbeck http://purl.obolibrary.org/obo/SO_0002036 2015-01-09T15:23:48Z http://purl.obolibrary.org/obo/SO_0002036 miR encoding lncRNA primary transcript http://purl.obolibrary.org/obo/SO_0002036 sequence http://purl.obolibrary.org/obo/SO_0002036 SO:0002036 http://purl.obolibrary.org/obo/SO_0002036 miR_encoding_lncRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0002037 A tRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA. http://purl.obolibrary.org/obo/SO_0002037 kareneilbeck http://purl.obolibrary.org/obo/SO_0002037 2015-01-09T15:28:23Z http://purl.obolibrary.org/obo/SO_0002037 miR encoding tRNA primary transcript http://purl.obolibrary.org/obo/SO_0002037 sequence http://purl.obolibrary.org/obo/SO_0002037 SO:0002037 http://purl.obolibrary.org/obo/SO_0002037 miR_encoding_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0002038 A primary transcript encoding an shRNA. http://purl.obolibrary.org/obo/SO_0002038 kareneilbeck http://purl.obolibrary.org/obo/SO_0002038 2015-01-09T15:30:43Z http://purl.obolibrary.org/obo/SO_0002038 shRNA primary transcript http://purl.obolibrary.org/obo/SO_0002038 sequence http://purl.obolibrary.org/obo/SO_0002038 SO:0002038 http://purl.obolibrary.org/obo/SO_0002038 shRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0002039 A shRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA. http://purl.obolibrary.org/obo/SO_0002039 kareneilbeck http://purl.obolibrary.org/obo/SO_0002039 2015-01-09T15:32:00Z http://purl.obolibrary.org/obo/SO_0002039 miR encoding shRNA primary transcript http://purl.obolibrary.org/obo/SO_0002039 sequence http://purl.obolibrary.org/obo/SO_0002039 SO:0002039 http://purl.obolibrary.org/obo/SO_0002039 miR_encoding_shRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0002040 A primary transcript encoding a vaultRNA. http://purl.obolibrary.org/obo/SO_0002040 kareneilbeck http://purl.obolibrary.org/obo/SO_0002040 2015-01-09T15:33:33Z http://purl.obolibrary.org/obo/SO_0002040 vaultRNA primary transcript http://purl.obolibrary.org/obo/SO_0002040 sequence http://purl.obolibrary.org/obo/SO_0002040 SO:0002040 http://purl.obolibrary.org/obo/SO_0002040 vaultRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0002041 A vaultRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA. http://purl.obolibrary.org/obo/SO_0002041 kareneilbeck http://purl.obolibrary.org/obo/SO_0002041 2015-01-09T15:34:32Z http://purl.obolibrary.org/obo/SO_0002041 miR encoding vaultRNA primary transcript http://purl.obolibrary.org/obo/SO_0002041 sequence http://purl.obolibrary.org/obo/SO_0002041 SO:0002041 http://purl.obolibrary.org/obo/SO_0002041 miR_encoding_vaultRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0002042 A primary transcript encoding a Y-RNA. http://purl.obolibrary.org/obo/SO_0002042 kareneilbeck http://purl.obolibrary.org/obo/SO_0002042 2015-01-09T15:36:51Z http://purl.obolibrary.org/obo/SO_0002042 Y-RNA primary transcript http://purl.obolibrary.org/obo/SO_0002042 sequence http://purl.obolibrary.org/obo/SO_0002042 SO:0002042 http://purl.obolibrary.org/obo/SO_0002042 Y_RNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0002043 A Y-RNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA. http://purl.obolibrary.org/obo/SO_0002043 kareneilbeck http://purl.obolibrary.org/obo/SO_0002043 2015-01-09T15:37:46Z http://purl.obolibrary.org/obo/SO_0002043 miR encoding Y-RNA primary transcript http://purl.obolibrary.org/obo/SO_0002043 sequence http://purl.obolibrary.org/obo/SO_0002043 SO:0002043 http://purl.obolibrary.org/obo/SO_0002043 miR_encoding_Y_RNA_primary_transcript PMID:1489142 PMID:20118212 SO:ke http://purl.obolibrary.org/obo/SO_0002044 A TCS element is a (yeast) transcription factor binding site, bound by the TEA DNA binding domain (DBD) of transcription factors. The consensus site is CATTCC or CATTCT. http://purl.obolibrary.org/obo/SO_0002044 kareneilbeck http://purl.obolibrary.org/obo/SO_0002044 2015-02-09T15:02:53Z http://purl.obolibrary.org/obo/SO_0002044 TCS element http://purl.obolibrary.org/obo/SO_0002044 TEA Consensus Sequence http://purl.obolibrary.org/obo/SO_0002044 sequence http://purl.obolibrary.org/obo/SO_0002044 SO:0002044 http://purl.obolibrary.org/obo/SO_0002044 Requested by Rama - SGD. http://purl.obolibrary.org/obo/SO_0002044 TCS_element PMID:1489142 SO:ke http://purl.obolibrary.org/obo/SO_0002045 A PRE is a (yeast) TFBS with consensus site [TGAAAC(A/G)]. http://purl.obolibrary.org/obo/SO_0002045 kareneilbeck http://purl.obolibrary.org/obo/SO_0002045 2015-02-09T15:05:43Z http://purl.obolibrary.org/obo/SO_0002045 PRE http://purl.obolibrary.org/obo/SO_0002045 pheromone response element http://purl.obolibrary.org/obo/SO_0002045 sequence http://purl.obolibrary.org/obo/SO_0002045 SO:0002045 http://purl.obolibrary.org/obo/SO_0002045 Requested by Rama, SGD. http://purl.obolibrary.org/obo/SO_0002045 pheromone_response_element PMID:1489142 SO:ke http://purl.obolibrary.org/obo/SO_0002046 A FRE is an enhancer element necessary and sufficient to confer filamentation associated expression in S. cerevisiae. http://purl.obolibrary.org/obo/SO_0002046 kareneilbeck http://purl.obolibrary.org/obo/SO_0002046 2015-02-09T15:09:47Z http://purl.obolibrary.org/obo/SO_0002046 filamentation and invasion response element http://purl.obolibrary.org/obo/SO_0002046 sequence http://purl.obolibrary.org/obo/SO_0002046 SO:0002046 http://purl.obolibrary.org/obo/SO_0002046 Requested by Rama, SGD. http://purl.obolibrary.org/obo/SO_0002046 FRE PMID:24789973 SO:ke http://purl.obolibrary.org/obo/SO_0002047 Transcription pause sites are regions of a gene where RNA polymerase may pause during transcription. The functional role of pausing may be to facilitate factor recruitment, RNA folding, and synchronization with translation. Consensus transcription pause site have been observed in E. coli. http://purl.obolibrary.org/obo/SO_0002047 kareneilbeck http://purl.obolibrary.org/obo/SO_0002047 2015-02-09T15:32:52Z http://purl.obolibrary.org/obo/SO_0002047 transcription pause site http://purl.obolibrary.org/obo/SO_0002047 sequence http://purl.obolibrary.org/obo/SO_0002047 SO:0002047 http://purl.obolibrary.org/obo/SO_0002047 transcription_pause_site SGD:se http://purl.obolibrary.org/obo/SO_0002048 A reading frame that could encode a full-length protein but which contains obvious mid-sequence disablements (frameshifts or premature stop codons). http://purl.obolibrary.org/obo/SO_0002048 kareneilbeck http://purl.obolibrary.org/obo/SO_0002048 2015-02-09T16:15:46Z http://purl.obolibrary.org/obo/SO_0002048 dORF http://purl.obolibrary.org/obo/SO_0002048 disabled ORF http://purl.obolibrary.org/obo/SO_0002048 sequence http://purl.obolibrary.org/obo/SO_0002048 disabled_reading frame http://purl.obolibrary.org/obo/SO_0002048 SO:0002048 http://purl.obolibrary.org/obo/SO_0002048 disabled_reading_frame SO:rs http://purl.obolibrary.org/obo/SO_0002049 A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is acetylated. http://purl.obolibrary.org/obo/SO_0002049 kareneilbeck http://purl.obolibrary.org/obo/SO_0002049 2015-05-14T10:17:11Z http://purl.obolibrary.org/obo/SO_0002049 H3K27 acetylation site http://purl.obolibrary.org/obo/SO_0002049 sequence http://purl.obolibrary.org/obo/SO_0002049 SO:0002049 http://purl.obolibrary.org/obo/SO_0002049 Requested by: Sagar Jain, Richard Scheuermann. http://purl.obolibrary.org/obo/SO_0002049 H3K27_acetylation_site SO:ke http://purl.obolibrary.org/obo/SO_0002050 A promoter that allows for continual transcription of gene. http://purl.obolibrary.org/obo/SO_0002050 kareneilbeck http://purl.obolibrary.org/obo/SO_0002050 2015-05-14T10:39:09Z http://purl.obolibrary.org/obo/SO_0002050 constitutive promoter http://purl.obolibrary.org/obo/SO_0002050 sequence http://purl.obolibrary.org/obo/SO_0002050 SO:0002050 http://purl.obolibrary.org/obo/SO_0002050 constitutive_promoter SO:ke http://purl.obolibrary.org/obo/SO_0002051 A promoter whereby activity is induced by the presence or absence of biotic or abiotic factors. http://purl.obolibrary.org/obo/SO_0002051 kareneilbeck http://purl.obolibrary.org/obo/SO_0002051 2015-05-14T10:39:56Z http://purl.obolibrary.org/obo/SO_0002051 inducible promoter http://purl.obolibrary.org/obo/SO_0002051 sequence http://purl.obolibrary.org/obo/SO_0002051 SO:0002051 http://purl.obolibrary.org/obo/SO_0002051 inducible_promoter SO:ke http://purl.obolibrary.org/obo/SO_0002052 A variant where the mutated gene product adversely affects the other (wild type) gene product. http://purl.obolibrary.org/obo/SO_0002052 kareneilbeck http://purl.obolibrary.org/obo/SO_0002052 2015-05-14T11:16:28Z http://purl.obolibrary.org/obo/SO_0002052 dominant negative http://purl.obolibrary.org/obo/SO_0002052 dominant negative variant http://purl.obolibrary.org/obo/SO_0002052 sequence http://purl.obolibrary.org/obo/SO_0002052 SO:0002052 http://purl.obolibrary.org/obo/SO_0002052 Requested by Deanna Church. http://purl.obolibrary.org/obo/SO_0002052 dominant_negative_variant SO:ke http://purl.obolibrary.org/obo/SO_0002053 A sequence variant whereby new or enhanced function is conferred on the gene product. http://purl.obolibrary.org/obo/SO_0002053 kareneilbeck http://purl.obolibrary.org/obo/SO_0002053 2015-05-14T11:20:47Z http://purl.obolibrary.org/obo/SO_0002053 gain of function variant http://purl.obolibrary.org/obo/SO_0002053 sequence http://purl.obolibrary.org/obo/SO_0002053 SO:0002053 http://purl.obolibrary.org/obo/SO_0002053 gain_of_function_variant SO:ke http://purl.obolibrary.org/obo/SO_0002054 A sequence variant whereby the gene product has diminished or abolished function. http://purl.obolibrary.org/obo/SO_0002054 kareneilbeck http://purl.obolibrary.org/obo/SO_0002054 2015-05-14T11:21:29Z http://purl.obolibrary.org/obo/SO_0002054 loss of function variant http://purl.obolibrary.org/obo/SO_0002054 sequence http://purl.obolibrary.org/obo/SO_0002054 SO:0002054 http://purl.obolibrary.org/obo/SO_0002054 loss_of_function_variant SO:ke http://purl.obolibrary.org/obo/SO_0002055 A variant whereby the gene product is not functional or the gene product is not produced. http://purl.obolibrary.org/obo/SO_0002055 kareneilbeck http://purl.obolibrary.org/obo/SO_0002055 2015-05-14T11:21:57Z http://purl.obolibrary.org/obo/SO_0002055 null mutation http://purl.obolibrary.org/obo/SO_0002055 sequence http://purl.obolibrary.org/obo/SO_0002055 SO:0002055 http://purl.obolibrary.org/obo/SO_0002055 null_mutation PMID:23241926 SO:ke http://purl.obolibrary.org/obo/SO_0002056 An intronic splicing regulatory element that functions to recruit trans acting splicing factors suppress the transcription of the gene or genes they control. http://purl.obolibrary.org/obo/SO_0002056 kareneilbeck http://purl.obolibrary.org/obo/SO_0002056 2015-05-14T12:24:10Z http://purl.obolibrary.org/obo/SO_0002056 ISS http://purl.obolibrary.org/obo/SO_0002056 intronic splicing silencer http://purl.obolibrary.org/obo/SO_0002056 sequence http://purl.obolibrary.org/obo/SO_0002056 SO:0002056 http://purl.obolibrary.org/obo/SO_0002056 Requested by Javier Diez Perez. http://purl.obolibrary.org/obo/SO_0002056 intronic_splicing_silencer http://purl.obolibrary.org/obo/SO_0002057 kareneilbeck http://purl.obolibrary.org/obo/SO_0002057 2015-05-14T12:28:31Z http://purl.obolibrary.org/obo/SO_0002057 ISE http://purl.obolibrary.org/obo/SO_0002057 sequence http://purl.obolibrary.org/obo/SO_0002057 SO:0002057 http://purl.obolibrary.org/obo/SO_0002057 intronic_splicing_enhancer http://purl.obolibrary.org/obo/SO_0002057 true PMID:23241926 SO:ke http://purl.obolibrary.org/obo/SO_0002058 An exonic splicing regulatory element that functions to recruit trans acting splicing factors suppress the transcription of the gene or genes they control. http://purl.obolibrary.org/obo/SO_0002058 kareneilbeck http://purl.obolibrary.org/obo/SO_0002058 2015-05-14T12:42:12Z http://purl.obolibrary.org/obo/SO_0002058 ESS http://purl.obolibrary.org/obo/SO_0002058 exonic splicing silencer http://purl.obolibrary.org/obo/SO_0002058 sequence http://purl.obolibrary.org/obo/SO_0002058 SO:0002058 http://purl.obolibrary.org/obo/SO_0002058 Requested by Javier Diez Perez. http://purl.obolibrary.org/obo/SO_0002058 exonic_splicing_silencer PMID:8861911 SGD:se http://purl.obolibrary.org/obo/SO_0002059 A regulatory_region that promotes or induces the process of recombination. http://purl.obolibrary.org/obo/SO_0002059 kareneilbeck http://purl.obolibrary.org/obo/SO_0002059 2015-05-14T13:08:58Z http://purl.obolibrary.org/obo/SO_0002059 recombination enhancer http://purl.obolibrary.org/obo/SO_0002059 sequence http://purl.obolibrary.org/obo/SO_0002059 SO:0002059 http://purl.obolibrary.org/obo/SO_0002059 recombination_enhancer NCBI:th http://purl.obolibrary.org/obo/SO_0002060 A translocation where the regions involved are from different chromosomes. http://purl.obolibrary.org/obo/SO_0002060 kareneilbeck http://purl.obolibrary.org/obo/SO_0002060 2015-06-18T11:10:30Z http://purl.obolibrary.org/obo/SO_0002060 sequence http://purl.obolibrary.org/obo/SO_0002060 SO:0002060 http://purl.obolibrary.org/obo/SO_0002060 interchromosomal_translocation NCBI:th http://purl.obolibrary.org/obo/SO_0002061 A translocation where the regions involved are from the same chromosome. http://purl.obolibrary.org/obo/SO_0002061 kareneilbeck http://purl.obolibrary.org/obo/SO_0002061 2015-06-18T11:10:51Z http://purl.obolibrary.org/obo/SO_0002061 sequence http://purl.obolibrary.org/obo/SO_0002061 SO:0002061 http://purl.obolibrary.org/obo/SO_0002061 intrachromosomal_translocation NCBI:th http://purl.obolibrary.org/obo/SO_0002062 A contiguous cluster of translocations, usually the result of a single catastrophic event such as chromothripsis or chromoanasynthesis. http://purl.obolibrary.org/obo/SO_0002062 kareneilbeck http://purl.obolibrary.org/obo/SO_0002062 2015-06-18T11:24:55Z http://purl.obolibrary.org/obo/SO_0002062 complex chromosomal rearrangement http://purl.obolibrary.org/obo/SO_0002062 sequence http://purl.obolibrary.org/obo/SO_0002062 SO:0002062 http://purl.obolibrary.org/obo/SO_0002062 complex_chromosomal_rearrangement NCBI:th http://purl.obolibrary.org/obo/SO_0002063 An insertion of sequence from the Alu family of mobile elements. http://purl.obolibrary.org/obo/SO_0002063 kareneilbeck http://purl.obolibrary.org/obo/SO_0002063 2015-06-18T11:30:36Z http://purl.obolibrary.org/obo/SO_0002063 Alu insertion http://purl.obolibrary.org/obo/SO_0002063 sequence http://purl.obolibrary.org/obo/SO_0002063 SO:0002063 http://purl.obolibrary.org/obo/SO_0002063 Alu_insertion NCBI:th http://purl.obolibrary.org/obo/SO_0002064 An insertion from the Line1 family of mobile elements. http://purl.obolibrary.org/obo/SO_0002064 kareneilbeck http://purl.obolibrary.org/obo/SO_0002064 2015-06-18T11:34:44Z http://purl.obolibrary.org/obo/SO_0002064 sequence http://purl.obolibrary.org/obo/SO_0002064 line1 insertion http://purl.obolibrary.org/obo/SO_0002064 SO:0002064 http://purl.obolibrary.org/obo/SO_0002064 LINE1_insertion NCBI:th http://purl.obolibrary.org/obo/SO_0002065 An insertion of sequence from the SVA family of mobile elements. http://purl.obolibrary.org/obo/SO_0002065 kareneilbeck http://purl.obolibrary.org/obo/SO_0002065 2015-06-18T11:36:12Z http://purl.obolibrary.org/obo/SO_0002065 sequence http://purl.obolibrary.org/obo/SO_0002065 SO:0002065 http://purl.obolibrary.org/obo/SO_0002065 SVA_insertion NCBI:th http://purl.obolibrary.org/obo/SO_0002066 A deletion of a mobile element when comparing a reference sequence (has mobile element) to a individual sequence (does not have mobile element). http://purl.obolibrary.org/obo/SO_0002066 kareneilbeck http://purl.obolibrary.org/obo/SO_0002066 2015-09-04T13:40:43Z http://purl.obolibrary.org/obo/SO_0002066 mobile element deletion http://purl.obolibrary.org/obo/SO_0002066 sequence http://purl.obolibrary.org/obo/SO_0002066 SO:0002066 http://purl.obolibrary.org/obo/SO_0002066 mobile_element_deletion NCBI:th http://purl.obolibrary.org/obo/SO_0002067 A deletion of the HERV mobile element with respect to a reference. http://purl.obolibrary.org/obo/SO_0002067 kareneilbeck http://purl.obolibrary.org/obo/SO_0002067 2015-09-04T13:42:52Z http://purl.obolibrary.org/obo/SO_0002067 HERV deletion http://purl.obolibrary.org/obo/SO_0002067 sequence http://purl.obolibrary.org/obo/SO_0002067 SO:0002067 http://purl.obolibrary.org/obo/SO_0002067 HERV_deletion NCBI:th http://purl.obolibrary.org/obo/SO_0002068 A deletion of an SVA mobile element. http://purl.obolibrary.org/obo/SO_0002068 kareneilbeck http://purl.obolibrary.org/obo/SO_0002068 2015-09-04T13:45:22Z http://purl.obolibrary.org/obo/SO_0002068 SVA deletion http://purl.obolibrary.org/obo/SO_0002068 sequence http://purl.obolibrary.org/obo/SO_0002068 SO:0002068 http://purl.obolibrary.org/obo/SO_0002068 SVA_deletion NCBI:th http://purl.obolibrary.org/obo/SO_0002069 A deletion of a LINE1 mobile element with respect to a reference. http://purl.obolibrary.org/obo/SO_0002069 kareneilbeck http://purl.obolibrary.org/obo/SO_0002069 2015-09-04T13:46:26Z http://purl.obolibrary.org/obo/SO_0002069 sequence http://purl.obolibrary.org/obo/SO_0002069 LINE1 deletion http://purl.obolibrary.org/obo/SO_0002069 SO:0002069 http://purl.obolibrary.org/obo/SO_0002069 LINE1_deletion NCBI:th http://purl.obolibrary.org/obo/SO_0002070 A deletion of an Alu mobile element with respect to a reference. http://purl.obolibrary.org/obo/SO_0002070 kareneilbeck http://purl.obolibrary.org/obo/SO_0002070 2015-09-04T13:47:16Z http://purl.obolibrary.org/obo/SO_0002070 sequence http://purl.obolibrary.org/obo/SO_0002070 SO:0002070 http://purl.obolibrary.org/obo/SO_0002070 Alu_deletion SO:ke http://purl.obolibrary.org/obo/SO_0005836 A region of sequence that is involved in the control of a biological process. wiki http://purl.obolibrary.org/obo/SO_0005836 http://en.wikipedia.org/wiki/Regulatory_region http://purl.obolibrary.org/obo/SO_0005836 regulatory region http://purl.obolibrary.org/obo/SO_0005836 sequence http://purl.obolibrary.org/obo/SO_0005836 SO:0005836 http://purl.obolibrary.org/obo/SO_0005836 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0005836 regulatory_region PMID:2251119 http://purl.obolibrary.org/obo/SO_0005837 The primary transcript of an evolutionarily conserved eukaryotic low molecular weight RNA capable of intermolecular hybridization with both homologous and heterologous 18S rRNA. http://purl.obolibrary.org/obo/SO_0005837 4.5S snRNA primary transcript http://purl.obolibrary.org/obo/SO_0005837 U14 snoRNA primary transcript http://purl.obolibrary.org/obo/SO_0005837 sequence http://purl.obolibrary.org/obo/SO_0005837 SO:0005837 http://purl.obolibrary.org/obo/SO_0005837 U14_snoRNA_primary_transcript GOC:mah PMID:12457565 http://purl.obolibrary.org/obo/SO_0005841 A snoRNA that specifies the site of 2'-O-ribose methylation in an RNA molecule by base pairing with a short sequence around the target residue. http://purl.obolibrary.org/obo/SO_0005841 methylation guide snoRNA http://purl.obolibrary.org/obo/SO_0005841 sequence http://purl.obolibrary.org/obo/SO_0005841 SO:0005841 http://purl.obolibrary.org/obo/SO_0005841 Has RNA 2'-O-ribose methylation guide activity (GO:0030561). http://purl.obolibrary.org/obo/SO_0005841 methylation_guide_snoRNA GOC:kgc http://purl.obolibrary.org/obo/SO_0005843 An ncRNA that is part of a ribonucleoprotein that cleaves the primary pre-rRNA transcript in the process of producing mature rRNA molecules. http://purl.obolibrary.org/obo/SO_0005843 rRNA cleavage RNA http://purl.obolibrary.org/obo/SO_0005843 sequence http://purl.obolibrary.org/obo/SO_0005843 SO:0005843 http://purl.obolibrary.org/obo/SO_0005843 rRNA_cleavage_RNA RSC:cb http://purl.obolibrary.org/obo/SO_0005845 An exon that is the only exon in a gene. http://purl.obolibrary.org/obo/SO_0005845 exon of single exon gene http://purl.obolibrary.org/obo/SO_0005845 singleton exon http://purl.obolibrary.org/obo/SO_0005845 sequence http://purl.obolibrary.org/obo/SO_0005845 single_exon http://purl.obolibrary.org/obo/SO_0005845 SO:0005845 http://purl.obolibrary.org/obo/SO_0005845 exon_of_single_exon_gene http://purl.obolibrary.org/obo/SO_0005847 cassette array member http://purl.obolibrary.org/obo/SO_0005847 sequence http://purl.obolibrary.org/obo/SO_0005847 SO:0005847 http://purl.obolibrary.org/obo/SO_0005847 cassette_array_member http://purl.obolibrary.org/obo/SO_0005848 gene cassette member http://purl.obolibrary.org/obo/SO_0005848 sequence http://purl.obolibrary.org/obo/SO_0005848 SO:0005848 http://purl.obolibrary.org/obo/SO_0005848 gene_cassette_member http://purl.obolibrary.org/obo/SO_0005849 gene subarray member http://purl.obolibrary.org/obo/SO_0005849 sequence http://purl.obolibrary.org/obo/SO_0005849 SO:0005849 http://purl.obolibrary.org/obo/SO_0005849 gene_subarray_member