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One homolog of each morphologic type goes into each of the resulting chromosome sets.", "xrefs" : [ "GOC:ai", "GOC:jl" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pombe" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "mitotic chromosome segregation" }, { "pred" : "hasNarrowSynonym", "val" : "mitotic sister-chromatid adhesion release" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-2500257", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Resolution of Sister Chromatid Cohesion" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0016359" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000071", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", "val" : "http://purl.obolibrary.org/obo/IAO_0000227" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0007052" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000072", "lbl" : "obsolete M phase specific microtubule process", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. A microtubule-based process that occurs only during M phase of the cell cycle.", "xrefs" : [ "GOC:mah" ] }, "comments" : [ "This term was made obsolete because terms already exist for centrosome/spindle organization which would be more suitable for the existing annotations, and the phase could be captured as an annotation extension if necessary." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "M phase specific microtubule process" }, { "pred" : "hasExactSynonym", "val" : "M-phase specific microtubule process" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0007017" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000073", "lbl" : "initial mitotic spindle pole body separation", "type" : "CLASS", "meta" : { "definition" : { "val" : "The release of duplicated mitotic spindle pole bodies (SPBs) that begins with the nucleation of microtubules from each SPB within the nucleus, leading to V-shaped spindle microtubules. Interpolar microtubules that elongate from each pole are interconnected, forming overlapping microtubules. Capturing and antiparallel sliding apart of microtubules promotes the initial separation of the SPB.", "xrefs" : [ "GOC:sgd_curators", "GOC:vw" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0030475" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000074", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", "val" : "http://purl.obolibrary.org/obo/IAO_0000227" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0051726" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000075", "lbl" : "cell cycle checkpoint signaling", "type" : "CLASS", "meta" : { "definition" : { "val" : "A signaling process that controls cell cycle progression by monitoring the integrity of specific cell cycle events. A cell cycle checkpoint begins with detection of deficiencies or defects and ends with signal transduction.", "xrefs" : [ "GOC:mtg_cell_cycle" ] }, "comments" : [ "This term should not be used in direct manual annotation as it should always be possible to minimally designate mitotic or meiotic checkpoint, and usually to additionally specify the checkpoint (i.e mitotic spindle assembly checkpoint, mitotic DNA damage checkpoint etc). Note also that the effector processes are not part of the checkpoint but are positively regulated by the checkpoint signaling and should not be annotated here." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell cycle checkpoint" }, { "pred" : "hasExactSynonym", "val" : "signal transduction involved in G2/M transition checkpoint" }, { "pred" : "hasExactSynonym", "val" : "signal transduction involved in cell cycle checkpoint" }, { "pred" : "hasNarrowSynonym", "val" : "G1/S checkpoint" }, { "pred" : "hasNarrowSynonym", "val" : "G1/S transition checkpoint" }, { "pred" : "hasNarrowSynonym", "val" : "G2/M checkpoint" }, { "pred" : "hasNarrowSynonym", "val" : "G2/M transition checkpoint" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-69620", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Cell Cycle Checkpoints" } ] } }, { "val" : "Wikipedia:Cell_cycle_checkpoint" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20935" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0031576" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0071779" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0072395" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0072404" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0072407" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000076", "lbl" : "DNA replication checkpoint signaling", "type" : "CLASS", "meta" : { "definition" : { "val" : "A signal transduction process that contributes to a DNA replication checkpoint, that prevents the initiation of nuclear division until DNA replication is complete, thereby ensuring that progeny inherit a full complement of the genome.", "xrefs" : [ "GOC:curators", "GOC:rn", "PMID:11728327", "PMID:12537518" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "DNA replication checkpoint" }, { "pred" : "hasExactSynonym", "val" : "signal transduction involved in DNA replication checkpoint" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20935" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0072437" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000077", "lbl" : "DNA damage checkpoint signaling", "type" : "CLASS", "meta" : { "definition" : { "val" : "A signal transduction process that contributes to a DNA damage checkpoint.", "xrefs" : [ "GOC:mah" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "DNA damage checkpoint" }, { "pred" : "hasExactSynonym", "val" : "signal transduction involved in DNA damage checkpoint" }, { "pred" : "hasNarrowSynonym", "val" : "DNA damage response, signal transduction resulting in cell cycle arrest" } ], "xrefs" : [ { "val" : "Wikipedia:DNA_damage_checkpoint" }, { "val" : "Wikipedia:Postreplication_checkpoint" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "mah" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-12-08T04:18:11Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0072422" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000078", "lbl" : "obsolete cytokinesis after mitosis checkpoint", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. A mitotic cell cycle checkpoint that detects whether chromosome segregation is complete and negatively regulates cytokinesis following mitosis.", "xrefs" : [ "GOC:mtg_cell_cycle" ] }, "comments" : [ "The reason this term was made obsolete is that the two terms cytokinesis checkpoint (GO:0031565) and cytokinesis after mitosis (GO:0000078) were conflated in meaning." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cell morphogenesis checkpoint", "xrefs" : [ "GOC:dph", "GOC:vw" ] }, { "pred" : "hasExactSynonym", "val" : "cell shape checkpoint" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0044878" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0044879" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000079", "lbl" : "regulation of cyclin-dependent protein serine/threonine kinase activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process that modulates the frequency, rate or extent of cyclin-dependent protein serine/threonine kinase activity.", "xrefs" : [ "GOC:curators", "GOC:pr" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_obsoletion_candidate" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "regulation of cyclin-dependent protein kinase activity" }, { "pred" : "hasExactSynonym", "val" : "regulation of CDK activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000080", "lbl" : "mitotic G1 phase", "type" : "CLASS", "meta" : { "definition" : { "val" : "The cell cycle 'gap' phase which is the interval between the completion of DNA segregation by mitosis and the beginning of DNA synthesis.", "xrefs" : [ "GOC:mtg_cell_cycle" ] }, "comments" : [ "Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during)." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "G1 phase of mitotic cell cycle" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-69236", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "G1 Phase" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000081", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", "val" : "http://purl.obolibrary.org/obo/IAO_0000227" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0007089" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000082", "lbl" : "G1/S transition of mitotic cell cycle", "type" : "CLASS", "meta" : { "definition" : { "val" : "The mitotic cell cycle transition by which a cell in G1 commits to S phase. The process begins with the build up of G1 cyclin-dependent kinase (G1 CDK), resulting in the activation of transcription of G1 cyclins. The process ends with the positive feedback of the G1 cyclins on the G1 CDK which commits the cell to S phase, in which DNA replication is initiated.", "xrefs" : [ "GOC:mtg_cell_cycle" ] }, "xrefs" : [ { "val" : "Reactome:R-HSA-69206", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "G1/S Transition" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000083", "lbl" : "obsolete regulation of transcription involved in G1/S transition of mitotic cell cycle", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. Any process that regulates transcription such that the target genes are involved in the transition between G1 and S phase of the mitotic cell cycle.", "xrefs" : [ "GOC:mtg_cell_cycle" ] }, "comments" : [ "This term was obsoleted because it represents a GO-CAM model." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/26002" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0000082" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0006357" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000084", "lbl" : "mitotic S phase", "type" : "CLASS", "meta" : { "definition" : { "val" : "The cell cycle phase, following G1, during which DNA synthesis takes place as part of a mitotic cell cycle.", "xrefs" : [ "GOC:mtg_cell_cycle" ] }, "comments" : [ "Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during)." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "S phase of mitotic cell cycle" }, { "pred" : "hasExactSynonym", "val" : "S-phase of mitotic cell cycle" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000085", "lbl" : "mitotic G2 phase", "type" : "CLASS", "meta" : { "definition" : { "val" : "The cell cycle 'gap' phase which is the interval between the completion of DNA synthesis and the beginning of DNA segregation by mitosis.", "xrefs" : [ "GOC:mtg_cell_cycle" ] }, "comments" : [ "Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during)." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "G2 phase of mitotic cell cycle" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000086", "lbl" : "G2/M transition of mitotic cell cycle", "type" : "CLASS", "meta" : { "definition" : { "val" : "The mitotic cell cycle transition by which a cell in G2 commits to M phase. The process begins when the kinase activity of M cyclin/CDK complex reaches a threshold high enough for the cell cycle to proceed. This is accomplished by activating a positive feedback loop that results in the accumulation of unphosphorylated and active M cyclin/CDK complex.", "xrefs" : [ "GOC:mtg_cell_cycle" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "mitotic G2/M transition" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-69275", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "G2/M Transition" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000087", "lbl" : "mitotic M phase", "type" : "CLASS", "meta" : { "definition" : { "val" : "A cell cycle phase during which nuclear division occurs, and which is comprises the phases: prophase, metaphase, anaphase and telophase and occurs as part of a mitotic cell cycle.", "xrefs" : [ "GOC:mtg_cell_cycle" ] }, "comments" : [ "Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during)." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "M phase of mitotic cell cycle" }, { "pred" : "hasExactSynonym", "val" : "M-phase of mitotic cell cycle" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-68886", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "M Phase" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000088", "lbl" : "mitotic prophase", "type" : "CLASS", "meta" : { "definition" : { "val" : "The cell cycle phase which is the first stage of M phase of mitosis and during which chromosomes condense and the two daughter centrioles and their asters migrate toward the poles of the cell.", "xrefs" : [ "GOC:mtg_cell_cycle" ] }, "comments" : [ "Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during)." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000089", "lbl" : "mitotic metaphase", "type" : "CLASS", "meta" : { "definition" : { "val" : "The cell cycle phase, following prophase, during which chromosomes become aligned on the equatorial plate of the cell as part of a mitotic cell cycle.", "xrefs" : [ "GOC:mtg_cell_cycle" ] }, "comments" : [ "Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during)." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000090", "lbl" : "mitotic anaphase", "type" : "CLASS", "meta" : { "definition" : { "val" : "The cell cycle phase during which chromosomes separate and migrate towards the poles of the spindle the as part of a mitotic cell cycle.", "xrefs" : [ "GOC:mtg_cell_cycle" ] }, "comments" : [ "Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during)." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000091", "lbl" : "mitotic anaphase A", "type" : "CLASS", "meta" : { "definition" : { "val" : "The cell cycle phase during which the kinetochore microtubules shorten as chromosomes move toward the spindle poles as part of mitosis.", "xrefs" : [ "GOC:mtg_cell_cycle" ] }, "comments" : [ "Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). 