http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html http://purl.obolibrary.org/obo/SO_0005850 Non-covalent primer binding site for initiation of replication, transcription, or reverse transcription. wiki http://purl.obolibrary.org/obo/SO_0005850 http://en.wikipedia.org/wiki/Primer_binding_site http://purl.obolibrary.org/obo/SO_0005850 primer binding site http://purl.obolibrary.org/obo/SO_0005850 sequence http://purl.obolibrary.org/obo/SO_0005850 SO:0005850 http://purl.obolibrary.org/obo/SO_0005850 primer_binding_site SO:ma http://purl.obolibrary.org/obo/SO_0005851 An array includes two or more genes, or two or more gene subarrays, contiguously arranged where the individual genes, or subarrays, are either identical in sequence, or essentially so. http://purl.obolibrary.org/obo/SO_0005851 gene array http://purl.obolibrary.org/obo/SO_0005851 sequence http://purl.obolibrary.org/obo/SO_0005851 SO:0005851 http://purl.obolibrary.org/obo/SO_0005851 This would include, for example, a cluster of genes each encoding the major ribosomal RNAs and a cluster of histone gene subarrays. http://purl.obolibrary.org/obo/SO_0005851 gene_array SO:ma http://purl.obolibrary.org/obo/SO_0005852 A subarray is, by defintition, a member of a gene array (SO:0005851); the members of a subarray may differ substantially in sequence, but are closely related in function. http://purl.obolibrary.org/obo/SO_0005852 gene subarray http://purl.obolibrary.org/obo/SO_0005852 sequence http://purl.obolibrary.org/obo/SO_0005852 SO:0005852 http://purl.obolibrary.org/obo/SO_0005852 This would include, for example, a cluster of genes encoding different histones. http://purl.obolibrary.org/obo/SO_0005852 gene_subarray SGD:se http://purl.obolibrary.org/obo/SO_0005853 A gene that can be substituted for a related gene at a different site in the genome. wiki http://purl.obolibrary.org/obo/SO_0005853 http://en.wikipedia.org/wiki/Gene_cassette http://purl.obolibrary.org/obo/SO_0005853 gene cassette http://purl.obolibrary.org/obo/SO_0005853 sequence http://purl.obolibrary.org/obo/SO_0005853 SO:0005853 http://purl.obolibrary.org/obo/SO_0005853 This would include, for example, the mating type gene cassettes of S. cerevisiae. Gene cassettes usually exist as linear sequences as part of a larger DNA molecule, such as a chromosome or plasmid. http://purl.obolibrary.org/obo/SO_0005853 gene_cassette SO:ma http://purl.obolibrary.org/obo/SO_0005854 An array of non-functional genes whose members, when captured by recombination form functional genes. http://purl.obolibrary.org/obo/SO_0005854 gene cassette array http://purl.obolibrary.org/obo/SO_0005854 sequence http://purl.obolibrary.org/obo/SO_0005854 SO:0005854 http://purl.obolibrary.org/obo/SO_0005854 This would include, for example, the arrays of non-functional VSG genes of Trypanosomes. http://purl.obolibrary.org/obo/SO_0005854 gene_cassette_array SO:ma http://purl.obolibrary.org/obo/SO_0005855 A collection of related genes. http://purl.obolibrary.org/obo/SO_0005855 gene group http://purl.obolibrary.org/obo/SO_0005855 sequence http://purl.obolibrary.org/obo/SO_0005855 SO:0005855 http://purl.obolibrary.org/obo/SO_0005855 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0005855 gene_group SO:ke http://purl.obolibrary.org/obo/SO_0005856 A primary transcript encoding seryl tRNA (SO:000269). http://purl.obolibrary.org/obo/SO_0005856 selenocysteine tRNA primary transcript http://purl.obolibrary.org/obo/SO_0005856 sequence http://purl.obolibrary.org/obo/SO_0005856 SO:0005856 http://purl.obolibrary.org/obo/SO_0005856 selenocysteine_tRNA_primary_transcript SO:ke http://purl.obolibrary.org/obo/SO_0005857 A tRNA sequence that has a selenocysteine anticodon, and a 3' selenocysteine binding region. http://purl.obolibrary.org/obo/SO_0005857 selenocysteinyl tRNA http://purl.obolibrary.org/obo/SO_0005857 selenocysteinyl-transfer RNA http://purl.obolibrary.org/obo/SO_0005857 selenocysteinyl-transfer ribonucleic acid http://purl.obolibrary.org/obo/SO_0005857 sequence http://purl.obolibrary.org/obo/SO_0005857 SO:0005857 http://purl.obolibrary.org/obo/SO_0005857 selenocysteinyl_tRNA http://www.informatics.jax.org/silverbook/glossary.shtml http://purl.obolibrary.org/obo/SO_0005858 A region in which two or more pairs of homologous markers occur on the same chromosome in two or more species. http://purl.obolibrary.org/obo/SO_0005858 syntenic region http://purl.obolibrary.org/obo/SO_0005858 sequence http://purl.obolibrary.org/obo/SO_0005858 SO:0005858 http://purl.obolibrary.org/obo/SO_0005858 syntenic_region EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100001 A region of a peptide that is involved in a biochemical function. http://purl.obolibrary.org/obo/SO_0100001 biochemical motif http://purl.obolibrary.org/obo/SO_0100001 biochemical region of peptide http://purl.obolibrary.org/obo/SO_0100001 sequence http://purl.obolibrary.org/obo/SO_0100001 biochemical_region http://purl.obolibrary.org/obo/SO_0100001 SO:0100001 http://purl.obolibrary.org/obo/SO_0100001 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100001 Range. http://purl.obolibrary.org/obo/SO_0100001 biochemical_region_of_peptide EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100002 A region that is involved a contact with another molecule. http://purl.obolibrary.org/obo/SO_0100002 sequence http://purl.obolibrary.org/obo/SO_0100002 molecular contact region http://purl.obolibrary.org/obo/SO_0100002 SO:0100002 http://purl.obolibrary.org/obo/SO_0100002 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100002 Range. http://purl.obolibrary.org/obo/SO_0100002 molecular_contact_region EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100003 A region of polypeptide chain with high conformational flexibility. http://purl.obolibrary.org/obo/SO_0100003 intrinsically unstructured polypeptide region http://purl.obolibrary.org/obo/SO_0100003 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0100003 disordered region http://purl.obolibrary.org/obo/SO_0100003 SO:0100003 http://purl.obolibrary.org/obo/SO_0100003 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100003 intrinsically_unstructured_polypeptide_region EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0100004 A motif of 3 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -75 bounds -100 to -50, res i+1: psi 140 bounds 110 to 170. An extra restriction of the length of the O to O distance would be useful, that it be less than 5 Angstrom. More precisely these two oxygens are the main chain carbonyl oxygen atoms of residues i-1 and i+1. http://purl.obolibrary.org/obo/SO_0100004 catmat-3l http://purl.obolibrary.org/obo/SO_0100004 sequence http://purl.obolibrary.org/obo/SO_0100004 SO:0100004 http://purl.obolibrary.org/obo/SO_0100004 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100004 catmat_left_handed_three EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0100005 A motif of 4 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i psi -10 bounds -50 to 30, res i+1: phi -90 bounds -120 to -60, res i+1: psi -10 bounds -50 to 30, res i+2: phi -75 bounds -100 to -50, res i+2: psi 140 bounds 110 to 170. The extra restriction of the length of the O to O distance is similar, that it be less than 5 Angstrom. In this case these two Oxygen atoms are the main chain carbonyl oxygen atoms of residues i-1 and i+2. http://purl.obolibrary.org/obo/SO_0100005 catmat-4l http://purl.obolibrary.org/obo/SO_0100005 sequence http://purl.obolibrary.org/obo/SO_0100005 SO:0100005 http://purl.obolibrary.org/obo/SO_0100005 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100005 catmat_left_handed_four EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0100006 A motif of 3 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -75 bounds -100 to -50, res i+1: psi 140 bounds 110 to 170. An extra restriction of the length of the O to O distance would be useful, that it be less than 5 Angstrom. More precisely these two oxygens are the main chain carbonyl oxygen atoms of residues i-1 and i+1. http://purl.obolibrary.org/obo/SO_0100006 catmat-3r http://purl.obolibrary.org/obo/SO_0100006 sequence http://purl.obolibrary.org/obo/SO_0100006 SO:0100006 http://purl.obolibrary.org/obo/SO_0100006 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100006 catmat_right_handed_three EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0100007 A motif of 4 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -90 bounds -120 to -60, res i+1: psi -10 bounds -50 to 30, res i+2: phi -75 bounds -100 to -50, res i+2: psi 140 bounds 110 to 170. The extra restriction of the length of the O to O distance is similar, that it be less than 5 Angstrom. In this case these two Oxygen atoms are the main chain carbonyl oxygen atoms of residues i-1 and i+2. http://purl.obolibrary.org/obo/SO_0100007 catmat-4r http://purl.obolibrary.org/obo/SO_0100007 sequence http://purl.obolibrary.org/obo/SO_0100007 SO:0100007 http://purl.obolibrary.org/obo/SO_0100007 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100007 catmat_right_handed_four EBIBS:GAR http://www.ebi.ac.uk/msd-srv/msdmotif/ http://purl.obolibrary.org/obo/SO_0100008 A motif of five consecutive residues and two H-bonds in which: H-bond between CO of residue(i) and NH of residue(i+4), H-bond between CO of residue(i) and NH of residue(i+3),Phi angles of residues(i+1), (i+2) and (i+3) are negative. http://purl.obolibrary.org/obo/SO_0100008 alpha beta motif http://purl.obolibrary.org/obo/SO_0100008 sequence http://purl.obolibrary.org/obo/SO_0100008 SO:0100008 http://purl.obolibrary.org/obo/SO_0100008 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100008 alpha_beta_motif EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100009 A peptide that acts as a signal for both membrane translocation and lipid attachment in prokaryotes. http://purl.obolibrary.org/obo/SO_0100009 lipoprotein signal peptide http://purl.obolibrary.org/obo/SO_0100009 prokaryotic membrane lipoprotein lipid attachment site http://purl.obolibrary.org/obo/SO_0100009 sequence http://purl.obolibrary.org/obo/SO_0100009 SO:0100009 http://purl.obolibrary.org/obo/SO_0100009 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100009 lipoprotein_signal_peptide EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100010 An experimental region wherean analysis has been run and not produced any annotation. http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0100010 no output http://purl.obolibrary.org/obo/SO_0100010 sequence http://purl.obolibrary.org/obo/SO_0100010 SO:0100010 http://purl.obolibrary.org/obo/SO_0100010 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100010 no_output EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100011 The cleaved_peptide_region is the region of a peptide sequence that is cleaved during maturation. http://purl.obolibrary.org/obo/SO_0100011 cleaved peptide region http://purl.obolibrary.org/obo/SO_0100011 sequence http://purl.obolibrary.org/obo/SO_0100011 SO:0100011 http://purl.obolibrary.org/obo/SO_0100011 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_0100011 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100011 Range. http://purl.obolibrary.org/obo/SO_0100011 cleaved_peptide_region EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100012 Irregular, unstructured regions of a protein's backbone, as distinct from the regular region (namely alpha helix and beta strand - characterised by specific patterns of main-chain hydrogen bonds). http://purl.obolibrary.org/obo/SO_0100012 peptide coil http://purl.obolibrary.org/obo/SO_0100012 sequence http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0100012 coil http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0100012 random coil http://purl.obolibrary.org/obo/SO_0100012 SO:0100012 http://purl.obolibrary.org/obo/SO_0100012 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100012 peptide_coil EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100013 Hydrophobic regions are regions with a low affinity for water. http://purl.obolibrary.org/obo/SO_0100013 hydrophobic_region http://purl.obolibrary.org/obo/SO_0100013 sequence http://purl.obolibrary.org/obo/SO_0100013 hydropathic http://purl.obolibrary.org/obo/SO_0100013 hydrophobic region of peptide http://purl.obolibrary.org/obo/SO_0100013 hydrophobicity http://purl.obolibrary.org/obo/SO_0100013 SO:0100013 http://purl.obolibrary.org/obo/SO_0100013 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100013 Range. http://purl.obolibrary.org/obo/SO_0100013 hydrophobic_region_of_peptide EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100014 The amino-terminal positively-charged region of a signal peptide (approx 1-5 aa). http://purl.obolibrary.org/obo/SO_0100014 sequence http://purl.obolibrary.org/obo/SO_0100014 N-region http://purl.obolibrary.org/obo/SO_0100014 SO:0100014 http://purl.obolibrary.org/obo/SO_0100014 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100014 n_terminal_region EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100015 The more polar, carboxy-terminal region of the signal peptide (approx 3-7 aa). http://purl.obolibrary.org/obo/SO_0100015 sequence http://purl.obolibrary.org/obo/SO_0100015 C-region http://purl.obolibrary.org/obo/SO_0100015 SO:0100015 http://purl.obolibrary.org/obo/SO_0100015 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100015 c_terminal_region EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100016 The central, hydrophobic region of the signal peptide (approx 7-15 aa). http://purl.obolibrary.org/obo/SO_0100016 central hydrophobic region of signal peptide http://purl.obolibrary.org/obo/SO_0100016 sequence http://purl.obolibrary.org/obo/SO_0100016 H-region http://purl.obolibrary.org/obo/SO_0100016 central_hydrophobic_region http://purl.obolibrary.org/obo/SO_0100016 SO:0100016 http://purl.obolibrary.org/obo/SO_0100016 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100016 central_hydrophobic_region_of_signal_peptide EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100017 A conserved motif is a short (up to 20 amino acids) region of biological interest that is conserved in different proteins. They may or may not have functional or structural significance within the proteins in which they are found. http://purl.obolibrary.org/obo/SO_0100017 sequence http://purl.obolibrary.org/obo/SO_0100017 motif http://purl.obolibrary.org/obo/SO_0100017 SO:0100017 http://purl.obolibrary.org/obo/SO_0100017 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100017 polypeptide_conserved_motif EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100018 A polypeptide binding motif is a short (up to 20 amino acids) polypeptide region of biological interest that contains one or more amino acids experimentally shown to bind to a ligand. http://purl.obolibrary.org/obo/SO_0100018 polypeptide binding motif http://purl.obolibrary.org/obo/SO_0100018 sequence uniprot:feature_type http://purl.obolibrary.org/obo/SO_0100018 binding http://purl.obolibrary.org/obo/SO_0100018 SO:0100018 http://purl.obolibrary.org/obo/SO_0100018 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100018 polypeptide_binding_motif EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100019 A polypeptide catalytic motif is a short (up to 20 amino acids) polypeptide region that contains one or more active site residues. http://purl.obolibrary.org/obo/SO_0100019 polypeptide catalytic motif http://purl.obolibrary.org/obo/SO_0100019 sequence http://purl.obolibrary.org/obo/SO_0100019 catalytic_motif http://purl.obolibrary.org/obo/SO_0100019 SO:0100019 http://purl.obolibrary.org/obo/SO_0100019 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100019 polypeptide_catalytic_motif EBIBS:GAR SO:ke http://purl.obolibrary.org/obo/SO_0100020 A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with DNA. uniprot:feature http://purl.obolibrary.org/obo/so-xp.obo#BS http://purl.obolibrary.org/obo/SO_0100020 DNA_bind http://purl.obolibrary.org/obo/SO_0100020 polypeptide DNA contact http://purl.obolibrary.org/obo/SO_0100020 sequence http://purl.obolibrary.org/obo/SO_0100020 SO:0100020 http://purl.obolibrary.org/obo/SO_0100020 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100020 polypeptide_DNA_contact EBIBS:GAR http://purl.obolibrary.org/obo/SO_0100021 A subsection of sequence with biological interest that is conserved in different proteins. They may or may not have functional or structural significance within the proteins in which they are found. http://purl.obolibrary.org/obo/SO_0100021 polypeptide conserved region http://purl.obolibrary.org/obo/SO_0100021 sequence http://purl.obolibrary.org/obo/SO_0100021 SO:0100021 http://purl.obolibrary.org/obo/SO_0100021 http://purl.obolibrary.org/obo/so-xp.obo#biosapiens http://purl.obolibrary.org/obo/SO_0100021 polypeptide_conserved_region SO:ke http://purl.obolibrary.org/obo/SO_1000002 A sequence alteration where the length of the change in the variant is the same as that of the reference. Substitution http://purl.obolibrary.org/obo/SO_1000002 loinc:LA6690-7 http://purl.obolibrary.org/obo/SO_1000002 sequence http://purl.obolibrary.org/obo/SO_1000002 SO:1000002 http://purl.obolibrary.org/obo/SO_1000002 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_1000002 substitution EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000005 When no simple or well defined DNA mutation event describes the observed DNA change, the keyword "complex" should be used. Usually there are multiple equally plausible explanations for the change. http://purl.obolibrary.org/obo/SO_1000005 complex substitution http://purl.obolibrary.org/obo/SO_1000005 sequence http://purl.obolibrary.org/obo/SO_1000005 SO:1000005 http://purl.obolibrary.org/obo/SO_1000005 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_1000005 complex_substitution SO:immuno_workshop http://purl.obolibrary.org/obo/SO_1000008 A single nucleotide change which has occurred at the same position of a corresponding nucleotide in a reference sequence. wiki http://purl.obolibrary.org/obo/SO_1000008 http://en.wikipedia.org/wiki/Point_mutation http://purl.obolibrary.org/obo/SO_1000008 point mutation http://purl.obolibrary.org/obo/SO_1000008 sequence http://purl.obolibrary.org/obo/SO_1000008 SO:1000008 http://purl.obolibrary.org/obo/SO_1000008 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_1000008 point_mutation EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000009 Change of a pyrimidine nucleotide, C or T, into an other pyrimidine nucleotide, or change of a purine nucleotide, A or G, into an other purine nucleotide. http://purl.obolibrary.org/obo/SO_1000009 sequence http://purl.obolibrary.org/obo/SO_1000009 SO:1000009 http://purl.obolibrary.org/obo/SO_1000009 transition SO:ke http://purl.obolibrary.org/obo/SO_1000010 A substitution of a pyrimidine, C or T, for another pyrimidine. http://purl.obolibrary.org/obo/SO_1000010 pyrimidine transition http://purl.obolibrary.org/obo/SO_1000010 sequence http://purl.obolibrary.org/obo/SO_1000010 SO:1000010 http://purl.obolibrary.org/obo/SO_1000010 pyrimidine_transition SO:ke http://purl.obolibrary.org/obo/SO_1000011 A transition of a cytidine to a thymine. http://purl.obolibrary.org/obo/SO_1000011 C to T transition http://purl.obolibrary.org/obo/SO_1000011 sequence http://purl.obolibrary.org/obo/SO_1000011 SO:1000011 http://purl.obolibrary.org/obo/SO_1000011 C_to_T_transition EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000012 The transition of cytidine to thymine occurring at a pCpG site as a consequence of the spontaneous deamination of 5'-methylcytidine. http://purl.obolibrary.org/obo/SO_1000012 C to T transition at pCpG site http://purl.obolibrary.org/obo/SO_1000012 sequence http://purl.obolibrary.org/obo/SO_1000012 SO:1000012 http://purl.obolibrary.org/obo/SO_1000012 C_to_T_transition_at_pCpG_site http://purl.obolibrary.org/obo/SO_1000013 T to C transition http://purl.obolibrary.org/obo/SO_1000013 sequence http://purl.obolibrary.org/obo/SO_1000013 SO:1000013 http://purl.obolibrary.org/obo/SO_1000013 T_to_C_transition SO:ke http://purl.obolibrary.org/obo/SO_1000014 A substitution of a purine, A or G, for another purine. http://purl.obolibrary.org/obo/SO_1000014 purine transition http://purl.obolibrary.org/obo/SO_1000014 sequence http://purl.obolibrary.org/obo/SO_1000014 SO:1000014 http://purl.obolibrary.org/obo/SO_1000014 purine_transition SO:ke http://purl.obolibrary.org/obo/SO_1000015 A transition of an adenine to a guanine. http://purl.obolibrary.org/obo/SO_1000015 A to G transition http://purl.obolibrary.org/obo/SO_1000015 sequence http://purl.obolibrary.org/obo/SO_1000015 SO:1000015 http://purl.obolibrary.org/obo/SO_1000015 A_to_G_transition SO:ke http://purl.obolibrary.org/obo/SO_1000016 A transition of a guanine to an adenine. http://purl.obolibrary.org/obo/SO_1000016 G to A transition http://purl.obolibrary.org/obo/SO_1000016 sequence http://purl.obolibrary.org/obo/SO_1000016 SO:1000016 http://purl.obolibrary.org/obo/SO_1000016 G_to_A_transition EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000017 Change of a pyrimidine nucleotide, C or T, into a purine nucleotide, A or G, or vice versa. wiki http://purl.obolibrary.org/obo/SO_1000017 http://en.wikipedia.org/wiki/Transversion http://purl.obolibrary.org/obo/SO_1000017 sequence http://purl.obolibrary.org/obo/SO_1000017 SO:1000017 http://purl.obolibrary.org/obo/SO_1000017 transversion SO:ke http://purl.obolibrary.org/obo/SO_1000018 Change of a pyrimidine nucleotide, C or T, into a purine nucleotide, A or G. http://purl.obolibrary.org/obo/SO_1000018 pyrimidine to purine transversion http://purl.obolibrary.org/obo/SO_1000018 sequence http://purl.obolibrary.org/obo/SO_1000018 SO:1000018 http://purl.obolibrary.org/obo/SO_1000018 pyrimidine_to_purine_transversion SO:ke http://purl.obolibrary.org/obo/SO_1000019 A transversion from cytidine to adenine. http://purl.obolibrary.org/obo/SO_1000019 C to A transversion http://purl.obolibrary.org/obo/SO_1000019 sequence http://purl.obolibrary.org/obo/SO_1000019 SO:1000019 http://purl.obolibrary.org/obo/SO_1000019 C_to_A_transversion http://purl.obolibrary.org/obo/SO_1000020 C to G transversion http://purl.obolibrary.org/obo/SO_1000020 sequence http://purl.obolibrary.org/obo/SO_1000020 SO:1000020 http://purl.obolibrary.org/obo/SO_1000020 C_to_G_transversion SO:ke http://purl.obolibrary.org/obo/SO_1000021 A transversion from T to A. http://purl.obolibrary.org/obo/SO_1000021 T to A transversion http://purl.obolibrary.org/obo/SO_1000021 sequence http://purl.obolibrary.org/obo/SO_1000021 SO:1000021 http://purl.obolibrary.org/obo/SO_1000021 T_to_A_transversion SO:ke http://purl.obolibrary.org/obo/SO_1000022 A transversion from T to G. http://purl.obolibrary.org/obo/SO_1000022 T to G transversion http://purl.obolibrary.org/obo/SO_1000022 sequence http://purl.obolibrary.org/obo/SO_1000022 SO:1000022 http://purl.obolibrary.org/obo/SO_1000022 T_to_G_transversion SO:ke http://purl.obolibrary.org/obo/SO_1000023 Change of a purine nucleotide, A or G , into a pyrimidine nucleotide C or T. http://purl.obolibrary.org/obo/SO_1000023 purine to pyrimidine transversion http://purl.obolibrary.org/obo/SO_1000023 sequence http://purl.obolibrary.org/obo/SO_1000023 SO:1000023 http://purl.obolibrary.org/obo/SO_1000023 purine_to_pyrimidine_transversion SO:ke http://purl.obolibrary.org/obo/SO_1000024 A transversion from adenine to cytidine. http://purl.obolibrary.org/obo/SO_1000024 A to C transversion http://purl.obolibrary.org/obo/SO_1000024 sequence http://purl.obolibrary.org/obo/SO_1000024 SO:1000024 http://purl.obolibrary.org/obo/SO_1000024 A_to_C_transversion SO:ke http://purl.obolibrary.org/obo/SO_1000025 A transversion from adenine to thymine. http://purl.obolibrary.org/obo/SO_1000025 A to T transversion http://purl.obolibrary.org/obo/SO_1000025 sequence http://purl.obolibrary.org/obo/SO_1000025 SO:1000025 http://purl.obolibrary.org/obo/SO_1000025 A_to_T_transversion SO:ke http://purl.obolibrary.org/obo/SO_1000026 A transversion from guanine to cytidine. http://purl.obolibrary.org/obo/SO_1000026 G to C transversion http://purl.obolibrary.org/obo/SO_1000026 sequence http://purl.obolibrary.org/obo/SO_1000026 SO:1000026 http://purl.obolibrary.org/obo/SO_1000026 G_to_C_transversion SO:ke http://purl.obolibrary.org/obo/SO_1000027 A transversion from guanine to thymine. http://purl.obolibrary.org/obo/SO_1000027 G to T transversion http://purl.obolibrary.org/obo/SO_1000027 sequence http://purl.obolibrary.org/obo/SO_1000027 SO:1000027 http://purl.obolibrary.org/obo/SO_1000027 G_to_T_transversion SO:ke http://purl.obolibrary.org/obo/SO_1000028 A chromosomal structure variation within a single chromosome. http://purl.obolibrary.org/obo/SO_1000028 intrachromosomal mutation http://purl.obolibrary.org/obo/SO_1000028 sequence http://purl.obolibrary.org/obo/SO_1000028 SO:1000028 http://purl.obolibrary.org/obo/SO_1000028 intrachromosomal_mutation SO:ke http://purl.obolibrary.org/obo/SO_1000029 An incomplete chromosome. wiki http://purl.obolibrary.org/obo/SO_1000029 http://en.wikipedia.org/wiki/Chromosomal_deletion http://purl.obolibrary.org/obo/SO_1000029 chromosomal deletion http://purl.obolibrary.org/obo/SO_1000029 deficiency http://purl.obolibrary.org/obo/SO_1000029 sequence http://purl.obolibrary.org/obo/SO_1000029 (Drosophila)Df http://purl.obolibrary.org/obo/SO_1000029 (bacteria)&ampDgr; http://purl.obolibrary.org/obo/SO_1000029 (fungi)D http://purl.obolibrary.org/obo/SO_1000029 SO:1000029 http://purl.obolibrary.org/obo/SO_1000029 chromosomal_deletion SO:ke http://purl.obolibrary.org/obo/SO_1000030 An interchromosomal mutation where a region of the chromosome is inverted with respect to wild type. wiki http://purl.obolibrary.org/obo/SO_1000030 http://en.wikipedia.org/wiki/Chromosomal_inversion http://purl.obolibrary.org/obo/SO_1000030 chromosomal inversion http://purl.obolibrary.org/obo/SO_1000030 sequence http://purl.obolibrary.org/obo/SO_1000030 (Drosophila)In http://purl.obolibrary.org/obo/SO_1000030 (bacteria)IN http://purl.obolibrary.org/obo/SO_1000030 (fungi)In http://purl.obolibrary.org/obo/SO_1000030 SO:1000030 http://purl.obolibrary.org/obo/SO_1000030 chromosomal_inversion SO:ke http://purl.obolibrary.org/obo/SO_1000031 A chromosomal structure variation whereby more than one chromosome is involved. http://purl.obolibrary.org/obo/SO_1000031 interchromosomal mutation http://purl.obolibrary.org/obo/SO_1000031 sequence http://purl.obolibrary.org/obo/SO_1000031 SO:1000031 http://purl.obolibrary.org/obo/SO_1000031 interchromosomal_mutation EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http:http://www.hgvs.org/mutnomen/recs-DNA.html#indel http://purl.obolibrary.org/obo/SO_1000032 A sequence alteration which included an insertion and a deletion, affecting 2 or more bases. wiki http://purl.obolibrary.org/obo/SO_1000032 http://en.wikipedia.org/wiki/Indel Insertion and Deletion http://purl.obolibrary.org/obo/SO_1000032 loinc:LA9659-9 http://purl.obolibrary.org/obo/SO_1000032 sequence http://purl.obolibrary.org/obo/SO_1000032 SO:1000032 http://purl.obolibrary.org/obo/SO_1000032 Indels can have a different number of bases than the corresponding reference sequence. http://purl.obolibrary.org/obo/SO_1000032 indel EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html NCBI:th http://purl.obolibrary.org/obo/SO_1000035 An insertion which derives from, or is identical in sequence to, nucleotides present at a known location in the genome. Duplication http://purl.obolibrary.org/obo/SO_1000035 loinc:LA6686-5 http://purl.obolibrary.org/obo/SO_1000035 nucleotide duplication http://purl.obolibrary.org/obo/SO_1000035 sequence http://purl.obolibrary.org/obo/SO_1000035 nucleotide_duplication http://purl.obolibrary.org/obo/SO_1000035 SO:1000035 http://purl.obolibrary.org/obo/SO_1000035 duplication EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000036 A continuous nucleotide sequence is inverted in the same position. Inversion http://purl.obolibrary.org/obo/SO_1000036 loinc:LA6689-9 http://www.ncbi.nlm.nih.gov/dbvar/ http://purl.obolibrary.org/obo/so-xp.obo#dbvar http://purl.obolibrary.org/obo/SO_1000036 inversion http://purl.obolibrary.org/obo/SO_1000036 sequence http://purl.obolibrary.org/obo/SO_1000036 SO:1000036 http://purl.obolibrary.org/obo/SO_1000036 http://purl.obolibrary.org/obo/so-xp.obo#DBVAR http://purl.obolibrary.org/obo/SO_1000036 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_1000036 inversion SO:ke http://purl.obolibrary.org/obo/SO_1000037 An extra chromosome. wiki http://purl.obolibrary.org/obo/SO_1000037 http://en.wikipedia.org/wiki/Chromosomal_duplication http://purl.obolibrary.org/obo/SO_1000037 chromosomal duplication http://purl.obolibrary.org/obo/SO_1000037 sequence http://purl.obolibrary.org/obo/SO_1000037 (Drosophila)Dp http://purl.obolibrary.org/obo/SO_1000037 (fungi)Dp http://purl.obolibrary.org/obo/SO_1000037 SO:1000037 http://purl.obolibrary.org/obo/SO_1000037 chromosomal_duplication SO:ke http://purl.obolibrary.org/obo/SO_1000038 A duplication that occurred within a chromosome. http://purl.obolibrary.org/obo/SO_1000038 intrachromosomal duplication http://purl.obolibrary.org/obo/SO_1000038 sequence http://purl.obolibrary.org/obo/SO_1000038 SO:1000038 http://purl.obolibrary.org/obo/SO_1000038 intrachromosomal_duplication SO:ke http://purl.obolibrary.org/obo/SO_1000039 A tandem duplication where the individual regions are in the same orientation. http://purl.obolibrary.org/obo/SO_1000039 direct tandem duplication http://purl.obolibrary.org/obo/SO_1000039 sequence http://purl.obolibrary.org/obo/SO_1000039 SO:1000039 http://purl.obolibrary.org/obo/SO_1000039 direct_tandem_duplication SO:ke http://purl.obolibrary.org/obo/SO_1000040 A tandem duplication where the individual regions are not in the same orientation. http://purl.obolibrary.org/obo/SO_1000040 inverted tandem duplication http://purl.obolibrary.org/obo/SO_1000040 sequence http://purl.obolibrary.org/obo/SO_1000040 mirror duplication http://purl.obolibrary.org/obo/SO_1000040 SO:1000040 http://purl.obolibrary.org/obo/SO_1000040 inverted_tandem_duplication SO:ke http://purl.obolibrary.org/obo/SO_1000041 A chromosome structure variation whereby a transposition occurred within a chromosome. http://purl.obolibrary.org/obo/SO_1000041 intrachromosomal transposition http://purl.obolibrary.org/obo/SO_1000041 sequence http://purl.obolibrary.org/obo/SO_1000041 (Drosophila)Tp http://purl.obolibrary.org/obo/SO_1000041 SO:1000041 http://purl.obolibrary.org/obo/SO_1000041 intrachromosomal_transposition SO:ke http://purl.obolibrary.org/obo/SO_1000042 A chromosome structure variant where a monocentric element is caused by the fusion of two chromosome arms. http://purl.obolibrary.org/obo/SO_1000042 compound chromosome http://purl.obolibrary.org/obo/SO_1000042 sequence http://purl.obolibrary.org/obo/SO_1000042 SO:1000042 http://purl.obolibrary.org/obo/SO_1000042 compound_chromosome http://en.wikipedia.org/wiki/Robertsonian_translocation http://purl.obolibrary.org/obo/SO_1000043 A non reciprocal translocation whereby the participating chromosomes break at their centromeres and the long arms fuse to form a single chromosome with a single centromere. wiki http://purl.obolibrary.org/obo/SO_1000043 http://en.wikipedia.org/wiki/Robertsonian_fusion http://purl.obolibrary.org/obo/SO_1000043 Robertsonian fusion http://purl.obolibrary.org/obo/SO_1000043 centric-fusion translocations http://purl.obolibrary.org/obo/SO_1000043 whole-arm translocations http://purl.obolibrary.org/obo/SO_1000043 sequence http://purl.obolibrary.org/obo/SO_1000043 SO:1000043 http://purl.obolibrary.org/obo/SO_1000043 Robertsonian_fusion FB:reference_manual http://purl.obolibrary.org/obo/SO_1000044 A chromosomal mutation. Rearrangements that alter the pairing of telomeres are classified as translocations. wiki http://purl.obolibrary.org/obo/SO_1000044 http://en.wikipedia.org/wiki/Chromosomal_translocation http://purl.obolibrary.org/obo/SO_1000044 chromosomal translocation http://purl.obolibrary.org/obo/SO_1000044 sequence http://purl.obolibrary.org/obo/SO_1000044 (Drosophila)T http://purl.obolibrary.org/obo/SO_1000044 (fungi)T http://purl.obolibrary.org/obo/SO_1000044 SO:1000044 http://purl.obolibrary.org/obo/SO_1000044 chromosomal_translocation http://en.wikipedia.org/wiki/Ring_chromosome http://purl.obolibrary.org/obo/SO_1000045 A ring chromosome is a chromosome whose arms have fused together to form a ring, often with the loss of the ends of the chromosome. wiki http://purl.obolibrary.org/obo/SO_1000045 http://en.wikipedia.org/wiki/Ring_chromosome http://purl.obolibrary.org/obo/SO_1000045 ring chromosome http://purl.obolibrary.org/obo/SO_1000045 sequence http://purl.obolibrary.org/obo/SO_1000045 (Drosophila)R http://purl.obolibrary.org/obo/SO_1000045 (fungi)C http://purl.obolibrary.org/obo/SO_1000045 SO:1000045 http://purl.obolibrary.org/obo/SO_1000045 ring_chromosome FB:reference_manual http://purl.obolibrary.org/obo/SO_1000046 A chromosomal inversion that includes the centromere. http://purl.obolibrary.org/obo/SO_1000046 pericentric inversion http://purl.obolibrary.org/obo/SO_1000046 sequence http://purl.obolibrary.org/obo/SO_1000046 SO:1000046 http://purl.obolibrary.org/obo/SO_1000046 pericentric_inversion FB:reference_manual http://purl.obolibrary.org/obo/SO_1000047 A chromosomal inversion that does not include the centromere. http://purl.obolibrary.org/obo/SO_1000047 paracentric inversion http://purl.obolibrary.org/obo/SO_1000047 sequence http://purl.obolibrary.org/obo/SO_1000047 SO:1000047 http://purl.obolibrary.org/obo/SO_1000047 paracentric_inversion FB:reference_manual http://purl.obolibrary.org/obo/SO_1000048 A chromosomal translocation with two breaks; two chromosome segments have simply been exchanged. http://purl.obolibrary.org/obo/SO_1000048 reciprocal chromosomal translocation http://purl.obolibrary.org/obo/SO_1000048 sequence http://purl.obolibrary.org/obo/SO_1000048 SO:1000048 http://purl.obolibrary.org/obo/SO_1000048 reciprocal_chromosomal_translocation EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000049 Any change in mature, spliced and processed, RNA that results from a change in the corresponding DNA sequence. http://purl.obolibrary.org/obo/SO_1000049 SO:0001576 http://purl.obolibrary.org/obo/SO_1000049 SO:1000177 http://purl.obolibrary.org/obo/SO_1000049 SO:1000179 http://purl.obolibrary.org/obo/SO_1000049 mutation affecting transcript http://purl.obolibrary.org/obo/SO_1000049 sequence variant causing partially characterised change in transcript http://purl.obolibrary.org/obo/SO_1000049 sequence variant causing uncharacterised change in transcript http://purl.obolibrary.org/obo/SO_1000049 sequence variation affecting transcript http://purl.obolibrary.org/obo/SO_1000049 sequence_variant_causing_partially_characterised_change_in_transcript http://purl.obolibrary.org/obo/SO_1000049 sequence_variant_causing_uncharacterised_change_in_transcript http://purl.obolibrary.org/obo/SO_1000049 sequence http://purl.obolibrary.org/obo/SO_1000049 mutation causing partially characterised change in transcript http://purl.obolibrary.org/obo/SO_1000049 mutation causing uncharacterised change in transcript http://purl.obolibrary.org/obo/SO_1000049 SO:1000049 http://purl.obolibrary.org/obo/SO_1000049 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000049 sequence_variation_affecting_transcript http://purl.obolibrary.org/obo/SO_1000049 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000050 No effect on the state of the RNA. http://purl.obolibrary.org/obo/SO_1000050 sequence variant causing no change in transcript http://purl.obolibrary.org/obo/SO_1000050 sequence http://purl.obolibrary.org/obo/SO_1000050 mutation causing no change in transcript http://purl.obolibrary.org/obo/SO_1000050 SO:1000050 http://purl.obolibrary.org/obo/SO_1000050 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. Also as there is not change, it is not a good ontological term. http://purl.obolibrary.org/obo/SO_1000050 sequence_variant_causing_no_change_in_transcript http://purl.obolibrary.org/obo/SO_1000050 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000054 Any of the amino acid coding triplets of a gene are affected by the DNA mutation. http://purl.obolibrary.org/obo/SO_1000054 SO:0001580 http://purl.obolibrary.org/obo/SO_1000054 mutation affecting coding sequence http://purl.obolibrary.org/obo/SO_1000054 sequence http://purl.obolibrary.org/obo/SO_1000054 sequence variation affecting coding sequence http://purl.obolibrary.org/obo/SO_1000054 SO:1000054 http://purl.obolibrary.org/obo/SO_1000054 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000054 sequence_variation_affecting_coding_sequence http://purl.obolibrary.org/obo/SO_1000054 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000055 The DNA mutation changes, usually destroys, the first coding triplet of a gene. Usually prevents translation although another initiator codon may be used. http://purl.obolibrary.org/obo/SO_1000055 SO:0001582 http://purl.obolibrary.org/obo/SO_1000055 sequence variant causing initiator codon change in transcript http://purl.obolibrary.org/obo/SO_1000055 sequence http://purl.obolibrary.org/obo/SO_1000055 mutation causing initiator codon change in transcript http://purl.obolibrary.org/obo/SO_1000055 SO:1000055 http://purl.obolibrary.org/obo/SO_1000055 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000055 sequence_variant_causing_initiator_codon_change_in_transcript http://purl.obolibrary.org/obo/SO_1000055 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000056 The DNA mutation affects the amino acid coding sequence of a gene; this region includes both the initiator and terminator codons. http://purl.obolibrary.org/obo/SO_1000056 SO:0001606 http://purl.obolibrary.org/obo/SO_1000056 sequence variant causing amino acid coding codon change in transcript http://purl.obolibrary.org/obo/SO_1000056 sequence http://purl.obolibrary.org/obo/SO_1000056 mutaton causing amino acid coding codon change in transcript http://purl.obolibrary.org/obo/SO_1000056 SO:1000056 http://purl.obolibrary.org/obo/SO_1000056 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000056 sequence_variant_causing_amino_acid_coding_codon_change_in_transcript http://purl.obolibrary.org/obo/SO_1000056 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000057 The changed codon has the same translation product as the original codon. http://purl.obolibrary.org/obo/SO_1000057 SO:0001819 http://purl.obolibrary.org/obo/SO_1000057 sequence variant causing synonymous codon change in transcript http://purl.obolibrary.org/obo/SO_1000057 sequence http://purl.obolibrary.org/obo/SO_1000057 mutation causing synonymous codon change in transcript http://purl.obolibrary.org/obo/SO_1000057 SO:1000057 http://purl.obolibrary.org/obo/SO_1000057 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000057 sequence_variant_causing_synonymous_codon_change_in_transcript http://purl.obolibrary.org/obo/SO_1000057 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000058 A DNA point mutation that causes a substitution of an amino acid by an other. http://purl.obolibrary.org/obo/SO_1000058 SO:0001583 http://purl.obolibrary.org/obo/SO_1000058 non-synonymous codon change in transcript http://purl.obolibrary.org/obo/SO_1000058 sequence variant causing non synonymous codon change in transcript http://purl.obolibrary.org/obo/SO_1000058 sequence http://purl.obolibrary.org/obo/SO_1000058 mutation causing non synonymous codon change in transcript http://purl.obolibrary.org/obo/SO_1000058 SO:1000058 http://purl.obolibrary.org/obo/SO_1000058 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000058 sequence_variant_causing_non_synonymous_codon_change_in_transcript http://purl.obolibrary.org/obo/SO_1000058 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000059 The nucleotide change in the codon leads to a new codon coding for a new amino acid. http://purl.obolibrary.org/obo/SO_1000059 SO:0001583 http://purl.obolibrary.org/obo/SO_1000059 sequence variant causing missense codon change in transcript http://purl.obolibrary.org/obo/SO_1000059 sequence http://purl.obolibrary.org/obo/SO_1000059 mutation causing missense codon change in transcript http://purl.obolibrary.org/obo/SO_1000059 SO:1000059 http://purl.obolibrary.org/obo/SO_1000059 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000059 sequence_variant_causing_missense_codon_change_in_transcript http://purl.obolibrary.org/obo/SO_1000059 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000060 The amino acid change following from the codon change does not change the gross properties (size, charge, hydrophobicity) of the amino acid at that position. http://purl.obolibrary.org/obo/SO_1000060 SO:0001585 http://purl.obolibrary.org/obo/SO_1000060 sequence variant causing conservative missense codon change in transcript http://purl.obolibrary.org/obo/SO_1000060 sequence http://purl.obolibrary.org/obo/SO_1000060 mutation causing conservative missense codon change in transcript http://purl.obolibrary.org/obo/SO_1000060 SO:1000060 http://purl.obolibrary.org/obo/SO_1000060 The exact rules need to be stated, a common set of rules can be derived from e.g. BLOSUM62 amino acid distance matrix. http://purl.obolibrary.org/obo/SO_1000060 sequence_variant_causing_conservative_missense_codon_change_in_transcript http://purl.obolibrary.org/obo/SO_1000060 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000061 The amino acid change following