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This takes place during meiosis.", "xrefs" : [ "GOC:elh", "PMID:9334324" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000707", "lbl" : "meiotic DNA recombinase assembly", "type" : "CLASS", "meta" : { "definition" : { "val" : "During meiosis, the aggregation, arrangement and bonding together of strand exchange proteins (recombinases) to form higher order oligomers on single-stranded DNA.", "xrefs" : [ "GOC:elh", "PMID:11459983" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000708", "lbl" : "meiotic strand invasion", "type" : "CLASS", "meta" : { "definition" : { "val" : "The cell cycle process in which the nucleoprotein complex (composed of the broken single-strand DNA and the recombinase) searches and identifies a region of homology in intact duplex DNA. The broken single-strand DNA displaces the like strand and forms Watson-Crick base pairs with its complement, forming a duplex in which each strand is from one of the two recombining DNA molecules. This occurs during meiosis.", "xrefs" : [ "GOC:elh", "PMID:10915877" ] }, "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "meiotic D-loop biosynthesis" }, { "pred" : "hasRelatedSynonym", "val" : "meiotic D-loop formation" }, { "pred" : "hasRelatedSynonym", "val" : "meiotic displacement loop biosynthesis", "xrefs" : [ "GOC:mah", "GOC:vw" ] }, { "pred" : "hasRelatedSynonym", "val" : "meiotic displacement loop formation", "xrefs" : [ "GOC:mah", "GOC:vw" ] } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000709", "lbl" : "meiotic joint molecule formation", "type" : "CLASS", "meta" : { "definition" : { "val" : "The conversion of the paired broken DNA and homologous duplex DNA into a four-stranded branched intermediate, known as a joint molecule, formed during meiotic recombination. These joint molecules contain Holliday junctions on either side of heteroduplex DNA.", "xrefs" : [ "GOC:elh", "PMID:8521495" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000710", "lbl" : "meiotic mismatch repair", "type" : "CLASS", "meta" : { "definition" : { "val" : "A system for the identification and correction of base-base mismatches, small insertion-deletion loops, and regions of heterology that are present in duplex DNA formed with strands from two recombining molecules. 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The Watson-Crick base pairing in the original duplex is restored. The rejected 3' single-strand DNA molecule reanneals with its original complement to reform two intact duplex molecules. This occurs during meiosis.", "xrefs" : [ "GOC:elh", "PMID:10357855" ] }, "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "meiotic D-loop dissociation", "xrefs" : [ "GOC:mah", "GOC:vw" ] }, { "pred" : "hasRelatedSynonym", "val" : "meiotic D-loop processing", "xrefs" : [ "GOC:mah", "GOC:vw" ] }, { "pred" : "hasRelatedSynonym", "val" : "meiotic displacement loop dissociation", "xrefs" : [ "GOC:mah", "GOC:vw" ] }, { "pred" : "hasRelatedSynonym", "val" : "meiotic displacement loop processing", "xrefs" : [ "GOC:mah", "GOC:vw" ] } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000715", "lbl" : "nucleotide-excision repair, DNA damage recognition", "type" : "CLASS", "meta" : { "definition" : { "val" : "The identification of lesions in DNA, such as pyrimidine-dimers, intrastrand cross-links, and bulky adducts. The wide range of substrate specificity suggests the repair complex recognizes distortions in the DNA helix.", "xrefs" : [ "GOC:elh", "PMID:10197977" ] }, "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "pyrimidine-dimer repair, DNA damage recognition" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-5696394", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "DNA Damage Recognition in GG-NER" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000716", "lbl" : "transcription-coupled nucleotide-excision repair, DNA damage recognition", "type" : "CLASS", "meta" : { "definition" : { "val" : "The identification of lesions on the actively transcribed strand of the DNA duplex as well as a small subset of lesions not recognized by the general nucleotide-excision repair pathway.", "xrefs" : [ "GOC:elh", "PMID:10197977" ] }, "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "pyrimidine-dimer repair, DNA damage recognition" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000717", "lbl" : "obsolete nucleotide-excision repair, DNA duplex unwinding", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. The unwinding, or local denaturation, of the DNA duplex to create a bubble around the site of the DNA damage.", "xrefs" : [ "GOC:elh", "PMID:10197977" ] }, "comments" : [ "The reason for obsoletion is that the term represents a molecular function." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/29153" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000718", "lbl" : "obsolete nucleotide-excision repair, DNA damage removal", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. The removal of the oligonucleotide that contains the DNA damage. The oligonucleotide is formed by dual incisions that flank the site of DNA damage.", "xrefs" : [ "GOC:elh", "PMID:10197977" ] }, "comments" : [ "The reason for obsoletion is that this term represents a molecular function." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/29220" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000719", "lbl" : "photoreactive repair", "type" : "CLASS", "meta" : { "definition" : { "val" : "The repair of UV-induced T-T, C-T and C-C dimers by directly reversing the damage to restore the original pyrimidines.", "xrefs" : [ "GOC:elh", "PMID:10915863" ] }, "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "pyrimidine-dimer repair by photolyase" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000720", "lbl" : "pyrimidine dimer repair by nucleotide-excision repair", "type" : "CLASS", "meta" : { "definition" : { "val" : "The repair of UV-induced T-T, C-T, and C-C dimers by the recognition and removal of the damaged DNA strand from the DNA helix as an oligonucleotide. 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A strand in the broken DNA searches for a homologous region in an intact chromosome to serve as the template for DNA synthesis. The restoration of two intact DNA molecules results in the exchange, reciprocal or nonreciprocal, of genetic material between the intact DNA molecule and the broken DNA molecule.", "xrefs" : [ "GOC:elh", "PMID:10357855" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "HDR", "xrefs" : [ "GOC:vk" ] }, { "pred" : "hasExactSynonym", "val" : "HRR" }, { "pred" : "hasExactSynonym", "val" : "Rad51-dependent recombinational repair", "xrefs" : [ "GOC:mah" ] }, { "pred" : "hasExactSynonym", "val" : "Rhp51-dependent recombinational repair" }, { "pred" : "hasExactSynonym", "val" : "homologous recombinational repair" }, { "pred" : "hasExactSynonym", "val" : "homology-directed repair", "xrefs" : [ "GOC:vk" ] } ], "xrefs" : [ { "val" : "Reactome:R-HSA-5693538", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Homology Directed Repair" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0016924" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000725", "lbl" : "recombinational repair", "type" : "CLASS", "meta" : { "definition" : { "val" : "A DNA repair process that involves the exchange, reciprocal or nonreciprocal, of genetic material between the broken DNA molecule and a homologous DNA region.", "xrefs" : [ "GOC:elh" ] }, "xrefs" : [ { "val" : "Wikipedia:Recombinational_repair" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000726", "lbl" : "obsolete non-recombinational repair", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. A DNA repair process in which that does not require the exchange of genetic material between the broken DNA molecule and a homologous DNA region.", "xrefs" : [ "GOC:elh" ] }, "comments" : [ "This term was obsoleted because it was defined negatively, and it represents an unnecessary grouping class." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/18901" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000727", "lbl" : "double-strand break repair via break-induced replication", "type" : "CLASS", "meta" : { "definition" : { "val" : "The error-free repair of a double-strand break in DNA in which the centromere-proximal end of a broken chromosome searches for a homologous region in an intact chromosome. DNA synthesis initiates from the 3' end of the invading DNA strand, using the intact chromosome as the template, and progresses to the end of the chromosome.", "xrefs" : [ "GOC:elh", "PMID:10357855" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000728", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", "val" : "http://purl.obolibrary.org/obo/IAO_0000227" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0007534" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000729", "lbl" : "DNA double-strand break processing", "type" : "CLASS", "meta" : { "definition" : { "val" : "The 5' to 3' exonucleolytic resection of the DNA at the site of the break to form a 3' single-strand DNA overhang.", "xrefs" : [ "PMID:10357855" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000730", "lbl" : "DNA recombinase assembly", "type" : "CLASS", "meta" : { "definition" : { "val" : "The aggregation, arrangement and bonding together of strand exchange proteins (recombinases) into higher order oligomers on single-stranded DNA.", "xrefs" : [ "PMID:10357855" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "Rad51 nucleoprotein filament formation", "xrefs" : [ "GOC:elh", "GOC:vw" ] } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000731", "lbl" : "DNA synthesis involved in DNA repair", "type" : "CLASS", "meta" : { "definition" : { "val" : "Synthesis of DNA that proceeds from the broken 3' single-strand DNA end and uses the homologous intact duplex as the template.", "xrefs" : [ "PMID:10357855" ] }, "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "DNA repair synthesis" }, { "pred" : "hasNarrowSynonym", "val" : "mitotic DNA repair synthesis", "xrefs" : [ "GOC:mah" ] }, { "pred" : "hasRelatedSynonym", "val" : "DNA synthesis during DNA repair", "xrefs" : [ "GOC:dph", "GOC:tb" ] } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000732", "lbl" : "DNA strand displacement", "type" : "CLASS", "meta" : { "definition" : { "val" : "The rejection of the broken 3' single-strand DNA molecule that formed heteroduplex DNA with its complement in an intact duplex DNA. 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Consider specific amino acid catabolic processes." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/31839" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000956", "lbl" : "nuclear-transcribed mRNA catabolic process", "type" : "CLASS", "meta" : { "definition" : { "val" : "The chemical reactions and pathways resulting in the breakdown of nuclear-transcribed mRNAs in eukaryotic cells.", "xrefs" : [ "GOC:krc" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "nuclear mRNA breakdown" }, { "pred" : "hasExactSynonym", "val" : "nuclear mRNA catabolism" }, { "pred" : "hasExactSynonym", "val" : "nuclear mRNA degradation" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000957", "lbl" : "mitochondrial RNA catabolic process", "type" : "CLASS", "meta" : { "definition" : { "val" : "The chemical reactions and pathways resulting in the breakdown of RNA transcribed from the mitochondrial genome and occurring in the mitochondrion.", "xrefs" : [ "GOC:krc", "GOC:mah" ] }, "xrefs" : [ { "val" : "Reactome:R-HSA-9836573", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Mitochondrial RNA degradation" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000958", "lbl" : "mitochondrial mRNA catabolic process", "type" : "CLASS", "meta" : { "definition" : { "val" : "The chemical reactions and pathways resulting in the breakdown of mRNA transcribed from the mitochondrial genome and occurring in the mitochondrion.", "xrefs" : [ "GOC:krc", "GOC:mah" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000959", "lbl" : "mitochondrial RNA metabolic process", "type" : "CLASS", "meta" : { "definition" : { "val" : "The chemical reactions and pathways involving RNA transcribed from the mitochondrial genome and occurring in the mitochondrion.", "xrefs" : [ "GOC:krc", "GOC:mah" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000960", "lbl" : "regulation of mitochondrial RNA catabolic process", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving catabolism in the mitochondrion of RNA transcribed from the mitochondrial genome.", "xrefs" : [ "GOC:krc", "GOC:mah" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000961", "lbl" : "negative regulation of mitochondrial RNA catabolic process", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving catabolism in the mitochondrion of RNA transcribed from the mitochondrial genome.", "xrefs" : [ "GOC:krc", "GOC:mah" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000962", "lbl" : "positive regulation of mitochondrial RNA catabolic process", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving catabolism in the mitochondrion of RNA transcribed from the mitochondrial genome.", "xrefs" : [ "GOC:krc", "GOC:mah" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000963", "lbl" : "mitochondrial RNA processing", "type" : "CLASS", "meta" : { "definition" : { "val" : "The conversion of a primary RNA molecule transcribed from a mitochondrial genome into one or more mature RNA molecules; occurs in the mitochondrion.", "xrefs" : [ "GOC:krc", "GOC:mah" ] }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/30320" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000964", "lbl" : "mitochondrial RNA 5'-end processing", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process involved in forming the mature 5' end of an RNA molecule transcribed from a mitochondrial genome; occurs in the mitochondrion.", "xrefs" : [ "GOC:krc", "GOC:mah" ] }, "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "mitochondrial RNA 5' end processing" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000965", "lbl" : "mitochondrial RNA 3'-end processing", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process involved in forming the mature 3' end of an RNA molecule transcribed from a mitochondrial genome; occurs in the mitochondrion.", "xrefs" : [ "GOC:krc", "GOC:mah" ] }, "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "mitochondrial RNA 3' end processing" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000966", "lbl" : "RNA 5'-end processing", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process involved in forming the mature 5' end of an RNA molecule.", "xrefs" : [ "GOC:krc" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "RNA 5' end processing" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000967", "lbl" : "rRNA 5'-end processing", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process involved in forming the mature 5' end of an rRNA molecule.", "xrefs" : [ "GOC:krc" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "rRNA 5' end processing" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000968", "lbl" : "tRNA exon ligation", "type" : "CLASS", "meta" : { "definition" : { "val" : "An RNA exon ligation process that rejoins two exons of a pre-tRNA which has had the intron removed.", "xrefs" : [ "GOC:krc" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2009-04-28T10:22:40Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000969", "lbl" : "obsolete tRNA exon ligation utilizing ATP as source of linkage phosphate", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. A tRNA exon ligation process in which the splice junction phosphate is derived from exogenous ATP. This type of ligation to rejoin the 5' and 3' exons of a tRNA is observed in vertebrate species.", "xrefs" : [ "GOC:krc", "PMID:17786051" ] }, "comments" : [ "The reason for obsoletion is that this term is a molecular functions." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/27438" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2009-04-28T10:29:37Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000970", "lbl" : "obsolete tRNA exon ligation utilizing GTP as source of linkage phosphate", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. A tRNA exon ligation process in which the splice junction phosphate is derived from exogenous GTP. This type of ligation to rejoin the 5' and 3' exons of a tRNA is observed in the yeast Saccharomyces cerevisiae where the ligation reaction also produces a 2'-phosphate at the splice junction which is subsequently removed as part of the ligation process.", "xrefs" : [ "GOC:krc", "PMID:18217203", "PMID:9299409" ] }, "comments" : [ "The reason for obsoletion is that this term is a molecular function" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/27438" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0000968" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2009-04-28T10:33:25Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000971", "lbl" : "obsolete tRNA exon ligation utilizing 2',3' cyclic phosphate of 5'-exon as source of linkage phosphate", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. A tRNA exon ligation process in which the splice junction phosphate is derived from the 2',3' cyclic phosphate at the 3'-end of the 5'-exon. This type of ligation to rejoin the 5' and 3' exons of a tRNA is observed in wheat, Chlamydomonas, and vertebrate species including humans.", "xrefs" : [ "GOC:krc", "PMID:17786051", "PMID:18217203", "PMID:9299409" ] }, "comments" : [ "The reason for obsoletion is that this term is a molecular function." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/27438" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0000968" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2009-04-28T10:36:17Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000972", "lbl" : "transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery", "type" : "CLASS", "meta" : { "definition" : { "val" : "The chromosome organization process in which the DNA sequence containing a gene transcribed by RNA polymerase II is maintained in a specific location at the nuclear periphery. In S. cerevisiae, this process involves cis-acting DNA sequences such as the TATA box and upstream activating sequence (UAS) elements, trans-acting transcriptional activators, and also the 3'-UTR of the transcript.", "xrefs" : [ "GOC:krc", "PMID:18614049" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2009-09-10T12:25:11Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000973", "lbl" : "post-transcriptional tethering of RNA polymerase II gene DNA at nuclear periphery", "type" : "CLASS", "meta" : { "definition" : { "val" : "The chromosome organization process in which the DNA sequence containing a gene transcribed by RNA polymerase II is maintained in a specific location at the nuclear periphery even after transcription has been repressed.", "xrefs" : [ "GOC:krc", "PMID:17373856", "PMID:18614049" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2009-09-10T12:28:04Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000974", "lbl" : "Prp19 complex", "type" : "CLASS", "meta" : { "definition" : { "val" : "A protein complex consisting of Prp19 and associated proteins that is involved in the transition from the precatalytic spliceosome to the activated form that catalyzes step 1 of splicing, and which remains associated with the spliceosome through the second catalytic step. It is widely conserved, found in both yeast and mammals, though the exact composition varies. In S. cerevisiae, it contains Prp19p, Ntc20p, Snt309p, Isy1p, Syf2p, Cwc2p, Prp46p, Clf1p, Cef1p, and Syf1p.", "xrefs" : [ "GOC:krc", "PMID:16540691", "PMID:19239890" ] }, "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "MOS4-Associated Complex", "xrefs" : [ "PMID:28947490" ] }, { "pred" : "hasNarrowSynonym", "val" : "Prp19/CDC5 complex" }, { "pred" : "hasNarrowSynonym", "val" : "nineteen complex" }, { "pred" : "hasRelatedSynonym", "val" : "NTC" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/26661" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2009-10-12T10:01:30Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000975", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", "val" : "http://purl.obolibrary.org/obo/IAO_0000227" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0000976" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000976", "lbl" : "transcription cis-regulatory region binding", "type" : "CLASS", "meta" : { "definition" : { "val" : "Binding to a specific sequence of DNA that is part of a regulatory region that controls transcription of that section of the DNA. 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There are also additional regulatory regions, in both the DNA and the RNA transcript, which regulate elongation or termination of transcription." ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "regulatory region DNA binding" }, { "pred" : "hasExactSynonym", "val" : "transcription regulatory region sequence-specific DNA binding" }, { "pred" : "hasNarrowSynonym", "val" : "bacterial-type RNA polymerase regulatory region DNA binding" }, { "pred" : "hasNarrowSynonym", "val" : "bacterial-type RNA polymerase transcription regulatory region sequence-specific DNA binding" }, { "pred" : "hasNarrowSynonym", "val" : "eubacterial-type RNA polymerase regulatory region DNA binding" }, { "pred" : "hasNarrowSynonym", "val" : "eubacterial-type RNA polymerase regulatory region sequence-specific DNA binding" }, { "pred" : "hasRelatedSynonym", "val" : "transcription regulatory region DNA binding" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/19312" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20791" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-08-10T02:58:18Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0000975" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0000984" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001017" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0044212" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000977", "lbl" : "RNA polymerase II transcription regulatory region sequence-specific DNA binding", "type" : "CLASS", "meta" : { "definition" : { "val" : "Binding to a specific sequence of DNA that is part of a regulatory region that controls the transcription of a gene or cistron by RNA polymerase II.", "xrefs" : [ "GOC:txnOH" ] }, "comments" : [ "To minimize ambiguity in the use of the word \"promoter\" in GO, we have chosen the phrase \"transcription regulatory region\" to refer to all of the regulatory regions. Regulatory regions in the DNA which control initiation may include the \"core promoter\" where the basal transcription machinery binds, the \"core promoter proximal region\" where regulatory factors other than the basal machinery bind. 