from the codon change changes the gross properties (size, charge, hydrophobicity) of the amino acid in that position. http://purl.obolibrary.org/obo/SO_1000061 SO:0001586 http://purl.obolibrary.org/obo/SO_1000061 sequence variant causing nonconservative missense codon change in transcript http://purl.obolibrary.org/obo/SO_1000061 sequence http://purl.obolibrary.org/obo/SO_1000061 mutation causing nonconservative missense codon change in transcript http://purl.obolibrary.org/obo/SO_1000061 SO:1000061 http://purl.obolibrary.org/obo/SO_1000061 The exact rules need to be stated, a common set of rules can be derived from e.g. BLOSUM62 amino acid distance matrix. http://purl.obolibrary.org/obo/SO_1000061 sequence_variant_causing_nonconservative_missense_codon_change_in_transcript http://purl.obolibrary.org/obo/SO_1000061 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000062 The nucleotide change in the codon triplet creates a terminator codon. http://purl.obolibrary.org/obo/SO_1000062 SO:0001587 http://purl.obolibrary.org/obo/SO_1000062 sequence variant causing nonsense codon change in transcript http://purl.obolibrary.org/obo/SO_1000062 sequence http://purl.obolibrary.org/obo/SO_1000062 mutation causing nonsense codon change in transcript http://purl.obolibrary.org/obo/SO_1000062 SO:1000062 http://purl.obolibrary.org/obo/SO_1000062 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000062 sequence_variant_causing_nonsense_codon_change_in_transcript http://purl.obolibrary.org/obo/SO_1000062 true SO:ke http://purl.obolibrary.org/obo/SO_1000063 The nucleotide change in the codon triplet changes the stop codon, causing an elongated transcript sequence. http://purl.obolibrary.org/obo/SO_1000063 SO:0001590 http://purl.obolibrary.org/obo/SO_1000063 sequence variant causing terminator codon change in transcript http://purl.obolibrary.org/obo/SO_1000063 sequence http://purl.obolibrary.org/obo/SO_1000063 mutation causing terminator codon change in transcript http://purl.obolibrary.org/obo/SO_1000063 SO:1000063 http://purl.obolibrary.org/obo/SO_1000063 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000063 sequence_variant_causing_terminator_codon_change_in_transcript http://purl.obolibrary.org/obo/SO_1000063 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000064 An umbrella term for terms describing an effect of a sequence variation on the frame of translation. http://purl.obolibrary.org/obo/SO_1000064 mutation affecting reading frame http://purl.obolibrary.org/obo/SO_1000064 sequence http://purl.obolibrary.org/obo/SO_1000064 sequence variation affecting reading frame http://purl.obolibrary.org/obo/SO_1000064 SO:1000064 http://purl.obolibrary.org/obo/SO_1000064 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000064 sequence_variation_affecting_reading_frame http://purl.obolibrary.org/obo/SO_1000064 true SO:ke http://purl.obolibrary.org/obo/SO_1000065 A mutation causing a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three. wiki http://purl.obolibrary.org/obo/SO_1000065 http://en.wikipedia.org/wiki/Frameshift_mutation http://purl.obolibrary.org/obo/SO_1000065 frameshift mutation http://purl.obolibrary.org/obo/SO_1000065 sequence http://purl.obolibrary.org/obo/SO_1000065 frameshift sequence variation http://purl.obolibrary.org/obo/SO_1000065 out of frame mutation http://purl.obolibrary.org/obo/SO_1000065 SO:1000065 http://purl.obolibrary.org/obo/SO_1000065 frameshift_sequence_variation http://purl.obolibrary.org/obo/SO_1000065 true SO:ke http://purl.obolibrary.org/obo/SO_1000066 A mutation causing a disruption of the translational reading frame, due to the insertion of a nucleotide. http://purl.obolibrary.org/obo/SO_1000066 SO:0001594 http://purl.obolibrary.org/obo/SO_1000066 plus 1 frameshift mutation http://purl.obolibrary.org/obo/SO_1000066 sequence variant causing plus 1 frameshift mutation http://purl.obolibrary.org/obo/SO_1000066 sequence http://purl.obolibrary.org/obo/SO_1000066 SO:1000066 http://purl.obolibrary.org/obo/SO_1000066 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000066 sequence_variant_causing_plus_1_frameshift_mutation http://purl.obolibrary.org/obo/SO_1000066 true SO:ke http://purl.obolibrary.org/obo/SO_1000067 A mutation causing a disruption of the translational reading frame, due to the deletion of a nucleotide. http://purl.obolibrary.org/obo/SO_1000067 SO:0001592 http://purl.obolibrary.org/obo/SO_1000067 minus 1 frameshift mutation http://purl.obolibrary.org/obo/SO_1000067 sequence variant causing minus 1 frameshift http://purl.obolibrary.org/obo/SO_1000067 sequence http://purl.obolibrary.org/obo/SO_1000067 SO:1000067 http://purl.obolibrary.org/obo/SO_1000067 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000067 sequence_variant_causing_minus_1_frameshift http://purl.obolibrary.org/obo/SO_1000067 true SO:ke http://purl.obolibrary.org/obo/SO_1000068 A mutation causing a disruption of the translational reading frame, due to the insertion of two nucleotides. http://purl.obolibrary.org/obo/SO_1000068 SO:0001595 http://purl.obolibrary.org/obo/SO_1000068 plus 2 frameshift mutation http://purl.obolibrary.org/obo/SO_1000068 sequence variant causing plus 2 frameshift http://purl.obolibrary.org/obo/SO_1000068 sequence http://purl.obolibrary.org/obo/SO_1000068 SO:1000068 http://purl.obolibrary.org/obo/SO_1000068 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000068 sequence_variant_causing_plus_2_frameshift http://purl.obolibrary.org/obo/SO_1000068 true SO:ke http://purl.obolibrary.org/obo/SO_1000069 A mutation causing a disruption of the translational reading frame, due to the deletion of two nucleotides. http://purl.obolibrary.org/obo/SO_1000069 SO:0001593 http://purl.obolibrary.org/obo/SO_1000069 minus 2 frameshift mutation http://purl.obolibrary.org/obo/SO_1000069 sequence variant causing minus 2 frameshift http://purl.obolibrary.org/obo/SO_1000069 sequence http://purl.obolibrary.org/obo/SO_1000069 SO:1000069 http://purl.obolibrary.org/obo/SO_1000069 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000069 sequence_variant_causing_minus_2_frameshift http://purl.obolibrary.org/obo/SO_1000069 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000070 Sequence variant affects the way in which the primary transcriptional product is processed to form the mature transcript. http://purl.obolibrary.org/obo/SO_1000070 SO:0001543 http://purl.obolibrary.org/obo/SO_1000070 sequence variant affecting transcript processing http://purl.obolibrary.org/obo/SO_1000070 sequence http://purl.obolibrary.org/obo/SO_1000070 mutation affecting transcript processing http://purl.obolibrary.org/obo/SO_1000070 SO:1000070 http://purl.obolibrary.org/obo/SO_1000070 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000070 sequence_variant_affecting_transcript_processing http://purl.obolibrary.org/obo/SO_1000070 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000071 A sequence_variant_effect where the way in which the primary transcriptional product is processed to form the mature transcript, specifically by the removal (splicing) of intron sequences is changed. http://purl.obolibrary.org/obo/SO_1000071 SO:0001568 http://purl.obolibrary.org/obo/SO_1000071 sequence variant affecting splicing http://purl.obolibrary.org/obo/SO_1000071 sequence http://purl.obolibrary.org/obo/SO_1000071 mutation affecting splicing http://purl.obolibrary.org/obo/SO_1000071 SO:1000071 http://purl.obolibrary.org/obo/SO_1000071 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000071 sequence_variant_affecting_splicing http://purl.obolibrary.org/obo/SO_1000071 true SO:ke http://purl.obolibrary.org/obo/SO_1000072 A sequence_variant_effect that changes the splice donor sequence. http://purl.obolibrary.org/obo/SO_1000072 SO:0001575 http://purl.obolibrary.org/obo/SO_1000072 splice donor mutation http://purl.obolibrary.org/obo/SO_1000072 sequence http://purl.obolibrary.org/obo/SO_1000072 mutation affecting splice donor http://purl.obolibrary.org/obo/SO_1000072 sequence variant affecting splice donor http://purl.obolibrary.org/obo/SO_1000072 SO:1000072 http://purl.obolibrary.org/obo/SO_1000072 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000072 sequence_variant_affecting_splice_donor http://purl.obolibrary.org/obo/SO_1000072 true SO:ke http://purl.obolibrary.org/obo/SO_1000073 A sequence_variant_effect that changes the splice acceptor sequence. http://purl.obolibrary.org/obo/SO_1000073 SO:0001574 http://purl.obolibrary.org/obo/SO_1000073 splice acceptor mutation http://purl.obolibrary.org/obo/SO_1000073 sequence http://purl.obolibrary.org/obo/SO_1000073 mutation affecting splicing http://purl.obolibrary.org/obo/SO_1000073 sequence variant affecting splice acceptor http://purl.obolibrary.org/obo/SO_1000073 SO:1000073 http://purl.obolibrary.org/obo/SO_1000073 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000073 sequence_variant_affecting_splice_acceptor http://purl.obolibrary.org/obo/SO_1000073 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000074 A sequence variant causing a new (functional) splice site. http://purl.obolibrary.org/obo/SO_1000074 SO:0001569 http://purl.obolibrary.org/obo/SO_1000074 cryptic splice activator sequence variant http://purl.obolibrary.org/obo/SO_1000074 sequence variant causing cryptic splice activator http://purl.obolibrary.org/obo/SO_1000074 sequence http://purl.obolibrary.org/obo/SO_1000074 mutation causing cryptic splice activator http://purl.obolibrary.org/obo/SO_1000074 SO:1000074 http://purl.obolibrary.org/obo/SO_1000074 A cryptic splice site is only used when the natural splice site has been disrupted by a sequence alteration. http://purl.obolibrary.org/obo/SO_1000074 sequence_variant_causing_cryptic_splice_activation http://purl.obolibrary.org/obo/SO_1000074 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000075 Sequence variant affects the editing of the transcript. http://purl.obolibrary.org/obo/SO_1000075 SO:0001544 http://purl.obolibrary.org/obo/SO_1000075 sequence variant affecting editing http://purl.obolibrary.org/obo/SO_1000075 sequence http://purl.obolibrary.org/obo/SO_1000075 mutation affecting editing http://purl.obolibrary.org/obo/SO_1000075 SO:1000075 http://purl.obolibrary.org/obo/SO_1000075 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000075 sequence_variant_affecting_editing http://purl.obolibrary.org/obo/SO_1000075 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000076 Mutation affects the process of transcription, its initiation, progression or termination. http://purl.obolibrary.org/obo/SO_1000076 SO:0001549 http://purl.obolibrary.org/obo/SO_1000076 sequence variant affecting transcription http://purl.obolibrary.org/obo/SO_1000076 sequence http://purl.obolibrary.org/obo/SO_1000076 mutation affecting transcription http://purl.obolibrary.org/obo/SO_1000076 SO:1000076 http://purl.obolibrary.org/obo/SO_1000076 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000076 sequence_variant_affecting_transcription http://purl.obolibrary.org/obo/SO_1000076 true SO:ke http://purl.obolibrary.org/obo/SO_1000078 A sequence variation that decreases the rate a which transcription of the sequence occurs. http://purl.obolibrary.org/obo/SO_1000078 sequence variation decreasing rate of transcription http://purl.obolibrary.org/obo/SO_1000078 sequence http://purl.obolibrary.org/obo/SO_1000078 mutation decreasing rate of transcription http://purl.obolibrary.org/obo/SO_1000078 SO:1000078 http://purl.obolibrary.org/obo/SO_1000078 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000078 sequence_variant_decreasing_rate_of_transcription http://purl.obolibrary.org/obo/SO_1000078 true http://purl.obolibrary.org/obo/SO_1000079 mutation affecting transcript sequence http://purl.obolibrary.org/obo/SO_1000079 sequence variation affecting transcript sequence http://purl.obolibrary.org/obo/SO_1000079 sequence http://purl.obolibrary.org/obo/SO_1000079 SO:1000079 http://purl.obolibrary.org/obo/SO_1000079 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000079 sequence_variation_affecting_transcript_sequence http://purl.obolibrary.org/obo/SO_1000079 true http://purl.obolibrary.org/obo/SO_1000080 sequence variation increasing rate of transcription http://purl.obolibrary.org/obo/SO_1000080 sequence http://purl.obolibrary.org/obo/SO_1000080 mutation increasing rate of transcription http://purl.obolibrary.org/obo/SO_1000080 SO:1000080 http://purl.obolibrary.org/obo/SO_1000080 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000080 sequence_variant_increasing_rate_of_transcription http://purl.obolibrary.org/obo/SO_1000080 true SO:ke http://purl.obolibrary.org/obo/SO_1000081 A mutation that alters the rate a which transcription of the sequence occurs. http://purl.obolibrary.org/obo/SO_1000081 SO:0001550 http://purl.obolibrary.org/obo/SO_1000081 sequence variant affecting rate of transcription http://purl.obolibrary.org/obo/SO_1000081 sequence http://purl.obolibrary.org/obo/SO_1000081 mutation affecting rate of transcription http://purl.obolibrary.org/obo/SO_1000081 SO:1000081 http://purl.obolibrary.org/obo/SO_1000081 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000081 sequence_variant_affecting_rate_of_transcription http://purl.obolibrary.org/obo/SO_1000081 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000082 Sequence variant affects the stability of the transcript. http://purl.obolibrary.org/obo/SO_1000082 SO:0001546 http://purl.obolibrary.org/obo/SO_1000082 sequence variant affecting transcript stability http://purl.obolibrary.org/obo/SO_1000082 sequence http://purl.obolibrary.org/obo/SO_1000082 mutation affecting transcript stability http://purl.obolibrary.org/obo/SO_1000082 SO:1000082 http://purl.obolibrary.org/obo/SO_1000082 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000082 sequence variant_affecting_transcript_stability http://purl.obolibrary.org/obo/SO_1000082 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000083 Sequence variant increases the stability (half-life) of the transcript. http://purl.obolibrary.org/obo/SO_1000083 sequence variant increasing transcript stability http://purl.obolibrary.org/obo/SO_1000083 sequence http://purl.obolibrary.org/obo/SO_1000083 mutation increasing transcript stability http://purl.obolibrary.org/obo/SO_1000083 SO:1000083 http://purl.obolibrary.org/obo/SO_1000083 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000083 sequence_variant_increasing_transcript_stability http://purl.obolibrary.org/obo/SO_1000083 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000084 Sequence variant decreases the stability (half-life) of the transcript. http://purl.obolibrary.org/obo/SO_1000084 sequence variant decreasing transcript stability http://purl.obolibrary.org/obo/SO_1000084 sequence http://purl.obolibrary.org/obo/SO_1000084 mutation decreasing transcript stability http://purl.obolibrary.org/obo/SO_1000084 SO:1000084 http://purl.obolibrary.org/obo/SO_1000084 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000084 sequence_variant_decreasing_transcript_stability http://purl.obolibrary.org/obo/SO_1000084 true SO:ke http://purl.obolibrary.org/obo/SO_1000085 A sequence variation that causes a change in the level of mature, spliced and processed RNA, resulting from a change in the corresponding DNA sequence. http://purl.obolibrary.org/obo/SO_1000085 SO:0001540 http://purl.obolibrary.org/obo/SO_1000085 sequence variation affecting level of transcript http://purl.obolibrary.org/obo/SO_1000085 sequence http://purl.obolibrary.org/obo/SO_1000085 mutation affecting level of transcript http://purl.obolibrary.org/obo/SO_1000085 SO:1000085 http://purl.obolibrary.org/obo/SO_1000085 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000085 sequence_variation_affecting_level_of_transcript http://purl.obolibrary.org/obo/SO_1000085 true SO:ke http://purl.obolibrary.org/obo/SO_1000086 A sequence variation that causes a decrease in the level of mature, spliced and processed RNA, resulting from a change in the corresponding DNA sequence. http://purl.obolibrary.org/obo/SO_1000086 mutation decreasing level of transcript http://purl.obolibrary.org/obo/SO_1000086 sequence http://purl.obolibrary.org/obo/SO_1000086 sequence variation decreasing level of transcript http://purl.obolibrary.org/obo/SO_1000086 SO:1000086 http://purl.obolibrary.org/obo/SO_1000086 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000086 sequence_variation_decreasing_level_of_transcript http://purl.obolibrary.org/obo/SO_1000086 true SO:ke http://purl.obolibrary.org/obo/SO_1000087 A sequence_variation that causes an increase in the level of mature, spliced and processed RNA, resulting from a change in the corresponding DNA sequence. http://purl.obolibrary.org/obo/SO_1000087 mutation increasing level of transcript http://purl.obolibrary.org/obo/SO_1000087 sequence variation increasing level of transcript http://purl.obolibrary.org/obo/SO_1000087 sequence http://purl.obolibrary.org/obo/SO_1000087 SO:1000087 http://purl.obolibrary.org/obo/SO_1000087 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000087 sequence_variation_increasing_level_of_transcript http://purl.obolibrary.org/obo/SO_1000087 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000088 A sequence variant causing a change in primary translation product of a transcript. http://purl.obolibrary.org/obo/SO_1000088 SO:0001553 http://purl.obolibrary.org/obo/SO_1000088 SO:1000090 http://purl.obolibrary.org/obo/SO_1000088 SO:1000091 http://purl.obolibrary.org/obo/SO_1000088 sequence variant affecting translational product http://purl.obolibrary.org/obo/SO_1000088 sequence variant causing partially characterised change of translational product http://purl.obolibrary.org/obo/SO_1000088 sequence variant causing uncharacterised change of translational product http://purl.obolibrary.org/obo/SO_1000088 sequence_variant_causing_partially_characterised_change_of_translational_product http://purl.obolibrary.org/obo/SO_1000088 sequence_variant_causing_uncharacterised_change_of_translational_product http://purl.obolibrary.org/obo/SO_1000088 sequence http://purl.obolibrary.org/obo/SO_1000088 mutation affecting translational product http://purl.obolibrary.org/obo/SO_1000088 mutation causing partially characterised change of translational product http://purl.obolibrary.org/obo/SO_1000088 mutation causing uncharacterised change of translational product http://purl.obolibrary.org/obo/SO_1000088 SO:1000088 http://purl.obolibrary.org/obo/SO_1000088 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000088 sequence_variant_affecting_translational_product http://purl.obolibrary.org/obo/SO_1000088 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000089 The sequence variant at RNA level does not lead to any change in polypeptide. http://purl.obolibrary.org/obo/SO_1000089 sequence variant causing no change of translational product http://purl.obolibrary.org/obo/SO_1000089 sequence http://purl.obolibrary.org/obo/SO_1000089 mutation causing no change of translational product http://purl.obolibrary.org/obo/SO_1000089 SO:1000089 http://purl.obolibrary.org/obo/SO_1000089 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. Also, as there is no change, this is not a good ontological term. http://purl.obolibrary.org/obo/SO_1000089 sequence_variant_causing_no_change_of_translational_product http://purl.obolibrary.org/obo/SO_1000089 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000092 Any sequence variant effect that is known at nucleotide level but cannot be explained by using other key terms. http://purl.obolibrary.org/obo/SO_1000092 SO:0001539 http://purl.obolibrary.org/obo/SO_1000092 sequence variant causing complex change of translational product http://purl.obolibrary.org/obo/SO_1000092 sequence http://purl.obolibrary.org/obo/SO_1000092 mutation causing complex change of translational product http://purl.obolibrary.org/obo/SO_1000092 SO:1000092 http://purl.obolibrary.org/obo/SO_1000092 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000092 sequence_variant_causing_complex_change_of_translational_product http://purl.obolibrary.org/obo/SO_1000092 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000093 The replacement of a single amino acid by another. http://purl.obolibrary.org/obo/SO_1000093 SO:0001606 http://purl.obolibrary.org/obo/SO_1000093 sequence variant causing amino acid substitution http://purl.obolibrary.org/obo/SO_1000093 sequence http://purl.obolibrary.org/obo/SO_1000093 mutation causing amino acid substitution http://purl.obolibrary.org/obo/SO_1000093 SO:1000093 http://purl.obolibrary.org/obo/SO_1000093 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000093 sequence_variant_causing_amino_acid_substitution http://purl.obolibrary.org/obo/SO_1000093 true http://purl.obolibrary.org/obo/SO_1000094 SO:0001607 http://purl.obolibrary.org/obo/SO_1000094 sequence variant causing conservative amino acid substitution http://purl.obolibrary.org/obo/SO_1000094 sequence http://purl.obolibrary.org/obo/SO_1000094 mutation causing conservative amino acid substitution http://purl.obolibrary.org/obo/SO_1000094 SO:1000094 http://purl.obolibrary.org/obo/SO_1000094 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000094 sequence_variant_causing_conservative_amino_acid_substitution http://purl.obolibrary.org/obo/SO_1000094 true http://purl.obolibrary.org/obo/SO_1000095 SO:0001607 http://purl.obolibrary.org/obo/SO_1000095 sequence variant causing nonconservative amino acid substitution http://purl.obolibrary.org/obo/SO_1000095 sequence http://purl.obolibrary.org/obo/SO_1000095 mutation causing nonconservative amino acid substitution http://purl.obolibrary.org/obo/SO_1000095 SO:1000095 http://purl.obolibrary.org/obo/SO_1000095 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000095 sequence_variant_causing_nonconservative_amino_acid_substitution http://purl.obolibrary.org/obo/SO_1000095 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000096 The insertion of one or more amino acids from the polypeptide, without affecting the surrounding sequence. http://purl.obolibrary.org/obo/SO_1000096 SO:0001605 http://purl.obolibrary.org/obo/SO_1000096 sequence variant causing amino acid insertion http://purl.obolibrary.org/obo/SO_1000096 sequence http://purl.obolibrary.org/obo/SO_1000096 mutation causing amino acid insertion http://purl.obolibrary.org/obo/SO_1000096 SO:1000096 http://purl.obolibrary.org/obo/SO_1000096 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000096 sequence_variant_causing_amino_acid_insertion http://purl.obolibrary.org/obo/SO_1000096 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000097 The deletion of one or more amino acids from the polypeptide, without affecting the surrounding sequence. http://purl.obolibrary.org/obo/SO_1000097 SO:0001825 http://purl.obolibrary.org/obo/SO_1000097 sequence variant causing amino acid deletion http://purl.obolibrary.org/obo/SO_1000097 sequence http://purl.obolibrary.org/obo/SO_1000097 mutation causing amino acid deletion http://purl.obolibrary.org/obo/SO_1000097 SO:1000097 http://purl.obolibrary.org/obo/SO_1000097 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000097 sequence_variant_causing_amino_acid_deletion http://purl.obolibrary.org/obo/SO_1000097 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000098 The translational product is truncated at its C-terminus, usually a result of a nonsense codon change in transcript (SO:1000062). http://purl.obolibrary.org/obo/SO_1000098 SO:0001587 http://purl.obolibrary.org/obo/SO_1000098 sequence variant causing polypeptide truncation http://purl.obolibrary.org/obo/SO_1000098 sequence http://purl.obolibrary.org/obo/SO_1000098 mutation causing polypeptide truncation http://purl.obolibrary.org/obo/SO_1000098 SO:1000098 http://purl.obolibrary.org/obo/SO_1000098 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000098 sequence_variant_causing_polypeptide_truncation http://purl.obolibrary.org/obo/SO_1000098 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000099 The extension of the translational product at either (or both) the N-terminus and/or the C-terminus. http://purl.obolibrary.org/obo/SO_1000099 SO:0001609 http://purl.obolibrary.org/obo/SO_1000099 sequence variant causing polypeptide elongation http://purl.obolibrary.org/obo/SO_1000099 sequence http://purl.obolibrary.org/obo/SO_1000099 mutation causing polypeptide elongation http://purl.obolibrary.org/obo/SO_1000099 SO:1000099 http://purl.obolibrary.org/obo/SO_1000099 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000099 sequence_variant_causing_polypeptide_elongation http://purl.obolibrary.org/obo/SO_1000099 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000100 . http://purl.obolibrary.org/obo/SO_1000100 SO:0001611 http://purl.obolibrary.org/obo/SO_1000100 mutation causing polypeptide N terminal elongation http://purl.obolibrary.org/obo/SO_1000100 polypeptide N-terminal elongation http://purl.obolibrary.org/obo/SO_1000100 sequence http://purl.obolibrary.org/obo/SO_1000100 SO:1000100 http://purl.obolibrary.org/obo/SO_1000100 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000100 mutation_causing_polypeptide_N_terminal_elongation http://purl.obolibrary.org/obo/SO_1000100 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000101 . http://purl.obolibrary.org/obo/SO_1000101 SO:0001610 http://purl.obolibrary.org/obo/SO_1000101 mutation causing polypeptide C terminal elongation http://purl.obolibrary.org/obo/SO_1000101 polypeptide C-terminal elongation http://purl.obolibrary.org/obo/SO_1000101 sequence http://purl.obolibrary.org/obo/SO_1000101 SO:1000101 http://purl.obolibrary.org/obo/SO_1000101 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000101 mutation_causing_polypeptide_C_terminal_elongation http://purl.obolibrary.org/obo/SO_1000101 true http://purl.obolibrary.org/obo/SO_1000102 SO:0001553 http://purl.obolibrary.org/obo/SO_1000102 sequence variant affecting level of translational product http://purl.obolibrary.org/obo/SO_1000102 sequence http://purl.obolibrary.org/obo/SO_1000102 mutation affecting level of translational product http://purl.obolibrary.org/obo/SO_1000102 SO:1000102 http://purl.obolibrary.org/obo/SO_1000102 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000102 sequence_variant_affecting_level_of_translational_product http://purl.obolibrary.org/obo/SO_1000102 true http://purl.obolibrary.org/obo/SO_1000103 SO:0001555 http://purl.obolibrary.org/obo/SO_1000103 sequence variant decreasing level of translation product http://purl.obolibrary.org/obo/SO_1000103 sequence http://purl.obolibrary.org/obo/SO_1000103 mutationdecreasing level of translation product http://purl.obolibrary.org/obo/SO_1000103 SO:1000103 http://purl.obolibrary.org/obo/SO_1000103 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000103 sequence_variant_decreasing_level_of_translation_product http://purl.obolibrary.org/obo/SO_1000103 true http://purl.obolibrary.org/obo/SO_1000104 sequence variant increasing level of translation product http://purl.obolibrary.org/obo/SO_1000104 sequence http://purl.obolibrary.org/obo/SO_1000104 mutationt increasing level of translation product http://purl.obolibrary.org/obo/SO_1000104 SO:1000104 http://purl.obolibrary.org/obo/SO_1000104 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000104 sequence_variant_increasing_level_of_translation_product http://purl.obolibrary.org/obo/SO_1000104 true http://purl.obolibrary.org/obo/SO_1000105 SO:0001603 http://purl.obolibrary.org/obo/SO_1000105 sequence variant affecting polypeptide amino acid sequence http://purl.obolibrary.org/obo/SO_1000105 sequence http://purl.obolibrary.org/obo/SO_1000105 mutation affecting polypeptide amino acid sequence http://purl.obolibrary.org/obo/SO_1000105 SO:1000105 http://purl.obolibrary.org/obo/SO_1000105 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000105 sequence_variant_affecting_polypeptide_amino_acid_sequence http://purl.obolibrary.org/obo/SO_1000105 true http://purl.obolibrary.org/obo/SO_1000106 SO:0001614 http://purl.obolibrary.org/obo/SO_1000106 inframe polypeptide N-terminal elongation http://purl.obolibrary.org/obo/SO_1000106 mutation causing inframe polypeptide N terminal elongation http://purl.obolibrary.org/obo/SO_1000106 sequence http://purl.obolibrary.org/obo/SO_1000106 SO:1000106 http://purl.obolibrary.org/obo/SO_1000106 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000106 mutation_causing_inframe_polypeptide_N_terminal_elongation http://purl.obolibrary.org/obo/SO_1000106 true http://purl.obolibrary.org/obo/SO_1000107 SO:0001615 http://purl.obolibrary.org/obo/SO_1000107 mutation causing out of frame polypeptide N terminal elongation http://purl.obolibrary.org/obo/SO_1000107 out of frame polypeptide N-terminal elongation http://purl.obolibrary.org/obo/SO_1000107 sequence http://purl.obolibrary.org/obo/SO_1000107 SO:1000107 http://purl.obolibrary.org/obo/SO_1000107 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000107 mutation_causing_out_of_frame_polypeptide_N_terminal_elongation http://purl.obolibrary.org/obo/SO_1000107 true http://purl.obolibrary.org/obo/SO_1000108 SO:0001612 http://purl.obolibrary.org/obo/SO_1000108 inframe_polypeptide C-terminal elongation http://purl.obolibrary.org/obo/SO_1000108 mutaton causing inframe polypeptide C terminal elongation http://purl.obolibrary.org/obo/SO_1000108 sequence http://purl.obolibrary.org/obo/SO_1000108 SO:1000108 http://purl.obolibrary.org/obo/SO_1000108 mutaton_causing_inframe_polypeptide_C_terminal_elongation http://purl.obolibrary.org/obo/SO_1000108 true http://purl.obolibrary.org/obo/SO_1000109 SO:0001613 http://purl.obolibrary.org/obo/SO_1000109 mutation causing out of frame polypeptide C terminal elongation http://purl.obolibrary.org/obo/SO_1000109 out of frame polypeptide C-terminal elongation http://purl.obolibrary.org/obo/SO_1000109 sequence http://purl.obolibrary.org/obo/SO_1000109 SO:1000109 http://purl.obolibrary.org/obo/SO_1000109 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000109 mutation_causing_out_of_frame_polypeptide_C_terminal_elongation http://purl.obolibrary.org/obo/SO_1000109 true SO:ke http://purl.obolibrary.org/obo/SO_1000110 A mutation that reverts the sequence of a previous frameshift mutation back to the initial frame. http://purl.obolibrary.org/obo/SO_1000110 frame restoring mutation http://purl.obolibrary.org/obo/SO_1000110 frame restoring sequence variant http://purl.obolibrary.org/obo/SO_1000110 sequence http://purl.obolibrary.org/obo/SO_1000110 SO:1000110 http://purl.obolibrary.org/obo/SO_1000110 frame_restoring_sequence_variant http://purl.obolibrary.org/obo/SO_1000110 true SO:ke http://purl.obolibrary.org/obo/SO_1000111 A mutation that changes the amino acid sequence of the peptide in such a way that it changes the 3D structure of the molecule. http://purl.obolibrary.org/obo/SO_1000111 SO:0001599 http://purl.obolibrary.org/obo/SO_1000111 SO:1000113 http://purl.obolibrary.org/obo/SO_1000111 SO:1000114 http://purl.obolibrary.org/obo/SO_1000111 sequence variant affecting 3D structure of polypeptide http://purl.obolibrary.org/obo/SO_1000111 sequence variant affecting 3D-structure of polypeptide http://purl.obolibrary.org/obo/SO_1000111 sequence variant causing partially characterised 3D structural change http://purl.obolibrary.org/obo/SO_1000111 sequence variant causing uncharacterised 3D structural change http://purl.obolibrary.org/obo/SO_1000111 sequence_variant_causing_partially_characterised_3D_structural_change http://purl.obolibrary.org/obo/SO_1000111 sequence_variant_causing_uncharacterised_3D_structural_change http://purl.obolibrary.org/obo/SO_1000111 sequence http://purl.obolibrary.org/obo/SO_1000111 mutation affecting 3D structure of polypeptide http://purl.obolibrary.org/obo/SO_1000111 mutation causing partially characterised 3D structural change http://purl.obolibrary.org/obo/SO_1000111 mutation causing uncharacterised 3D structural change http://purl.obolibrary.org/obo/SO_1000111 SO:1000111 http://purl.obolibrary.org/obo/SO_1000111 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000111 sequence_variant_affecting_3D_structure_of_polypeptide http://purl.obolibrary.org/obo/SO_1000111 true http://purl.obolibrary.org/obo/SO_1000112 sequence variant causing no 3D structural change http://purl.obolibrary.org/obo/SO_1000112 sequence http://purl.obolibrary.org/obo/SO_1000112 mutation causing no 3D structural change http://purl.obolibrary.org/obo/SO_1000112 SO:1000112 http://purl.obolibrary.org/obo/SO_1000112 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. Also as there is no effect, it is not a good term. http://purl.obolibrary.org/obo/SO_1000112 sequence_variant_causing_no_3D_structural_change http://purl.obolibrary.org/obo/SO_1000112 true http://purl.obolibrary.org/obo/SO_1000115 SO:0001600 http://purl.obolibrary.org/obo/SO_1000115 sequence variant causing complex 3D structural change http://purl.obolibrary.org/obo/SO_1000115 sequence http://purl.obolibrary.org/obo/SO_1000115 mutation causing complex 3D structural change http://purl.obolibrary.org/obo/SO_1000115 SO:1000115 http://purl.obolibrary.org/obo/SO_1000115 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000115 sequence_variant_causing_complex_3D_structural_change http://purl.obolibrary.org/obo/SO_1000115 true http://purl.obolibrary.org/obo/SO_1000116 SO:0001601 http://purl.obolibrary.org/obo/SO_1000116 sequence variant causing conformational change http://purl.obolibrary.org/obo/SO_1000116 sequence http://purl.obolibrary.org/obo/SO_1000116 mutation causing conformational change http://purl.obolibrary.org/obo/SO_1000116 SO:1000116 http://purl.obolibrary.org/obo/SO_1000116 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000116 sequence_variant_causing_conformational_change http://purl.obolibrary.org/obo/SO_1000116 true http://purl.obolibrary.org/obo/SO_1000117 SO:0001554 http://purl.obolibrary.org/obo/SO_1000117 sequence variant affecting polypeptide function http://purl.obolibrary.org/obo/SO_1000117 sequence http://purl.obolibrary.org/obo/SO_1000117 mutation affecting polypeptide function http://purl.obolibrary.org/obo/SO_1000117 SO:1000117 http://purl.obolibrary.org/obo/SO_1000117 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000117 sequence_variant_affecting_polypeptide_function http://purl.obolibrary.org/obo/SO_1000117 true http://purl.obolibrary.org/obo/SO_1000118 SO:0001559 http://purl.obolibrary.org/obo/SO_1000118 sequence variant causing loss of function of polypeptide http://purl.obolibrary.org/obo/SO_1000118 sequence http://purl.obolibrary.org/obo/SO_1000118 loss of function of polypeptide http://purl.obolibrary.org/obo/SO_1000118 mutation causing loss of function of polypeptide http://purl.obolibrary.org/obo/SO_1000118 SO:1000118 http://purl.obolibrary.org/obo/SO_1000118 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000118 sequence_variant_causing_loss_of_function_of_polypeptide http://purl.obolibrary.org/obo/SO_1000118 true http://purl.obolibrary.org/obo/SO_1000119 SO:0001560 http://purl.obolibrary.org/obo/SO_1000119 sequence variant causing inactive ligand binding site http://purl.obolibrary.org/obo/SO_1000119 sequence http://purl.obolibrary.org/obo/SO_1000119 mutation causing inactive ligand binding site http://purl.obolibrary.org/obo/SO_1000119 SO:1000119 http://purl.obolibrary.org/obo/SO_1000119 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000119 sequence_variant_causing_inactive_ligand_binding_site http://purl.obolibrary.org/obo/SO_1000119 true http://purl.obolibrary.org/obo/SO_1000120 SO:0001618 http://purl.obolibrary.org/obo/SO_1000120 sequence variant causing inactive catalytic site http://purl.obolibrary.org/obo/SO_1000120 sequence http://purl.obolibrary.org/obo/SO_1000120 mutation causing inactive catalytic site http://purl.obolibrary.org/obo/SO_1000120 SO:1000120 http://purl.obolibrary.org/obo/SO_1000120 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000120 sequence_variant_causing_inactive_catalytic_site http://purl.obolibrary.org/obo/SO_1000120 true http://purl.obolibrary.org/obo/SO_1000121 SO:0001558 http://purl.obolibrary.org/obo/SO_1000121 sequence variant causing polypeptide localization change http://purl.obolibrary.org/obo/SO_1000121 sequence http://purl.obolibrary.org/obo/SO_1000121 mutation causing polypeptide localization change http://purl.obolibrary.org/obo/SO_1000121 SO:1000121 http://purl.obolibrary.org/obo/SO_1000121 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000121 sequence_variant_causing_polypeptide_localization_change http://purl.obolibrary.org/obo/SO_1000121 true http://purl.obolibrary.org/obo/SO_1000122 SO:0001562 http://purl.obolibrary.org/obo/SO_1000122 polypeptide post-translational processing affected http://purl.obolibrary.org/obo/SO_1000122 sequence variant causing polypeptide post translational processing change http://purl.obolibrary.org/obo/SO_1000122 sequence http://purl.obolibrary.org/obo/SO_1000122 mutation causing polypeptide post translational processing change http://purl.obolibrary.org/obo/SO_1000122 SO:1000122 http://purl.obolibrary.org/obo/SO_1000122 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000122 sequence_variant_causing_polypeptide_post_translational_processing_change http://purl.obolibrary.org/obo/SO_1000122 true http://purl.obolibrary.org/obo/SO_1000123 sequence http://purl.obolibrary.org/obo/SO_1000123 polypeptide_post-translational_processing_affected http://purl.obolibrary.org/obo/SO_1000123 SO:1000123 http://purl.obolibrary.org/obo/SO_1000123 polypeptide_post_translational_processing_affected http://purl.obolibrary.org/obo/SO_1000123 true http://purl.obolibrary.org/obo/SO_1000124 SO:0001561 http://purl.obolibrary.org/obo/SO_1000124 partial loss of function of polypeptide http://purl.obolibrary.org/obo/SO_1000124 sequence variant causing partial loss of function of polypeptide http://purl.obolibrary.org/obo/SO_1000124 sequence http://purl.obolibrary.org/obo/SO_1000124 mutation causing partial loss of function of polypeptide http://purl.obolibrary.org/obo/SO_1000124 SO:1000124 http://purl.obolibrary.org/obo/SO_1000124 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000124 sequence_variant_causing_partial_loss_of_function_of_polypeptide http://purl.obolibrary.org/obo/SO_1000124 true http://purl.obolibrary.org/obo/SO_1000125 SO:0001557 http://purl.obolibrary.org/obo/SO_1000125 gain of function of polypeptide http://purl.obolibrary.org/obo/SO_1000125 sequence variant causing gain of function of polypeptide http://purl.obolibrary.org/obo/SO_1000125 sequence http://purl.obolibrary.org/obo/SO_1000125 mutation causing gain of function of polypeptide http://purl.obolibrary.org/obo/SO_1000125 SO:1000125 http://purl.obolibrary.org/obo/SO_1000125 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000125 sequence_variant_causing_gain_of_function_of_polypeptide http://purl.obolibrary.org/obo/SO_1000125 true SO:ke http://purl.obolibrary.org/obo/SO_1000126 A sequence variant that affects the secondary structure (folding) of the RNA transcript molecule. http://purl.obolibrary.org/obo/SO_1000126 SO:0001596 http://purl.obolibrary.org/obo/SO_1000126 sequence variant affecting transcript secondary structure http://purl.obolibrary.org/obo/SO_1000126 sequence http://purl.obolibrary.org/obo/SO_1000126 mutation affecting transcript secondary structure http://purl.obolibrary.org/obo/SO_1000126 SO:1000126 http://purl.obolibrary.org/obo/SO_1000126 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000126 sequence_variant_affecting_transcript_secondary_structure http://purl.obolibrary.org/obo/SO_1000126 true http://purl.obolibrary.org/obo/SO_1000127 SO:0001597 http://purl.obolibrary.org/obo/SO_1000127 sequence variant causing compensatory transcript secondary structure mutation http://purl.obolibrary.org/obo/SO_1000127 sequence http://purl.obolibrary.org/obo/SO_1000127 mutation causing compensatory transcript secondary structure mutation http://purl.obolibrary.org/obo/SO_1000127 SO:1000127 http://purl.obolibrary.org/obo/SO_1000127 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000127 sequence_variant_causing_compensatory_transcript_secondary_structure_mutation http://purl.obolibrary.org/obo/SO_1000127 true SO:ke http://purl.obolibrary.org/obo/SO_1000132 The effect of a change in nucleotide sequence. http://purl.obolibrary.org/obo/SO_1000132 sequence http://purl.obolibrary.org/obo/SO_1000132 sequence variant effect http://purl.obolibrary.org/obo/SO_1000132 SO:1000132 http://purl.obolibrary.org/obo/SO_1000132 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. Updated after discussion with Peter Taschner - Feb 09. http://purl.obolibrary.org/obo/SO_1000132 sequence_variant_effect http://purl.obolibrary.org/obo/SO_1000132 true http://purl.obolibrary.org/obo/SO_1000134 SO:0001616 http://purl.obolibrary.org/obo/SO_1000134 sequence variant causing polypeptide fusion http://purl.obolibrary.org/obo/SO_1000134 sequence http://purl.obolibrary.org/obo/SO_1000134 mutation causing polypeptide fusion http://purl.obolibrary.org/obo/SO_1000134 SO:1000134 http://purl.obolibrary.org/obo/SO_1000134 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000134 sequence_variant_causing_polypeptide_fusion http://purl.obolibrary.org/obo/SO_1000134 true PMID:6804304 http://purl.obolibrary.org/obo/SO_1000136 An autosynaptic chromosome is the aneuploid product of recombination between a pericentric inversion and a cytologically wild-type chromosome. http://purl.obolibrary.org/obo/SO_1000136 autosynaptic chromosome http://purl.obolibrary.org/obo/SO_1000136 sequence http://purl.obolibrary.org/obo/SO_1000136 (Drosophila)A http://purl.obolibrary.org/obo/SO_1000136 SO:1000136 http://purl.obolibrary.org/obo/SO_1000136 autosynaptic_chromosome SO:ke http://purl.obolibrary.org/obo/SO_1000138 A compound chromosome whereby two copies of the same chromosomal arm attached to a common centromere. The chromosome is diploid for the arm involved. http://purl.obolibrary.org/obo/SO_1000138 homo compound chromosome http://purl.obolibrary.org/obo/SO_1000138 homo-compound chromosome http://purl.obolibrary.org/obo/SO_1000138 sequence http://purl.obolibrary.org/obo/SO_1000138 SO:1000138 http://purl.obolibrary.org/obo/SO_1000138 homo_compound_chromosome FB:reference_manual SO:ke http://purl.obolibrary.org/obo/SO_1000140 A compound chromosome whereby two arms from different chromosomes are connected through the centromere of one of them. http://purl.obolibrary.org/obo/SO_1000140 hetero compound chromosome http://purl.obolibrary.org/obo/SO_1000140 hetero-compound chromosome http://purl.obolibrary.org/obo/SO_1000140 sequence http://purl.obolibrary.org/obo/SO_1000140 SO:1000140 http://purl.obolibrary.org/obo/SO_1000140 hetero_compound_chromosome SO:ke http://purl.obolibrary.org/obo/SO_1000141 A chromosome that occurred by the division of a larger chromosome. http://purl.obolibrary.org/obo/SO_1000141 chromosome fission http://purl.obolibrary.org/obo/SO_1000141 sequence http://purl.obolibrary.org/obo/SO_1000141 SO:1000141 http://purl.obolibrary.org/obo/SO_1000141 chromosome_fission FB:manual http://purl.obolibrary.org/obo/SO_1000142 An autosynaptic chromosome carrying the two right (D = dextro) telomeres. http://purl.obolibrary.org/obo/SO_1000142 dexstrosynaptic chromosome http://purl.obolibrary.org/obo/SO_1000142 sequence http://purl.obolibrary.org/obo/SO_1000142 SO:1000142 http://purl.obolibrary.org/obo/SO_1000142 dexstrosynaptic_chromosome FB:manual http://purl.obolibrary.org/obo/SO_1000143 LS is an autosynaptic chromosome carrying the two left (L = levo) telomeres. http://purl.obolibrary.org/obo/SO_1000143 laevosynaptic chromosome http://purl.obolibrary.org/obo/SO_1000143 sequence http://purl.obolibrary.org/obo/SO_1000143 SO:1000143 http://purl.obolibrary.org/obo/SO_1000143 laevosynaptic_chromosome FB:reference_manual http://purl.obolibrary.org/obo/SO_1000144 A chromosome structure variation whereby the duplicated sequences are carried as a free centric element. http://purl.obolibrary.org/obo/SO_1000144 free duplication http://purl.obolibrary.org/obo/SO_1000144 sequence http://purl.obolibrary.org/obo/SO_1000144 SO:1000144 http://purl.obolibrary.org/obo/SO_1000144 free_duplication SO:ke http://purl.obolibrary.org/obo/SO_1000145 A ring chromosome which is a copy of another chromosome. http://purl.obolibrary.org/obo/SO_1000145 free ring duplication http://purl.obolibrary.org/obo/SO_1000145 sequence http://purl.obolibrary.org/obo/SO_1000145 (Drosophila)R http://purl.obolibrary.org/obo/SO_1000145 SO:1000145 http://purl.obolibrary.org/obo/SO_1000145 free_ring_duplication FB:reference_manual http://purl.obolibrary.org/obo/SO_1000147 A chromosomal deletion whereby a translocation occurs in which one of the four broken ends loses a segment before re-joining. http://purl.obolibrary.org/obo/SO_1000147 deficient translocation http://purl.obolibrary.org/obo/SO_1000147 sequence http://purl.obolibrary.org/obo/SO_1000147 (Drosophila)Df http://purl.obolibrary.org/obo/SO_1000147 (Drosophila)DfT http://purl.obolibrary.org/obo/SO_1000147 SO:1000147 http://purl.obolibrary.org/obo/SO_1000147 deficient_translocation FB:reference_manual http://purl.obolibrary.org/obo/SO_1000148 A chromosomal translocation whereby the first two breaks are in the same chromosome, and the region between them is rejoined in inverted order to the other side of the first break, such that both sides of break one are present on the same chromosome. The remaining free ends are joined as a translocation with those resulting from the third break. http://purl.obolibrary.org/obo/SO_1000148 inversion cum translocation http://purl.obolibrary.org/obo/SO_1000148 sequence http://purl.obolibrary.org/obo/SO_1000148 (Drosophila)InT http://purl.obolibrary.org/obo/SO_1000148 (Drosophila)T http://purl.obolibrary.org/obo/SO_1000148 SO:1000148 http://purl.obolibrary.org/obo/SO_1000148 inversion_cum_translocation FB:reference_manual http://purl.obolibrary.org/obo/SO_1000149 An interchromosomal mutation whereby the (large) region between the first two breaks listed is lost, and the two flanking segments (one of them centric) are joined as a translocation to the free ends resulting from the third break. http://purl.obolibrary.org/obo/SO_1000149 bipartite duplication http://purl.obolibrary.org/obo/SO_1000149 sequence http://purl.obolibrary.org/obo/SO_1000149 (Drosophila)bDp http://purl.obolibrary.org/obo/SO_1000149 SO:1000149 http://purl.obolibrary.org/obo/SO_1000149 bipartite_duplication FB:reference_manual http://purl.obolibrary.org/obo/SO_1000150 A chromosomal translocation whereby three breaks occurred in three different chromosomes. The centric segment resulting from the first break listed is joined to the acentric segment resulting from the second, rather than the third. http://purl.obolibrary.org/obo/SO_1000150 cyclic translocation http://purl.obolibrary.org/obo/SO_1000150 sequence http://purl.obolibrary.org/obo/SO_1000150 SO:1000150 http://purl.obolibrary.org/obo/SO_1000150 cyclic_translocation FB:reference_manual http://purl.obolibrary.org/obo/SO_1000151 A chromosomal inversion caused by three breaks in the same chromosome; both central segments are inverted in place (i.e., they are not transposed). http://purl.obolibrary.org/obo/SO_1000151 bipartite inversion http://purl.obolibrary.org/obo/SO_1000151 sequence http://purl.obolibrary.org/obo/SO_1000151 (Drosophila)bIn http://purl.obolibrary.org/obo/SO_1000151 SO:1000151 http://purl.obolibrary.org/obo/SO_1000151 bipartite_inversion FB:reference_manual http://purl.obolibrary.org/obo/SO_1000152 An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments. http://purl.obolibrary.org/obo/SO_1000152 uninverted insertional duplication http://purl.obolibrary.org/obo/SO_1000152 sequence http://purl.obolibrary.org/obo/SO_1000152 (Drosophila)eDp http://purl.obolibrary.org/obo/SO_1000152 SO:1000152 http://purl.obolibrary.org/obo/SO_1000152 uninverted_insertional_duplication FB:reference_manual http://purl.obolibrary.org/obo/SO_1000153 An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segments. http://purl.obolibrary.org/obo/SO_1000153 inverted insertional duplication http://purl.obolibrary.org/obo/SO_1000153 sequence http://purl.obolibrary.org/obo/SO_1000153 (Drosophila)iDp http://purl.obolibrary.org/obo/SO_1000153 SO:1000153 http://purl.obolibrary.org/obo/SO_1000153 inverted_insertional_duplication SO:ke http://purl.obolibrary.org/obo/SO_1000154 A chromosome duplication involving the insertion of a duplicated region (as opposed to a free duplication). http://purl.obolibrary.org/obo/SO_1000154 insertional duplication http://purl.obolibrary.org/obo/SO_1000154 sequence http://purl.obolibrary.org/obo/SO_1000154 (Drosophila)Dpp http://purl.obolibrary.org/obo/SO_1000154 SO:1000154 http://purl.obolibrary.org/obo/SO_1000154 insertional_duplication SO:ke http://purl.obolibrary.org/obo/SO_1000155 A chromosome structure variation whereby a transposition occurred between chromosomes. http://purl.obolibrary.org/obo/SO_1000155 interchromosomal transposition http://purl.obolibrary.org/obo/SO_1000155 sequence http://purl.obolibrary.org/obo/SO_1000155 (Drosophila)Tp http://purl.obolibrary.org/obo/SO_1000155 SO:1000155 http://purl.obolibrary.org/obo/SO_1000155 interchromosomal_transposition FB:reference_manual http://purl.obolibrary.org/obo/SO_1000156 An interchromosomal transposition whereby a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segment. http://purl.obolibrary.org/obo/SO_1000156 inverted interchromosomal transposition http://purl.obolibrary.org/obo/SO_1000156 sequence http://purl.obolibrary.org/obo/SO_1000156 (Drosophila)iTp http://purl.obolibrary.org/obo/SO_1000156 SO:1000156 http://purl.obolibrary.org/obo/SO_1000156 inverted_interchromosomal_transposition FB:reference_manual http://purl.obolibrary.org/obo/SO_1000157 An interchromosomal transition where the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments. http://purl.obolibrary.org/obo/SO_1000157 uninverted interchromosomal transposition http://purl.obolibrary.org/obo/SO_1000157 sequence http://purl.obolibrary.org/obo/SO_1000157 (Drosophila)eTp http://purl.obolibrary.org/obo/SO_1000157 SO:1000157 http://purl.obolibrary.org/obo/SO_1000157 uninverted_interchromosomal_transposition FB:reference_manual http://purl.obolibrary.org/obo/SO_1000158 An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segments. http://purl.obolibrary.org/obo/SO_1000158 inverted intrachromosomal transposition http://purl.obolibrary.org/obo/SO_1000158 sequence http://purl.obolibrary.org/obo/SO_1000158 (Drosophila)iTp http://purl.obolibrary.org/obo/SO_1000158 SO:1000158 http://purl.obolibrary.org/obo/SO_1000158 inverted_intrachromosomal_transposition FB:reference_manual http://purl.obolibrary.org/obo/SO_1000159 An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments. http://purl.obolibrary.org/obo/SO_1000159 uninverted intrachromosomal transposition http://purl.obolibrary.org/obo/SO_1000159 sequence http://purl.obolibrary.org/obo/SO_1000159 (Drosophila)eTp http://purl.obolibrary.org/obo/SO_1000159 SO:1000159 http://purl.obolibrary.org/obo/SO_1000159 uninverted_intrachromosomal_transposition FB:reference_manual http://purl.obolibrary.org/obo/SO_1000160 An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded. http://purl.obolibrary.org/obo/SO_1000160 unoriented insertional duplication http://purl.obolibrary.org/obo/SO_1000160 sequence http://purl.obolibrary.org/obo/SO_1000160 (Drosophila)uDp http://purl.obolibrary.org/obo/SO_1000160 SO:1000160 http://purl.obolibrary.org/obo/SO_1000160 Flag - unknown in the definition. http://purl.obolibrary.org/obo/SO_1000160 unoriented_insertional_duplication FB:reference_manual http://purl.obolibrary.org/obo/SO_1000161 An interchromosomal transposition whereby a copy of the segment between the first two breaks listed is inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded. http://purl.obolibrary.org/obo/SO_1000161 unorientated interchromosomal transposition http://purl.obolibrary.org/obo/SO_1000161 sequence http://purl.obolibrary.org/obo/SO_1000161 (Drosophila)uTp http://purl.obolibrary.org/obo/SO_1000161 SO:1000161 http://purl.obolibrary.org/obo/SO_1000161 FLAG - term describes an unknown. http://purl.obolibrary.org/obo/SO_1000161 unoriented_interchromosomal_transposition FB:reference_manual http://purl.obolibrary.org/obo/SO_1000162 An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded. http://purl.obolibrary.org/obo/SO_1000162 unorientated intrachromosomal transposition http://purl.obolibrary.org/obo/SO_1000162 sequence http://purl.obolibrary.org/obo/SO_1000162 (Drosophila)uTp http://purl.obolibrary.org/obo/SO_1000162 SO:1000162 http://purl.obolibrary.org/obo/SO_1000162 FLAG - definition describes an unknown. http://purl.obolibrary.org/obo/SO_1000162 unoriented_intrachromosomal_transposition http://purl.obolibrary.org/obo/SO_1000170 uncharacterized chromosomal mutation http://purl.obolibrary.org/obo/SO_1000170 sequence http://purl.obolibrary.org/obo/SO_1000170 SO:1000170 http://purl.obolibrary.org/obo/SO_1000170 uncharacterized_chromosomal_mutation FB:reference_manual SO:ke http://purl.obolibrary.org/obo/SO_1000171 A chromosomal deletion whereby three breaks occur in the same chromosome; one central region is lost, and the other is inverted. http://purl.obolibrary.org/obo/SO_1000171 deficient inversion http://purl.obolibrary.org/obo/SO_1000171 sequence http://purl.obolibrary.org/obo/SO_1000171 (Drosophila)Df http://purl.obolibrary.org/obo/SO_1000171 (Drosophila)DfIn http://purl.obolibrary.org/obo/SO_1000171 SO:1000171 http://purl.obolibrary.org/obo/SO_1000171 deficient_inversion SO:ke http://purl.obolibrary.org/obo/SO_1000173 A duplication consisting of 2 identical adjacent regions. http://purl.obolibrary.org/obo/SO_1000173 tandem duplication http://purl.obolibrary.org/obo/SO_1000173 sequence http://www.ncbi.nlm.nih.gov/dbvar/ http://purl.obolibrary.org/obo/so-xp.obo#dbvar http://purl.obolibrary.org/obo/SO_1000173 erverted http://purl.obolibrary.org/obo/SO_1000173 SO:1000173 http://purl.obolibrary.org/obo/SO_1000173 http://purl.obolibrary.org/obo/so-xp.obo#DBVAR http://purl.obolibrary.org/obo/SO_1000173 tandem_duplication http://purl.obolibrary.org/obo/SO_1000175 partially characterized chromosomal mutation http://purl.obolibrary.org/obo/SO_1000175 sequence http://purl.obolibrary.org/obo/SO_1000175 SO:1000175 http://purl.obolibrary.org/obo/SO_1000175 partially_characterized_chromosomal_mutation SO:ke http://purl.obolibrary.org/obo/SO_1000180 A sequence_variant_effect that changes the gene structure. http://purl.obolibrary.org/obo/SO_1000180 SO:0001564 http://purl.obolibrary.org/obo/SO_1000180 sequence variant affecting gene structure http://purl.obolibrary.org/obo/SO_1000180 sequence http://purl.obolibrary.org/obo/SO_1000180 mutation affecting gene structure http://purl.obolibrary.org/obo/SO_1000180 SO:1000180 http://purl.obolibrary.org/obo/SO_1000180 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000180 sequence_variant_affecting_gene_structure http://purl.obolibrary.org/obo/SO_1000180 true SO:ke http://purl.obolibrary.org/obo/SO_1000181 A sequence_variant_effect that changes the gene structure by causing a fusion to another gene. http://purl.obolibrary.org/obo/SO_1000181 SO:0001565 http://purl.obolibrary.org/obo/SO_1000181 sequence variant causing gene fusion http://purl.obolibrary.org/obo/SO_1000181 sequence http://purl.obolibrary.org/obo/SO_1000181 mutation causing gene fusion http://purl.obolibrary.org/obo/SO_1000181 SO:1000181 http://purl.obolibrary.org/obo/SO_1000181 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000181 sequence_variant_causing_gene_fusion http://purl.obolibrary.org/obo/SO_1000181 true SO:ke http://purl.obolibrary.org/obo/SO_1000182 A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number. http://purl.obolibrary.org/obo/SO_1000182 chromosome number variation http://purl.obolibrary.org/obo/SO_1000182 sequence http://purl.obolibrary.org/obo/SO_1000182 SO:1000182 http://purl.obolibrary.org/obo/SO_1000182 chromosome_number_variation http://purl.obolibrary.org/obo/SO_1000183 chromosome structure variation http://purl.obolibrary.org/obo/SO_1000183 sequence http://purl.obolibrary.org/obo/SO_1000183 SO:1000183 http://purl.obolibrary.org/obo/SO_1000183 chromosome_structure_variation SO:ke http://purl.obolibrary.org/obo/SO_1000184 A sequence variant affecting splicing and causes an exon loss. http://purl.obolibrary.org/obo/SO_1000184 sequence variant causes exon loss http://purl.obolibrary.org/obo/SO_1000184 sequence http://purl.obolibrary.org/obo/SO_1000184 mutation causes exon loss http://purl.obolibrary.org/obo/SO_1000184 SO:1000184 http://purl.obolibrary.org/obo/SO_1000184 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000184 sequence_variant_causes_exon_loss http://purl.obolibrary.org/obo/SO_1000184 true EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html http://purl.obolibrary.org/obo/SO_1000185 A sequence variant effect, causing an intron to be gained by the processed transcript; usually a result of a donor acceptor mutation (SO:1000072). http://purl.obolibrary.org/obo/SO_1000185 sequence variant causes intron gain http://purl.obolibrary.org/obo/SO_1000185 sequence http://purl.obolibrary.org/obo/SO_1000185 mutation causes intron gain http://purl.obolibrary.org/obo/SO_1000185 SO:1000185 http://purl.obolibrary.org/obo/SO_1000185 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000185 sequence_variant_causes_intron_gain http://purl.obolibrary.org/obo/SO_1000185 true http://purl.obolibrary.org/obo/SO_1000186 SO:0001571 http://purl.obolibrary.org/obo/SO_1000186 sequence variant causing cryptic splice donor activation http://purl.obolibrary.org/obo/SO_1000186 sequence http://purl.obolibrary.org/obo/SO_1000186 SO:1000186 http://purl.obolibrary.org/obo/SO_1000186 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1000186 sequence_variant_causing_cryptic_splice_donor_activation http://purl.obolibrary.org/obo/SO_1000186 true http://purl.obolibrary.org/obo/SO_1001186 SO:0001570 http://purl.obolibrary.org/obo/SO_1001186 sequence variant causing cryptic splice acceptor activation http://purl.obolibrary.org/obo/SO_1001186 sequence http://purl.obolibrary.org/obo/SO_1001186 SO:1001186 http://purl.obolibrary.org/obo/SO_1001186 OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. http://purl.obolibrary.org/obo/SO_1001186 sequence_variant_causing_cryptic_splice_acceptor_activation http://purl.obolibrary.org/obo/SO_1001186 true SO:xp http://purl.obolibrary.org/obo/SO_1001187 A transcript that is alternatively spliced. http://purl.obolibrary.org/obo/SO_1001187 alternatively spliced transcript http://purl.obolibrary.org/obo/SO_1001187 sequence http://purl.obolibrary.org/obo/SO_1001187 SO:1001187 http://purl.obolibrary.org/obo/SO_1001187 alternatively_spliced_transcript SO:ke http://purl.obolibrary.org/obo/SO_1001188 A gene that is alternately spliced, but encodes only one polypeptide. http://purl.obolibrary.org/obo/SO_1001188 encodes 1 polypeptide http://purl.obolibrary.org/obo/SO_1001188 sequence http://purl.obolibrary.org/obo/SO_1001188 SO:1001188 http://purl.obolibrary.org/obo/SO_1001188 encodes_1_polypeptide SO:ke http://purl.obolibrary.org/obo/SO_1001189 A gene that is alternately spliced, and encodes more than one polypeptide. http://purl.obolibrary.org/obo/SO_1001189 encodes greater than 1 polypeptide http://purl.obolibrary.org/obo/SO_1001189 sequence http://purl.obolibrary.org/obo/SO_1001189 SO:1001189 http://purl.obolibrary.org/obo/SO_1001189 encodes_greater_than_1_polypeptide SO:ke http://purl.obolibrary.org/obo/SO_1001190 A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences, but use different stop codons. http://purl.obolibrary.org/obo/SO_1001190 encodes different polypeptides different stop http://purl.obolibrary.org/obo/SO_1001190 sequence http://purl.obolibrary.org/obo/SO_1001190 SO:1001190 http://purl.obolibrary.org/obo/SO_1001190 encodes_different_polypeptides_different_stop SO:ke http://purl.obolibrary.org/obo/SO_1001191 A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences, but use different start codons. http://purl.obolibrary.org/obo/SO_1001191 encodes overlapping peptides different start http://purl.obolibrary.org/obo/SO_1001191 sequence http://purl.obolibrary.org/obo/SO_1001191 SO:1001191 http://purl.obolibrary.org/obo/SO_1001191 encodes_overlapping_peptides_different_start SO:ke http://purl.obolibrary.org/obo/SO_1001192 A gene that is alternately spliced, and encodes more than one polypeptide, that do not have overlapping peptide sequences. http://purl.obolibrary.org/obo/SO_1001192 encodes disjoint polypeptides http://purl.obolibrary.org/obo/SO_1001192 sequence http://purl.obolibrary.org/obo/SO_1001192 SO:1001192 http://purl.obolibrary.org/obo/SO_1001192 encodes_disjoint_polypeptides SO:ke http://purl.obolibrary.org/obo/SO_1001193 A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences, but use different start and stop codons. http://purl.obolibrary.org/obo/SO_1001193 encodes overlapping polypeptides different start and stop http://purl.obolibrary.org/obo/SO_1001193 sequence http://purl.obolibrary.org/obo/SO_1001193 SO:1001193 http://purl.obolibrary.org/obo/SO_1001193 encodes_overlapping_polypeptides_different_start_and_stop http://purl.obolibrary.org/obo/SO_1001194 sequence http://purl.obolibrary.org/obo/SO_1001194 SO:1001194 http://purl.obolibrary.org/obo/SO_1001194 alternatively_spliced_gene_encoding_greater_than_1_polypeptide_coding_regions_overlapping http://purl.obolibrary.org/obo/SO_1001194 true SO:ke http://purl.obolibrary.org/obo/SO_1001195 A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences. http://purl.obolibrary.org/obo/SO_1001195 encodes overlapping peptides http://purl.obolibrary.org/obo/SO_1001195 sequence http://purl.obolibrary.org/obo/SO_1001195 SO:1001195 http://purl.obolibrary.org/obo/SO_1001195 encodes_overlapping_peptides SO:ma http://purl.obolibrary.org/obo/SO_1001196 A maxicircle gene so extensively edited that it cannot be matched to its edited mRNA sequence. http://purl.obolibrary.org/obo/SO_1001196 sequence http://purl.obolibrary.org/obo/SO_1001196 SO:1001196 http://purl.obolibrary.org/obo/SO_1001196 cryptogene SO:xp http://purl.obolibrary.org/obo/SO_1001197 A primary transcript that has the quality dicistronic. http://purl.obolibrary.org/obo/SO_1001197 dicistronic primary transcript http://purl.obolibrary.org/obo/SO_1001197 sequence http://purl.obolibrary.org/obo/SO_1001197 SO:1001197 http://purl.obolibrary.org/obo/SO_1001197 dicistronic_primary_transcript http://purl.obolibrary.org/obo/SO_1001217 member of regulon http://purl.obolibrary.org/obo/SO_1001217 sequence http://purl.obolibrary.org/obo/SO_1001217 SO:1001217 http://purl.obolibrary.org/obo/SO_1001217 member_of_regulon http://purl.obolibrary.org/obo/SO_1001244 sequence http://purl.obolibrary.org/obo/SO_1001244 alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non-overlapping http://purl.obolibrary.org/obo/SO_1001244 SO:1001244 http://purl.obolibrary.org/obo/SO_1001244 alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non_overlapping http://purl.obolibrary.org/obo/SO_1001244 true SO:xp http://purl.obolibrary.org/obo/SO_1001246 A CDS with the evidence status of being independently known. http://purl.obolibrary.org/obo/SO_1001246 CDS independently known http://purl.obolibrary.org/obo/SO_1001246 sequence http://purl.obolibrary.org/obo/SO_1001246 SO:1001246 http://purl.obolibrary.org/obo/SO_1001246 CDS_independently_known SO:ma http://purl.obolibrary.org/obo/SO_1001247 A CDS whose predicted amino acid sequence is unsupported by any experimental evidence or by any match with any other known sequence. http://purl.obolibrary.org/obo/SO_1001247 orphan CDS http://purl.obolibrary.org/obo/SO_1001247 sequence http://purl.obolibrary.org/obo/SO_1001247 SO:1001247 http://purl.obolibrary.org/obo/SO_1001247 orphan_CDS SO:xp http://purl.obolibrary.org/obo/SO_1001249 A CDS that is supported by domain similarity. http://purl.obolibrary.org/obo/SO_1001249 CDS supported by domain match data http://purl.obolibrary.org/obo/SO_1001249 sequence http://purl.obolibrary.org/obo/SO_1001249 SO:1001249 http://purl.obolibrary.org/obo/SO_1001249 CDS_supported_by_domain_match_data SO:xp http://purl.obolibrary.org/obo/SO_1001251 A CDS that is supported by sequence similarity data. http://purl.obolibrary.org/obo/SO_1001251 CDS supported by sequence similarity data http://purl.obolibrary.org/obo/SO_1001251 sequence http://purl.obolibrary.org/obo/SO_1001251 SO:1001251 http://purl.obolibrary.org/obo/SO_1001251 CDS_supported_by_sequence_similarity_data SO:ke http://purl.obolibrary.org/obo/SO_1001254 A CDS that is predicted. http://purl.obolibrary.org/obo/SO_1001254 CDS predicted http://purl.obolibrary.org/obo/SO_1001254 sequence http://purl.obolibrary.org/obo/SO_1001254 SO:1001254 http://purl.obolibrary.org/obo/SO_1001254 CDS_predicted http://purl.obolibrary.org/obo/SO_1001255 sequence http://purl.obolibrary.org/obo/SO_1001255 SO:1001255 http://purl.obolibrary.org/obo/SO_1001255 status_of_coding_sequence http://purl.obolibrary.org/obo/SO_1001255 true SO:xp http://purl.obolibrary.org/obo/SO_1001259 A CDS that is supported by similarity to EST or cDNA data. http://purl.obolibrary.org/obo/SO_1001259 CDS supported by EST or cDNA data http://purl.obolibrary.org/obo/SO_1001259 sequence http://purl.obolibrary.org/obo/SO_1001259 SO:1001259 http://purl.obolibrary.org/obo/SO_1001259 CDS_supported_by_EST_or_cDNA_data PMID:12519954 SO:ke http://purl.obolibrary.org/obo/SO_1001260 A Shine-Dalgarno sequence that stimulates recoding through interactions with the anti-Shine-Dalgarno in the RNA of small ribosomal subunits of translating ribosomes. The signal is only operative in Bacteria. http://purl.obolibrary.org/obo/SO_1001260 internal Shine Dalgarno sequence http://purl.obolibrary.org/obo/SO_1001260 internal Shine-Dalgarno sequence http://purl.obolibrary.org/obo/SO_1001260 sequence http://purl.obolibrary.org/obo/SO_1001260 SO:1001260 http://purl.obolibrary.org/obo/SO_1001260 internal_Shine_Dalgarno_sequence http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=8811194&dopt=Abstract http://purl.obolibrary.org/obo/SO_1001261 The sequence of a mature mRNA transcript, modified before translation or during translation, usually by special cis-acting signals. http://purl.obolibrary.org/obo/SO_1001261 recoded mRNA http://purl.obolibrary.org/obo/SO_1001261 sequence http://purl.obolibrary.org/obo/SO_1001261 SO:1001261 http://purl.obolibrary.org/obo/SO_1001261 recoded_mRNA SO:ke http://purl.obolibrary.org/obo/SO_1001262 An attribute describing a translational frameshift of -1. http://purl.obolibrary.org/obo/SO_1001262 minus 1 translationally frameshifted http://purl.obolibrary.org/obo/SO_1001262 sequence http://purl.obolibrary.org/obo/SO_1001262 SO:1001262 http://purl.obolibrary.org/obo/SO_1001262 minus_1_translationally_frameshifted SO:ke http://purl.obolibrary.org/obo/SO_1001263 An attribute describing a translational frameshift of +1. http://purl.obolibrary.org/obo/SO_1001263 plus 1 translationally frameshifted http://purl.obolibrary.org/obo/SO_1001263 sequence http://purl.obolibrary.org/obo/SO_1001263 SO:1001263 http://purl.obolibrary.org/obo/SO_1001263 plus_1_translationally_frameshifted http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=8811194&dopt=Abstract http://purl.obolibrary.org/obo/SO_1001264 A recoded_mRNA where translation was suspended at a particular codon and resumed at a particular non-overlapping downstream codon. http://purl.obolibrary.org/obo/SO_1001264 mRNA recoded by translational bypass http://purl.obolibrary.org/obo/SO_1001264 sequence http://purl.obolibrary.org/obo/SO_1001264 SO:1001264 http://purl.obolibrary.org/obo/SO_1001264 mRNA_recoded_by_translational_bypass SO:ma http://purl.obolibrary.org/obo/SO_1001265 A recoded_mRNA that was modified by an alteration of codon meaning. http://purl.obolibrary.org/obo/SO_1001265 mRNA recoded by codon redefinition http://purl.obolibrary.org/obo/SO_1001265 sequence http://purl.obolibrary.org/obo/SO_1001265 SO:1001265 http://purl.obolibrary.org/obo/SO_1001265 mRNA_recoded_by_codon_redefinition http://purl.obolibrary.org/obo/SO_1001266 sequence http://purl.obolibrary.org/obo/SO_1001266 SO:1001266 http://purl.obolibrary.org/obo/SO_1001266 stop_codon_redefinition_as_selenocysteine http://purl.obolibrary.org/obo/SO_1001266 true http://purl.obolibrary.org/obo/SO_1001267 sequence http://purl.obolibrary.org/obo/SO_1001267 SO:1001267 http://purl.obolibrary.org/obo/SO_1001267 stop_codon_readthrough http://purl.obolibrary.org/obo/SO_1001267 true http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=12519954&dopt=Abstract http://purl.obolibrary.org/obo/SO_1001268 A site in an mRNA sequence that stimulates the recoding of a region in the same mRNA. http://purl.obolibrary.org/obo/SO_1001268 recoding stimulatory region http://purl.obolibrary.org/obo/SO_1001268 recoding stimulatory signal http://purl.obolibrary.org/obo/SO_1001268 sequence http://purl.obolibrary.org/obo/SO_1001268 SO:1001268 http://purl.obolibrary.org/obo/SO_1001268 recoding_stimulatory_region SO:ke http://purl.obolibrary.org/obo/SO_1001269 A non-canonical start codon with 4 base pairs. http://purl.obolibrary.org/obo/SO_1001269 4bp start codon http://purl.obolibrary.org/obo/SO_1001269 four bp start codon http://purl.obolibrary.org/obo/SO_1001269 sequence http://purl.obolibrary.org/obo/SO_1001269 SO:1001269 http://purl.obolibrary.org/obo/SO_1001269 four_bp_start_codon http://purl.obolibrary.org/obo/SO_1001270 sequence http://purl.obolibrary.org/obo/SO_1001270 SO:1001270 http://purl.obolibrary.org/obo/SO_1001270 stop_codon_redefinition_as_pyrrolysine http://purl.obolibrary.org/obo/SO_1001270 true PMID:9301331 SO:ma http://purl.obolibrary.org/obo/SO_1001271 An intron characteristic of Archaeal tRNA and rRNA genes, where intron transcript generates a bulge-helix-bulge motif that is recognised by a splicing endoribonuclease. http://purl.obolibrary.org/obo/SO_1001271 archaeal intron http://purl.obolibrary.org/obo/SO_1001271 sequence http://purl.obolibrary.org/obo/SO_1001271 SO:1001271 http://purl.obolibrary.org/obo/SO_1001271 Intron characteristic of tRNA genes; splices by an endonuclease-ligase mediated mechanism. http://purl.obolibrary.org/obo/SO_1001271 archaeal_intron SO:ke http://purl.obolibrary.org/obo/SO_1001272 An intron found in tRNA that is spliced via endonucleolytic cleavage and ligation rather than transesterification. http://purl.obolibrary.org/obo/SO_1001272 pre-tRNA intron http://purl.obolibrary.org/obo/SO_1001272 tRNA intron http://purl.obolibrary.org/obo/SO_1001272 sequence http://purl.obolibrary.org/obo/SO_1001272 SO:1001272 http://purl.obolibrary.org/obo/SO_1001272 Could be a cross product with Gene ontology, GO:0006388. http://purl.obolibrary.org/obo/SO_1001272 tRNA_intron SO:ke http://purl.obolibrary.org/obo/SO_1001273 A non-canonical start codon of sequence CTG. http://purl.obolibrary.org/obo/SO_1001273 CTG start codon http://purl.obolibrary.org/obo/SO_1001273 sequence http://purl.obolibrary.org/obo/SO_1001273 SO:1001273 http://purl.obolibrary.org/obo/SO_1001273 CTG_start_codon http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00031 http://purl.obolibrary.org/obo/SO_1001274 The incorporation of selenocysteine into a protein sequence is directed by an in-frame UGA codon (usually a stop codon) within the coding region of the mRNA. Selenoprotein mRNAs contain a conserved secondary structure in the 3' UTR that is required for the distinction of UGA stop from UGA selenocysteine. The selenocysteine insertion sequence (SECIS) is around 60 nt in length and adopts a hairpin structure which is sufficiently well-defined and conserved to act as a computational screen for selenoprotein genes. wiki http://purl.obolibrary.org/obo/SO_1001274 http://en.wikipedia.org/wiki/SECIS_element http://purl.obolibrary.org/obo/SO_1001274 SECIS element http://purl.obolibrary.org/obo/SO_1001274 sequence http://purl.obolibrary.org/obo/SO_1001274 SO:1001274 http://purl.obolibrary.org/obo/SO_1001274 SECIS_element SO:ma http://purl.obolibrary.org/obo/SO_1001275 Sequence coding for a short, single-stranded, DNA sequence via a retrotransposed RNA intermediate; characteristic of some microbial genomes. http://purl.obolibrary.org/obo/SO_1001275 sequence http://purl.obolibrary.org/obo/SO_1001275 SO:1001275 http://purl.obolibrary.org/obo/SO_1001275 retron SO:ke http://purl.obolibrary.org/obo/SO_1001277 The recoding stimulatory signal located downstream of the recoding site. http://purl.obolibrary.org/obo/SO_1001277 three prime recoding site http://purl.obolibrary.org/obo/SO_1001277 sequence http://purl.obolibrary.org/obo/SO_1001277 SO:1001277 http://purl.obolibrary.org/obo/SO_1001277 three_prime_recoding_site PMID:12519954 SO:ke http://purl.obolibrary.org/obo/SO_1001279 A recoding stimulatory region, the stem-loop secondary structural element is downstream of the redefined region. http://purl.obolibrary.org/obo/SO_1001279 three prime stem loop structure http://purl.obolibrary.org/obo/SO_1001279 sequence http://purl.obolibrary.org/obo/SO_1001279 SO:1001279 http://purl.obolibrary.org/obo/SO_1001279 three_prime_stem_loop_structure SO:ke http://purl.obolibrary.org/obo/SO_1001280 The recoding stimulatory signal located upstream of the recoding site. http://purl.obolibrary.org/obo/SO_1001280 five prime recoding site http://purl.obolibrary.org/obo/SO_1001280 sequence http://purl.obolibrary.org/obo/SO_1001280 SO:1001280 http://purl.obolibrary.org/obo/SO_1001280 five_prime_recoding_site PMID:12519954 SO:ke http://purl.obolibrary.org/obo/SO_1001281 Four base pair sequence immediately downstream of the redefined region. The redefined region is a frameshift site. The quadruplet is 2 overlapping codons. http://purl.obolibrary.org/obo/SO_1001281 flanking three prime quadruplet recoding signal http://purl.obolibrary.org/obo/SO_1001281 sequence http://purl.obolibrary.org/obo/SO_1001281 SO:1001281 http://purl.obolibrary.org/obo/SO_1001281 flanking_three_prime_quadruplet_recoding_signal SO:ke http://purl.obolibrary.org/obo/SO_1001282 A stop codon signal for a UAG stop codon redefinition. http://purl.obolibrary.org/obo/SO_1001282 UAG stop codon signal http://purl.obolibrary.org/obo/SO_1001282 sequence http://purl.obolibrary.org/obo/SO_1001282 SO:1001282 http://purl.obolibrary.org/obo/SO_1001282 UAG_stop_codon_signal SO:ke http://purl.obolibrary.org/obo/SO_1001283 A stop codon signal for a UAA stop codon redefinition. http://purl.obolibrary.org/obo/SO_1001283 UAA stop codon signal http://purl.obolibrary.org/obo/SO_1001283 sequence http://purl.obolibrary.org/obo/SO_1001283 SO:1001283 http://purl.obolibrary.org/obo/SO_1001283 UAA_stop_codon_signal ISBN:0198506732 http://purl.obolibrary.org/obo/SO_1001284 A group of genes, whether linked as a cluster or not, that respond to a common regulatory signal. wiki http://purl.obolibrary.org/obo/SO_1001284 http://en.wikipedia.org/wiki/Regulon http://purl.obolibrary.org/obo/SO_1001284 sequence http://purl.obolibrary.org/obo/SO_1001284 SO:1001284 http://purl.obolibrary.org/obo/SO_1001284 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_1001284 regulon SO:ke http://purl.obolibrary.org/obo/SO_1001285 A stop codon signal for a UGA stop codon redefinition. http://purl.obolibrary.org/obo/SO_1001285 UGA stop codon signal http://purl.obolibrary.org/obo/SO_1001285 sequence http://purl.obolibrary.org/obo/SO_1001285 SO:1001285 http://purl.obolibrary.org/obo/SO_1001285 UGA_stop_codon_signal PMID:12519954 SO:ke http://purl.obolibrary.org/obo/SO_1001286 A recoding stimulatory signal, downstream sequence important for recoding that contains repetitive elements. http://purl.obolibrary.org/obo/SO_1001286 three prime repeat recoding signal http://purl.obolibrary.org/obo/SO_1001286 sequence http://purl.obolibrary.org/obo/SO_1001286 SO:1001286 http://purl.obolibrary.org/obo/SO_1001286 three_prime_repeat_recoding_signal http://www.ncbi.nlm.nih.gov:80/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=8709208&dopt=Abstract http://purl.obolibrary.org/obo/SO_1001287 A recoding signal that is found many hundreds of nucleotides 3' of a redefined stop codon. http://purl.obolibrary.org/obo/SO_1001287 distant three prime recoding signal http://purl.obolibrary.org/obo/SO_1001287 sequence http://purl.obolibrary.org/obo/SO_1001287 SO:1001287 http://purl.obolibrary.org/obo/SO_1001287 distant_three_prime_recoding_signal PMID:12519954 SO:ke http://purl.obolibrary.org/obo/SO_1001288 A recoding stimulatory signal that is a stop codon and has effect on efficiency of recoding. http://purl.obolibrary.org/obo/SO_1001288 stop codon signal http://purl.obolibrary.org/obo/SO_1001288 sequence http://purl.obolibrary.org/obo/SO_1001288 SO:1001288 http://purl.obolibrary.org/obo/SO_1001288 This term does not include the stop codons that are redefined. An example would be a stop codon that partially overlapped a frame shifting site would be an example stimulatory signal. http://purl.obolibrary.org/obo/SO_1001288 stop_codon_signal SO:ke http://purl.obolibrary.org/obo/SO_2000061 The sequence referred to by an entry in a databank such as GenBank or SwissProt. http://purl.obolibrary.org/obo/SO_2000061 databank entry http://purl.obolibrary.org/obo/SO_2000061 sequence http://purl.obolibrary.org/obo/SO_2000061 accession http://purl.obolibrary.org/obo/SO_2000061 SO:2000061 http://purl.obolibrary.org/obo/SO_2000061 http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/SO_2000061 databank_entry GOC:add http://purl.obolibrary.org/obo/SO_3000000 A gene component region which acts as a recombinational unit of a gene whose functional form is generated through somatic recombination. http://purl.obolibrary.org/obo/SO_3000000 gene segment http://purl.obolibrary.org/obo/SO_3000000 sequence http://purl.obolibrary.org/obo/SO_3000000 SO:3000000 http://purl.obolibrary.org/obo/SO_3000000 Requested by tracker 2021594, July 2008, by Alex. http://purl.obolibrary.org/obo/SO_3000000 gene_segment 2015-09-04 http://purl.obolibrary.org/obo/so-xp.obo#AAMOD amino acid modification http://purl.obolibrary.org/obo/so-xp.obo#BS biosapiens http://purl.obolibrary.org/obo/so-xp.obo#DBVAR database of genomic structural variation http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD http://www.geneontology.org/formats/oboInOwl#hasExactSynonym http://purl.obolibrary.org/obo/so-xp.obo#RNAMOD RNA modification http://purl.obolibrary.org/obo/so-xp.obo#SOFA SO feature annotation http://purl.obolibrary.org/obo/so-xp.obo#VAR variant annotation term http://purl.obolibrary.org/obo/so-xp.obo#aa1 amino acid 1 letter code http://purl.obolibrary.org/obo/so-xp.obo#aa3 amino acid 3 letter code PMID:20226267 SO:ke http://purl.obolibrary.org/obo/so-xp.obo#adjacent_to A geometric operator, specified in Egenhofer 1989. Two features meet if they share a junction on the sequence. X adjacent_to Y iff X and Y share a boundary but do not overlap. http://purl.obolibrary.org/obo/so-xp.obo#adjacent_to sequence http://purl.obolibrary.org/obo/so-xp.obo#adjacent_to adjacent_to http://purl.obolibrary.org/obo/so-xp.obo#adjacent_to http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/so-xp.obo#adjacent_to adjacent_to http://purl.obolibrary.org/obo/so-xp.obo#associated_with sequence http://purl.obolibrary.org/obo/so-xp.obo#associated_with associated_with http://purl.obolibrary.org/obo/so-xp.obo#associated_with This relationship is vague and up for discussion. http://purl.obolibrary.org/obo/so-xp.obo#associated_with associated_with http://purl.obolibrary.org/obo/so-xp.obo#biosapiens biosapiens protein feature ontology SO:ke http://purl.obolibrary.org/obo/so-xp.obo#complete_evidence_for_feature B is complete_evidence_for_feature A if the extent (5' and 3' boundaries) and internal boundaries of B fully support the extent and internal boundaries of A. http://purl.obolibrary.org/obo/so-xp.obo#complete_evidence_for_feature sequence http://purl.obolibrary.org/obo/so-xp.obo#complete_evidence_for_feature complete_evidence_for_feature http://purl.obolibrary.org/obo/so-xp.obo#complete_evidence_for_feature If A is a feature with multiple regions such as a multi exon transcript, the supporting EST evidence is complete if each of the regions is supported by an equivalent region in B. Also there must be no extra regions in B that are not represented in A. This relationship was requested by jeltje on the SO term tracker. The thread for the discussion is available can be accessed via tracker ID:1917222. http://purl.obolibrary.org/obo/so-xp.obo#complete_evidence_for_feature complete_evidence_for_feature PMID:20226267 http://purl.obolibrary.org/obo/so-xp.obo#connects_on X connects_on Y, Z, R iff whenever Z is on a R, X is adjacent to a Y and adjacent to a Z. http://purl.obolibrary.org/obo/so-xp.obo#connects_on kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#connects_on 2010-10-14T01:38:51Z http://purl.obolibrary.org/obo/so-xp.obo#connects_on sequence http://purl.obolibrary.org/obo/so-xp.obo#connects_on connects_on http://purl.obolibrary.org/obo/so-xp.obo#connects_on Example: A splice_junction connects_on exon, exon, mature_transcript. http://purl.obolibrary.org/obo/so-xp.obo#connects_on connects_on PMID:20226267 http://purl.obolibrary.org/obo/so-xp.obo#contained_by X contained_by Y iff X starts after start of Y and X ends before end of Y. http://purl.obolibrary.org/obo/so-xp.obo#contained_by kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#contained_by 2010-10-14T01:26:16Z http://purl.obolibrary.org/obo/so-xp.obo#contained_by sequence http://purl.obolibrary.org/obo/so-xp.obo#contained_by contained_by http://purl.obolibrary.org/obo/so-xp.obo#contained_by The inverse is contains. Example: intein contained_by immature_peptide_region. http://purl.obolibrary.org/obo/so-xp.obo#contained_by contained_by PMID:20226267 http://purl.obolibrary.org/obo/so-xp.obo#contains The inverse of contained_by. http://purl.obolibrary.org/obo/so-xp.obo#contains kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#contains 2010-10-14T01:32:15Z http://purl.obolibrary.org/obo/so-xp.obo#contains sequence http://purl.obolibrary.org/obo/so-xp.obo#contains contains http://purl.obolibrary.org/obo/so-xp.obo#contains Example: pre_miRNA contains miRNA_loop. http://purl.obolibrary.org/obo/so-xp.obo#contains contains http://purl.obolibrary.org/obo/so-xp.obo#dbsnp dbsnp variant terms http://purl.obolibrary.org/obo/so-xp.obo#dbvar DBVAR http://purl.obolibrary.org/obo/so-xp.obo#derives_from sequence http://purl.obolibrary.org/obo/so-xp.obo#derives_from derives_from http://purl.obolibrary.org/obo/so-xp.obo#derives_from http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/so-xp.obo#derives_from derives_from PMID:20226267 http://purl.obolibrary.org/obo/so-xp.obo#disconnected_from X is disconnected_from Y iff it is not the case that X overlaps Y. http://purl.obolibrary.org/obo/so-xp.obo#disconnected_from kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#disconnected_from 2010-10-14T01:42:10Z http://purl.obolibrary.org/obo/so-xp.obo#disconnected_from sequence http://purl.obolibrary.org/obo/so-xp.obo#disconnected_from disconnected_from http://purl.obolibrary.org/obo/so-xp.obo#disconnected_from disconnected_from http://purl.obolibrary.org/obo/so-xp.obo#ebi_variants ensembl variant terms http://purl.obolibrary.org/obo/so-xp.obo#edited_from kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#edited_from 2009-08-19T02:19:45Z http://purl.obolibrary.org/obo/so-xp.obo#edited_from sequence http://purl.obolibrary.org/obo/so-xp.obo#edited_from edited_from http://purl.obolibrary.org/obo/so-xp.obo#edited_from edited_from http://purl.obolibrary.org/obo/so-xp.obo#edited_to kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#edited_to 2009-08-19T02:19:11Z http://purl.obolibrary.org/obo/so-xp.obo#edited_to sequence http://purl.obolibrary.org/obo/so-xp.obo#edited_to edited_to http://purl.obolibrary.org/obo/so-xp.obo#edited_to edited_to SO:ke http://purl.obolibrary.org/obo/so-xp.obo#evidence_for_feature B is evidence_for_feature A, if an instance of B supports the existence of A. http://purl.obolibrary.org/obo/so-xp.obo#evidence_for_feature sequence http://purl.obolibrary.org/obo/so-xp.obo#evidence_for_feature evidence_for_feature http://purl.obolibrary.org/obo/so-xp.obo#evidence_for_feature This relationship was requested by nlw on the SO term tracker. The thread for the discussion is available can be accessed via tracker ID:1917222. http://purl.obolibrary.org/obo/so-xp.obo#evidence_for_feature evidence_for_feature SO:ke http://purl.obolibrary.org/obo/so-xp.obo#exemplar_of X is exemplar of Y if X is the best evidence for Y. http://purl.obolibrary.org/obo/so-xp.obo#exemplar_of sequence http://purl.obolibrary.org/obo/so-xp.obo#exemplar_of exemplar_of http://purl.obolibrary.org/obo/so-xp.obo#exemplar_of Tracker id: 2594157. http://purl.obolibrary.org/obo/so-xp.obo#exemplar_of exemplar_of PMID:20226267 http://purl.obolibrary.org/obo/so-xp.obo#finished_by Xy is finished_by Y if Y part of X, and X and Y share a 3' boundary. http://purl.obolibrary.org/obo/so-xp.obo#finished_by kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#finished_by 2010-10-14T01:45:45Z http://purl.obolibrary.org/obo/so-xp.obo#finished_by sequence http://purl.obolibrary.org/obo/so-xp.obo#finished_by finished_by http://purl.obolibrary.org/obo/so-xp.obo#finished_by Example CDS finished_by stop_codon. http://purl.obolibrary.org/obo/so-xp.obo#finished_by finished_by PMID:20226267 http://purl.obolibrary.org/obo/so-xp.obo#finishes X finishes Y if X is part_of Y and X and Y share a 3' or C terminal boundary. http://purl.obolibrary.org/obo/so-xp.obo#finishes kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#finishes 2010-10-14T02:17:53Z http://purl.obolibrary.org/obo/so-xp.obo#finishes sequence http://purl.obolibrary.org/obo/so-xp.obo#finishes finishes http://purl.obolibrary.org/obo/so-xp.obo#finishes Example: stop_codon finishes CDS. http://purl.obolibrary.org/obo/so-xp.obo#finishes finishes SO:ke http://purl.obolibrary.org/obo/so-xp.obo#gained X gained Y if X is a variant_of X' and Y part of X but not X'. http://purl.obolibrary.org/obo/so-xp.obo#gained kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#gained 2011-06-28T12:51:10Z http://purl.obolibrary.org/obo/so-xp.obo#gained sequence http://purl.obolibrary.org/obo/so-xp.obo#gained gained http://purl.obolibrary.org/obo/so-xp.obo#gained A relation with which to annotate the changes in a variant sequence with respect to a reference. For example a variant transcript may gain a stop codon not present in the reference sequence. http://purl.obolibrary.org/obo/so-xp.obo#gained gained http://purl.obolibrary.org/obo/so-xp.obo#genome_of sequence http://purl.obolibrary.org/obo/so-xp.obo#genome_of genome_of http://purl.obolibrary.org/obo/so-xp.obo#genome_of genome_of http://purl.obolibrary.org/obo/so-xp.obo#guided_by kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#guided_by 2009-08-19T02:27:04Z http://purl.obolibrary.org/obo/so-xp.obo#guided_by sequence http://purl.obolibrary.org/obo/so-xp.obo#guided_by guided_by http://purl.obolibrary.org/obo/so-xp.obo#guided_by guided_by http://purl.obolibrary.org/obo/so-xp.obo#guides kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#guides 2009-08-19T02:27:24Z http://purl.obolibrary.org/obo/so-xp.obo#guides sequence http://purl.obolibrary.org/obo/so-xp.obo#guides guides http://purl.obolibrary.org/obo/so-xp.obo#guides guides http://precedings.nature.com/documents/3495/version/1 http://purl.obolibrary.org/obo/so-xp.obo#has_integral_part X has_integral_part Y if and only if: X has_part Y and Y part_of X. http://purl.obolibrary.org/obo/so-xp.obo#has_integral_part kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#has_integral_part 2009-08-19T12:01:46Z http://purl.obolibrary.org/obo/so-xp.obo#has_integral_part sequence http://purl.obolibrary.org/obo/so-xp.obo#has_integral_part has_integral_part http://purl.obolibrary.org/obo/so-xp.obo#has_integral_part Example: mRNA has_integral_part CDS. http://purl.obolibrary.org/obo/so-xp.obo#has_integral_part has_integral_part http://purl.obolibrary.org/obo/so-xp.obo#has_origin sequence http://purl.obolibrary.org/obo/so-xp.obo#has_origin has_origin http://purl.obolibrary.org/obo/so-xp.obo#has_origin has_origin http://precedings.nature.com/documents/3495/version/1 http://purl.obolibrary.org/obo/so-xp.obo#has_part Inverse of part_of. http://purl.obolibrary.org/obo/so-xp.obo#has_part sequence http://purl.obolibrary.org/obo/so-xp.obo#has_part has_part http://purl.obolibrary.org/obo/so-xp.obo#has_part Example: operon has_part gene. http://purl.obolibrary.org/obo/so-xp.obo#has_part has_part http://purl.obolibrary.org/obo/so-xp.obo#has_quality sequence http://purl.obolibrary.org/obo/so-xp.obo#has_quality has_quality http://purl.obolibrary.org/obo/so-xp.obo#has_quality The relationship between a feature and an attribute. http://purl.obolibrary.org/obo/so-xp.obo#has_quality has_quality http://purl.obolibrary.org/obo/so-xp.obo#homologous_to sequence http://purl.obolibrary.org/obo/so-xp.obo#homologous_to homologous_to http://purl.obolibrary.org/obo/so-xp.obo#homologous_to http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/so-xp.obo#homologous_to homologous_to http://precedings.nature.com/documents/3495/version/1 http://purl.obolibrary.org/obo/so-xp.obo#integral_part_of X integral_part_of Y if and only if: X part_of Y and Y has_part X. http://purl.obolibrary.org/obo/so-xp.obo#integral_part_of kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#integral_part_of 2009-08-19T12:03:28Z http://purl.obolibrary.org/obo/so-xp.obo#integral_part_of sequence http://purl.obolibrary.org/obo/so-xp.obo#integral_part_of integral_part_of http://purl.obolibrary.org/obo/so-xp.obo#integral_part_of Example: exon integral_part_of transcript. http://purl.obolibrary.org/obo/so-xp.obo#integral_part_of integral_part_of PMID:20226267 http://purl.obolibrary.org/obo/so-xp.obo#is_consecutive_sequence_of R is_consecutive_sequence_of R iff every instance of R is equivalent to a collection of instances of U:u1, u2, un, such that no pair of ux uy is overlapping and for all ux, it is adjacent to ux-1 and ux+1, with the exception of the initial and terminal u1,and un (which may be identical). http://purl.obolibrary.org/obo/so-xp.obo#is_consecutive_sequence_of kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#is_consecutive_sequence_of 2010-10-14T02:19:48Z http://purl.obolibrary.org/obo/so-xp.obo#is_consecutive_sequence_of sequence http://purl.obolibrary.org/obo/so-xp.obo#is_consecutive_sequence_of is_consecutive_sequence_of http://purl.obolibrary.org/obo/so-xp.obo#is_consecutive_sequence_of Example: region is consecutive_sequence of base. http://purl.obolibrary.org/obo/so-xp.obo#is_consecutive_sequence_of is_consecutive_sequence_of SO:ke http://purl.obolibrary.org/obo/so-xp.obo#lost X lost Y if X is a variant_of X' and Y part of X' but not X. http://purl.obolibrary.org/obo/so-xp.obo#lost kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#lost 2011-06-28T12:53:16Z http://purl.obolibrary.org/obo/so-xp.obo#lost sequence http://purl.obolibrary.org/obo/so-xp.obo#lost lost http://purl.obolibrary.org/obo/so-xp.obo#lost A relation with which to annotate the changes in a variant sequence with respect to a reference. For example a variant transcript may have lost a stop codon present in the reference sequence. http://purl.obolibrary.org/obo/so-xp.obo#lost lost PMID:20226267 http://purl.obolibrary.org/obo/so-xp.obo#maximally_overlaps A maximally_overlaps X iff all parts of A (including A itself) overlap both A and Y. http://purl.obolibrary.org/obo/so-xp.obo#maximally_overlaps kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#maximally_overlaps 2010-10-14T01:34:48Z http://purl.obolibrary.org/obo/so-xp.obo#maximally_overlaps sequence http://purl.obolibrary.org/obo/so-xp.obo#maximally_overlaps maximally_overlaps http://purl.obolibrary.org/obo/so-xp.obo#maximally_overlaps Example: non_coding_region_of_exon maximally_overlaps the intersections of exon and UTR. http://purl.obolibrary.org/obo/so-xp.obo#maximally_overlaps maximally_overlaps http://purl.obolibrary.org/obo/so-xp.obo#member_of sequence http://purl.obolibrary.org/obo/so-xp.obo#member_of member_of http://purl.obolibrary.org/obo/so-xp.obo#member_of http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/so-xp.obo#member_of A subtype of part_of. Inverse is collection_of. Winston, M, Chaffin, R, Herrmann: A taxonomy of part-whole relations. Cognitive Science 1987, 11:417-444. http://purl.obolibrary.org/obo/so-xp.obo#member_of member_of SO:ke http://purl.obolibrary.org/obo/so-xp.obo#non_functional_homolog_of A relationship between a pseudogenic feature and its functional ancestor. http://purl.obolibrary.org/obo/so-xp.obo#non_functional_homolog_of sequence http://purl.obolibrary.org/obo/so-xp.obo#non_functional_homolog_of non_functional_homolog_of http://purl.obolibrary.org/obo/so-xp.obo#non_functional_homolog_of http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/so-xp.obo#non_functional_homolog_of non_functional_homolog_of http://purl.obolibrary.org/obo/so-xp.obo#orthologous_to sequence http://purl.obolibrary.org/obo/so-xp.obo#orthologous_to orthologous_to http://purl.obolibrary.org/obo/so-xp.obo#orthologous_to http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/so-xp.obo#orthologous_to orthologous_to PMID:20226267 http://purl.obolibrary.org/obo/so-xp.obo#overlaps X overlaps Y iff there exists some Z such that Z contained_by X and Z contained_by Y. http://purl.obolibrary.org/obo/so-xp.obo#overlaps kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#overlaps 2010-10-14T01:33:15Z http://purl.obolibrary.org/obo/so-xp.obo#overlaps sequence http://purl.obolibrary.org/obo/so-xp.obo#overlaps overlaps http://purl.obolibrary.org/obo/so-xp.obo#overlaps Example: coding_exon overlaps CDS. http://purl.obolibrary.org/obo/so-xp.obo#overlaps overlaps http://purl.obolibrary.org/obo/so-xp.obo#paralogous_to sequence http://purl.obolibrary.org/obo/so-xp.obo#paralogous_to paralogous_to http://purl.obolibrary.org/obo/so-xp.obo#paralogous_to http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/so-xp.obo#paralogous_to paralogous_to http://precedings.nature.com/documents/3495/version/1 http://purl.obolibrary.org/obo/so-xp.obo#part_of X part_of Y if X is a subregion of Y. http://purl.obolibrary.org/obo/so-xp.obo#part_of sequence http://purl.obolibrary.org/obo/so-xp.obo#part_of part_of http://purl.obolibrary.org/obo/so-xp.obo#part_of http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/so-xp.obo#part_of Example: amino_acid part_of polypeptide. http://purl.obolibrary.org/obo/so-xp.obo#part_of part_of SO:ke http://purl.obolibrary.org/obo/so-xp.obo#partial_evidence_for_feature B is partial_evidence_for_feature A if the extent of B supports part_of but not all of A. http://purl.obolibrary.org/obo/so-xp.obo#partial_evidence_for_feature sequence http://purl.obolibrary.org/obo/so-xp.obo#partial_evidence_for_feature partial_evidence_for_feature http://purl.obolibrary.org/obo/so-xp.obo#partial_evidence_for_feature partial_evidence_for_feature http://purl.obolibrary.org/obo/so-xp.obo#position_of sequence http://purl.obolibrary.org/obo/so-xp.obo#position_of position_of http://purl.obolibrary.org/obo/so-xp.obo#position_of position_of http://precedings.nature.com/documents/3495/version/1 http://purl.obolibrary.org/obo/so-xp.obo#processed_from Inverse of processed_into. http://purl.obolibrary.org/obo/so-xp.obo#processed_from kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#processed_from 2009-08-19T12:14:00Z http://purl.obolibrary.org/obo/so-xp.obo#processed_from sequence http://purl.obolibrary.org/obo/so-xp.obo#processed_from processed_from http://purl.obolibrary.org/obo/so-xp.obo#processed_from Example: miRNA processed_from miRNA_primary_transcript. http://purl.obolibrary.org/obo/so-xp.obo#processed_from processed_from http://precedings.nature.com/documents/3495/version/1 http://purl.obolibrary.org/obo/so-xp.obo#processed_into X is processed_into Y if a region X is modified to create Y. http://purl.obolibrary.org/obo/so-xp.obo#processed_into kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#processed_into 2009-08-19T12:15:02Z http://purl.obolibrary.org/obo/so-xp.obo#processed_into sequence http://purl.obolibrary.org/obo/so-xp.obo#processed_into processed_into http://purl.obolibrary.org/obo/so-xp.obo#processed_into Example: miRNA_primary_transcript processed into miRNA. http://purl.obolibrary.org/obo/so-xp.obo#processed_into processed_into http://purl.obolibrary.org/obo/so-xp.obo#recombined_from kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#recombined_from 2009-08-19T02:21:03Z http://purl.obolibrary.org/obo/so-xp.obo#recombined_from sequence http://purl.obolibrary.org/obo/so-xp.obo#recombined_from recombined_from http://purl.obolibrary.org/obo/so-xp.obo#recombined_from recombined_from http://purl.obolibrary.org/obo/so-xp.obo#recombined_to kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#recombined_to 2009-08-19T02:20:07Z http://purl.obolibrary.org/obo/so-xp.obo#recombined_to sequence http://purl.obolibrary.org/obo/so-xp.obo#recombined_to recombined_to http://purl.obolibrary.org/obo/so-xp.obo#recombined_to recombined_to http://purl.obolibrary.org/obo/so-xp.obo#sequence_of sequence http://purl.obolibrary.org/obo/so-xp.obo#sequence_of sequence_of http://purl.obolibrary.org/obo/so-xp.obo#sequence_of sequence_of http://purl.obolibrary.org/obo/so-xp.obo#similar_to sequence http://purl.obolibrary.org/obo/so-xp.obo#similar_to similar_to http://purl.obolibrary.org/obo/so-xp.obo#similar_to http://purl.obolibrary.org/obo/so-xp.obo#SOFA http://purl.obolibrary.org/obo/so-xp.obo#similar_to similar_to PMID:20226267 http://purl.obolibrary.org/obo/so-xp.obo#started_by X is strted_by Y if Y is part_of X and X and Y share a 5' boundary. http://purl.obolibrary.org/obo/so-xp.obo#started_by kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#started_by 2010-10-14T01:43:55Z http://purl.obolibrary.org/obo/so-xp.obo#started_by sequence http://purl.obolibrary.org/obo/so-xp.obo#started_by started_by http://purl.obolibrary.org/obo/so-xp.obo#started_by Example: CDS started_by start_codon. http://purl.obolibrary.org/obo/so-xp.obo#started_by started_by PMID:20226267 http://purl.obolibrary.org/obo/so-xp.obo#starts X starts Y if X is part of Y, and A and Y share a 5' or N-terminal boundary. http://purl.obolibrary.org/obo/so-xp.obo#starts kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#starts 2010-10-14T01:47:53Z http://purl.obolibrary.org/obo/so-xp.obo#starts sequence http://purl.obolibrary.org/obo/so-xp.obo#starts starts http://purl.obolibrary.org/obo/so-xp.obo#starts Example: start_codon starts CDS. http://purl.obolibrary.org/obo/so-xp.obo#starts starts http://purl.obolibrary.org/obo/so-xp.obo#trans_spliced_from kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#trans_spliced_from 2009-08-19T02:22:14Z http://purl.obolibrary.org/obo/so-xp.obo#trans_spliced_from sequence http://purl.obolibrary.org/obo/so-xp.obo#trans_spliced_from trans_spliced_from http://purl.obolibrary.org/obo/so-xp.obo#trans_spliced_from trans_spliced_from http://purl.obolibrary.org/obo/so-xp.obo#trans_spliced_to kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#trans_spliced_to 2009-08-19T02:22:00Z http://purl.obolibrary.org/obo/so-xp.obo#trans_spliced_to sequence http://purl.obolibrary.org/obo/so-xp.obo#trans_spliced_to trans_spliced_to http://purl.obolibrary.org/obo/so-xp.obo#trans_spliced_to trans_spliced_to http://precedings.nature.com/documents/3495/version/1 http://purl.obolibrary.org/obo/so-xp.obo#transcribed_from X is transcribed_from Y if X is synthesized from template Y. http://purl.obolibrary.org/obo/so-xp.obo#transcribed_from kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#transcribed_from 2009-08-19T12:05:39Z http://purl.obolibrary.org/obo/so-xp.obo#transcribed_from sequence http://purl.obolibrary.org/obo/so-xp.obo#transcribed_from transcribed_from http://purl.obolibrary.org/obo/so-xp.obo#transcribed_from Example: primary_transcript transcribed_from gene. http://purl.obolibrary.org/obo/so-xp.obo#transcribed_from transcribed_from http://precedings.nature.com/documents/3495/version/1 http://purl.obolibrary.org/obo/so-xp.obo#transcribed_to Inverse of transcribed_from. http://purl.obolibrary.org/obo/so-xp.obo#transcribed_to kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#transcribed_to 2009-08-19T12:08:24Z http://purl.obolibrary.org/obo/so-xp.obo#transcribed_to sequence http://purl.obolibrary.org/obo/so-xp.obo#transcribed_to transcribed_to http://purl.obolibrary.org/obo/so-xp.obo#transcribed_to Example: gene transcribed_to primary_transcript. http://purl.obolibrary.org/obo/so-xp.obo#transcribed_to transcribed_to http://precedings.nature.com/documents/3495/version/1 http://purl.obolibrary.org/obo/so-xp.obo#translates_to Inverse of translation _of. http://purl.obolibrary.org/obo/so-xp.obo#translates_to kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#translates_to 2009-08-19T12:11:53Z http://purl.obolibrary.org/obo/so-xp.obo#translates_to sequence http://purl.obolibrary.org/obo/so-xp.obo#translates_to translates_to http://purl.obolibrary.org/obo/so-xp.obo#translates_to Example: codon translates_to amino_acid. http://purl.obolibrary.org/obo/so-xp.obo#translates_to translates_to http://precedings.nature.com/documents/3495/version/1 http://purl.obolibrary.org/obo/so-xp.obo#translation_of X is translation of Y if Y is translated by ribosome to create X. http://purl.obolibrary.org/obo/so-xp.obo#translation_of kareneilbeck http://purl.obolibrary.org/obo/so-xp.obo#translation_of 2009-08-19T12:09:59Z http://purl.obolibrary.org/obo/so-xp.obo#translation_of sequence http://purl.obolibrary.org/obo/so-xp.obo#translation_of translation_of http://purl.obolibrary.org/obo/so-xp.obo#translation_of Example: Polypeptide translation_of CDS. http://purl.obolibrary.org/obo/so-xp.obo#translation_of translation_of SO:immuno_workshop http://purl.obolibrary.org/obo/so-xp.obo#variant_of A' is a variant (mutation) of A = definition every instance of A' is either an immediate mutation of some instance of A, or there is a chain of immediate mutation processes linking A' to some instance of A. http://purl.obolibrary.org/obo/so-xp.obo#variant_of sequence http://purl.obolibrary.org/obo/so-xp.obo#variant_of variant_of http://purl.obolibrary.org/obo/so-xp.obo#variant_of Added to SO during the immunology workshop, June 2007. This relationship was approved by Barry Smith. http://purl.obolibrary.org/obo/so-xp.obo#variant_of variant_of http://www.geneontology.org/formats/oboInOwl#SubsetProperty subset_property http://www.geneontology.org/formats/oboInOwl#SynonymTypeProperty synonym_type_property http://www.geneontology.org/formats/oboInOwl#consider consider http://www.geneontology.org/formats/oboInOwl#hasAlternativeId has_alternative_id http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym has_broad_synonym http://www.geneontology.org/formats/oboInOwl#hasDbXref database_cross_reference http://www.geneontology.org/formats/oboInOwl#hasExactSynonym has_exact_synonym http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym has_narrow_synonym http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion has_obo_format_version http://www.geneontology.org/formats/oboInOwl#hasOBONamespace has_obo_namespace http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym has_related_synonym http://www.geneontology.org/formats/oboInOwl#hasScope has_scope http://www.geneontology.org/formats/oboInOwl#hasSynonymType has_synonym_type http://www.geneontology.org/formats/oboInOwl#inSubset in_subset