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In bacteria such as E. coli, the phrase \"upstream activating sequence\", or UAS is usually a synonym for \"enhancer\"." ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "RNA polymerase II core promoter proximal region sequence-specific DNA binding" }, { "pred" : "hasRelatedSynonym", "val" : "RNA polymerase II distal enhancer sequence-specific DNA binding" }, { "pred" : "hasRelatedSynonym", "val" : "RNA polymerase II promoter proximal region sequence-specific DNA binding" }, { "pred" : "hasRelatedSynonym", "val" : "RNA polymerase II proximal promoter sequence-specific DNA binding" }, { "pred" : "hasRelatedSynonym", "val" : "RNA polymerase II upstream activating sequence (UAS) sequence-specific DNA binding" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-400204", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "PPARA binds RXRA" } ] } } ], "basicPropertyValues" : [ { "pred" : 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"eubacterial-type RNA polymerase core enzyme binding" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-08-17T04:59:00Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0001001", "lbl" : "mitochondrial single-subunit type RNA polymerase binding", "type" : "CLASS", "meta" : { "definition" : { "val" : "Binding to a single subunit mitochondrial RNA polymerase enzyme, which is composed of a single catalytic subunit similar to the RNA polymerase enzymes from phages T3, T7, and SP6.", "xrefs" : [ "GOC:txnOH", "PMID:20701995", "PMID:2088182" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", 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The former are microtubule-based structures that lash back and forth and are present only in eukaryotes, while the latter achieve motility by rotation. Bacterial- and archaeal-type flagella are superficially similar but have a different molecular composition and fine structure. These three structures never co-exist in the same organism. Therefore, GO:0001539 'cilium or flagellum-dependent cell motility' is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term. 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An example of this is found in Mus musculus.", "xrefs" : [ "GOC:mtg_sensu", "https://www.ncbi.nlm.nih.gov/books/NBK279054/" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0001543", "lbl" : "ovarian follicle rupture", "type" : "CLASS", "meta" : { "definition" : { "val" : "Disruption of theca cell layer releasing follicular fluid and/or the oocyte.", "xrefs" : [ "https://www.ncbi.nlm.nih.gov/books/NBK279054/" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0001544", "lbl" : "initiation of primordial ovarian follicle growth", "type" : "CLASS", "meta" : { "definition" : { "val" : "Increase in size of primordial follicles including proliferation and shape changes of granulosa and/or theca cells until oocyte is surrounded by one layer of cuboidal shaped granulosa cells (primary follicle).", "xrefs" : [ "https://www.ncbi.nlm.nih.gov/books/NBK279054/" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0001545", "lbl" : "primary ovarian follicle growth", "type" : "CLASS", "meta" : { "definition" : { "val" : "Increase in size of primary follicles including oocyte growth and granulosa and/or theca cell proliferation until more than one layer of granulosa cells is present (preantral follicle).", "xrefs" : [ "GOC:mtg_mpo", "https://www.ncbi.nlm.nih.gov/books/NBK279054/" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0001546", "lbl" : "preantral ovarian follicle growth", "type" : "CLASS", "meta" : { "definition" : { "val" : 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During normal luteolysis, two closely related events occur. First, there is loss of the capacity to synthesize and secrete progesterone (functional luteolysis) followed by loss of the cells that comprise the corpus luteum (structural luteolysis). 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EMAP:9'." ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "blastula formation" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/29162" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0001826", "lbl" : "inner cell mass cell differentiation", "type" : "CLASS", "meta" : { "definition" : { "val" : "The process in which a relatively unspecialized cell acquires specialized features of an inner cell mass cell.", "xrefs" : [ "GOC:dph", "ISBN:0124020607", "ISBN:0198542771" ] }, "comments" : [ "See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, inner cell mass ; EMAP:14'." ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0001827", "lbl" : "inner cell mass cell fate commitment", "type" : "CLASS", "meta" : { "definition" : { "val" : "The cell fate commitment of precursor cells that will become inner cell mass cells.", "xrefs" : [ "GOC:dph", "ISBN:0124020607", "ISBN:0198542771" ] }, "comments" : [ "See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, compacted morula ; 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EMAP:19', 'TS5, trophectoderm ; EMAP:28' and 'TS6, trophectoderm ; EMAP:39'." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "trophectoderm cellular morphogenesis" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0001832", "lbl" : "blastocyst growth", "type" : "CLASS", "meta" : { "definition" : { "val" : "An increase in size of a blastocyst due to expansion of the blastocoelic cavity cell shape changes and cell proliferation.", "xrefs" : [ "GOC:dph", "ISBN:0124020607", "ISBN:0198542771" ] }, "comments" : [ "See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, blastocoelic cavity ; EMAP:17', 'TS5, blastocoelic cavity ; EMAP:27' and 'TS6, blastocoelic cavity ; EMAP:36'." ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "blastula growth" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/29162" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0001833", "lbl" : "inner cell mass cell proliferation", "type" : "CLASS", "meta" : { "definition" : { "val" : "The proliferation of cells in the inner cell mass.", "xrefs" : [ "GOC:dph", "GOC:isa_complete", "ISBN:0124020607", "ISBN:0198542771" ] }, "comments" : [ "See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, inner cell mass ; 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Oxidation of compounds establishes a proton gradient across the membrane, providing the energy for ATP synthesis.", "xrefs" : [ "GOC:dph" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "OXPHOS" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002083", "lbl" : "obsolete 4-hydroxybenzoate decaprenyltransferase activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. Catalysis of the reaction: all-trans-decaprenyl diphosphate + 4-hydroxybenzoate = 3-decaprenyl-4-hydroxybenzoate + diphosphate.", "xrefs" : [ "GOC:curators" ] }, "comments" : [ "This term was obsoleted because it represents a specific substrate of 4-hydroxybenzoate polyprenyltransferase activity ; GO:0008412." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/26830" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0008412" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002084", "lbl" : "protein depalmitoylation", "type" : "CLASS", "meta" : { "definition" : { "val" : "The removal of palymitoyl groups from a lipoprotein.", "xrefs" : [ "GOC:hjd" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_obsoletion_candidate" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002085", "lbl" : "inhibition of neuroepithelial cell differentiation", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process that prevents the activation of neuroepithelial cell differentiation. Neuroepithelial cell differentiation is the process in which epiblast cells acquire specialized features of neuroepithelial cells.", "xrefs" : [ "GOC:dph", "PMID:16678814" ] }, "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "negative regulation of neural plate formation", "xrefs" : [ "GOC:dph", "GOC:tb" ] }, { "pred" : "hasNarrowSynonym", "val" : "repression of premature neural plate formation", "xrefs" : [ "GOC:dph", "GOC:tb" ] } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002086", "lbl" : "diaphragm contraction", "type" : "CLASS", "meta" : { "definition" : { "val" : "A process in which force is generated within involuntary skeletal muscle tissue, resulting in a change in muscle geometry. This process occurs in the diaphragm. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. The diaphragm is a striated muscle that is necessary for the process of respiratory gaseous exchange.", "xrefs" : [ "GOC:dph", "GOC:mtg_muscle", "PMID:12458206" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002087", "lbl" : "regulation of respiratory gaseous exchange by nervous system process", "type" : "CLASS", "meta" : { "definition" : { "val" : "A process carried out by the nervous system that is required for the proper control of respiratory gaseous exchange. This process occurs in the respiratory center of the brain in vertebrates.", "xrefs" : [ "GOC:dph", "GOC:tb", "PMID:12458206" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neurological control of breathing", "xrefs" : [ "GOC:dph", "GOC:tb" ] }, { "pred" : "hasExactSynonym", "val" : "regulation of respiratory gaseous exchange by neurological system process" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002088", "lbl" : "lens development in camera-type eye", "type" : "CLASS", "meta" : { "definition" : { "val" : "The process whose specific outcome is the progression of the lens over time, from its formation to the mature structure. The lens is a transparent structure in the eye through which light is focused onto the retina. An example of this process is found in Mus musculus.", "xrefs" : [ "GOC:dph", "ISBN:0582064333" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "lens development" }, { "pred" : "hasExactSynonym", "val" : "lens development in camera-style eye" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002089", "lbl" : "lens morphogenesis in camera-type eye", "type" : "CLASS", "meta" : { "definition" : { "val" : "The process in which the anatomical structures of the lens are generated and organized. The lens is a transparent structure in the eye through which light is focused onto the retina. An example of this process is found in Mus musculus.", "xrefs" : [ "GOC:dph", "GOC:mtg_sensu" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "lens morphogenesis" }, { "pred" : "hasExactSynonym", "val" : "lens morphogenesis in camera-style eye" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002090", "lbl" : "regulation of receptor internalization", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process that modulates the frequency, rate or extent of receptor internalization.", "xrefs" : [ "GOC:hjd" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002091", "lbl" : "negative regulation of receptor internalization", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process that stops, prevents, or reduces the frequency, rate or extent of receptor internalization.", "xrefs" : [ "GOC:hjd" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "down regulation of receptor internalization" }, { "pred" : "hasExactSynonym", "val" : "down-regulation of receptor internalization" }, { "pred" : "hasExactSynonym", "val" : "downregulation of receptor internalization" }, { "pred" : "hasNarrowSynonym", "val" : "inhibition of receptor internalization" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002092", "lbl" : "positive regulation of receptor internalization", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process that activates or increases the frequency, rate or extent of receptor internalization.", "xrefs" : [ "GOC:hjd" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "up regulation of receptor internalization" }, { "pred" : "hasExactSynonym", "val" : "up-regulation of receptor internalization" }, { "pred" : "hasExactSynonym", "val" : "upregulation of receptor internalization" }, { "pred" : "hasNarrowSynonym", "val" : "activation of receptor internalization" }, { "pred" : "hasNarrowSynonym", "val" : "stimulation of receptor internalization" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002093", "lbl" : "auditory receptor cell morphogenesis", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process that alters the size or shape of an auditory receptor cell.", "xrefs" : [ "GOC:dph", "GOC:tb" ] }, "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "hair cell morphogenesis", "xrefs" : [ "GO:dph" ] } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002094", "lbl" : "obsolete polyprenyltransferase activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. Catalysis of the transfer of multiple prenyl groups from one compound (donor) to another (acceptor).", "xrefs" : [ "GOC:hjd" ] }, "comments" : [ "The reason for obsoletion is that this term was an unnecessary grouping term." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/29428" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0004659" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002095", "lbl" : "caveolar macromolecular signaling complex", "type" : "CLASS", "meta" : { "definition" : { "val" : "A complex composed of proteins required for beta adrenergic receptor activation of protein kinase A. It includes the Cav 12. subunit of L-type calcium channel, protein kinase A regulatory subunit 2(PKAR2), adenyl cyclase, beta-adrenergic receptor, G-alpha-S, protein phosphatase 2A (PP2A) and caveolin 3 (CAV3).", "xrefs" : [ "PMID:16648270" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "caveolar macromolecular signalling complex" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002096", "lbl" : "polkadots", "type" : "CLASS", "meta" : { "definition" : { "val" : "A punctate, filamentous structure composed of Bcl10 that appears in the cytoplasm of T-cells shortly after T-cell receptor stimulation. Polkadots stands for Punctate Oligomeric Killing and Activating DOmains Transducing Signals.", "xrefs" : [ "PMID:14724296", "PMID:16495340" ] }, "comments" : [ "Note that polkadots also contains some amount of MALT1. Interaction with MALT1 is required for formation of the polkadots." ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002097", "lbl" : "tRNA wobble base modification", "type" : "CLASS", "meta" : { "definition" : { "val" : "The process in which the nucleotide at position 34 in the anticodon of a tRNA is post-transcriptionally modified. The wobble nucleoside of the tRNA sequence (position 34) corresponds to the first position of the anticodon.", "xrefs" : [ "PMID:28812932" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002098", "lbl" : "tRNA wobble uridine modification", "type" : "CLASS", "meta" : { "definition" : { "val" : "The process in which a uridine at position 34 of a tRNA is post-transcriptionally modified. The wobble nucleoside of the tRNA sequence (position 34) corresponds to the first position of the anticodon.", "xrefs" : [ "GOC:hjd", "ISBN:155581073X" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002099", "lbl" : "tRNA wobble guanine modification", "type" : "CLASS", "meta" : { "definition" : { "val" : "The process in which a guanine at position 34 of a tRNA is post-transcriptionally modified. The wobble nucleoside of the tRNA sequence (position 34) corresponds to the first position of the anticodon.", "xrefs" : [ "GOC:hjd", "PMID:39600051" ] }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/30774" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002100", "lbl" : "tRNA wobble adenosine to inosine editing", "type" : "CLASS", "meta" : { "definition" : { "val" : "The process in which an adenosine at position 34 of a tRNA is post-transcriptionally converted to inosine. The wobble nucleoside of the tRNA sequence (position 34) corresponds to the first position of the anticodon.", "xrefs" : [ "GOC:hjd", "ISBN:155581073X" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002101", "lbl" : "tRNA wobble cytosine modification", "type" : "CLASS", "meta" : { "definition" : { "val" : "The process in which a cytosine at position 34 of a tRNA is post-transcriptionally modified. The wobble nucleoside of the tRNA sequence (position 34) corresponds to the first position of the anticodon.", "xrefs" : [ "GOC:hjd", "ISBN:155581073X" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002102", "lbl" : "podosome", "type" : "CLASS", "meta" : { "definition" : { "val" : "An actin-rich adhesion structure characterized by formation upon cell substrate contact and localization at the substrate-attached part of the cell, contain an F-actin-rich core surrounded by a ring structure containing proteins such as vinculin and talin, and have a diameter of 0.5 mm.", "xrefs" : [ "PMID:12837608", "PMID:15890982" ] }, "comments" : [ "Note that podosomes can be distinguished from other F-actin-rich structures or from other matrix contacts. For example, focal adhesions and focal contacts do not display a core structure of F-actin. Unlike focal adhesions, podosome assembly does not require de novo protein synthesis. However, most of the podosome ring components are found in focal adhesions and other cell-matrix contacts. Podosomes are typically found in cells that cross tissue boundaries, recruited to the leading edge of migrating cells, and are often sites of extracellular matrix degradation." ], "xrefs" : [ { "val" : "Wikipedia:Podosome" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20443" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002103", "lbl" : "endonucleolytic cleavage of tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA)", "type" : "CLASS", "meta" : { "definition" : { "val" : "Endonucleolytic cleavage of a pre-rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 4.5S rRNA, and the 5S rRNA in that order from 5' to 3' along the primary transcript. Primary ribosomal RNA transcripts with four genes, in this order, are produced in the chloroplasts of vascular plants. Note that the use of the word tetracistronic refers only to the number of mature rRNA molecules which will be produced from the primary transcript and ignores tRNAs that may also be present within the primary transcript.", "xrefs" : [ "GOC:curators" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002104", "lbl" : "endonucleolytic cleaveage between 4.5S rRNA and 5S rRNA of tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA)", "type" : "CLASS", "meta" : { "definition" : { "val" : "Endonucleolytic cleavage between the 5S rRNA and the 4.5S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 4.5S rRNA, and the 5S rRNA in that order from 5' to 3' along the primary transcript. 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These cleavages liberate tRNAs from the polycistronic transcript as well as separating the SSU and LSU containing transcript. Note that the use of the word tetracistronic refers only to the number of mature rRNA molecules which will be produced from the primary transcript and ignores tRNAs that may also be present within the primary transcript.", "xrefs" : [ "GOC:curators" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002107", "lbl" : "generation of mature 3'-end of 5S rRNA generated by RNA polymerase III", "type" : "CLASS", "meta" : { "definition" : { "val" : "The removal of extra uridine residues from the 3' end of a 5S pre-rRNA generated by transcription by RNA polymerase III to generate the mature 3'-end.", "xrefs" : [ "GOC:hjd", "PMID:16387655", "PMID:1748637", "PMID:1902221", "PMID:8389357" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002108", "lbl" : "maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S)", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process involved in the maturation of a precursor Large SubUnit (LSU) ribosomal RNA (rRNA) molecule into a mature LSU-rRNA molecule from the pre-rRNA molecule originally produced as a tricistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 5S rRNA in that order from 5' to 3' along the primary transcript.", "xrefs" : [ "GOC:curators" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002109", "lbl" : "maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S)", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process involved in the maturation of a precursor Small SubUnit (SSU) ribosomal RNA (rRNA) molecule into a mature SSU-rRNA molecule from the pre-rRNA molecule originally produced as a tricistronic rRNA transcript that contains the Small Subunit (SSU) rRNA, Large Subunit (LSU) the 5S rRNA in that order from 5' to 3' along the primary transcript.", "xrefs" : [ "GOC:curators" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002110", "lbl" : "cotranscriptional mitochondrial rRNA nucleotide insertion", "type" : "CLASS", "meta" : { "definition" : { "val" : "The insertion of one or two non-coded nucleotides during the transcription of a mitochondrial rRNA. 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The expansion of a natural killer cell population by cell division as part of an immune response.", "xrefs" : [ "GOC:add", "PMID:15032583" ] }, "comments" : [ "This term was obsoleted because it is a pre-composed term that should be captured as a GO-CAM model." ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "NK cell proliferation during immune response" }, { "pred" : "hasRelatedSynonym", "val" : "natural killer cell proliferation during immune response", "xrefs" : [ "GOC:tb" ] } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/31306" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002325", "lbl" : "obsolete natural killer cell differentiation involved in immune response", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. The process in which a naive natural killer cell acquires the specialized features of an effector natural killer T cell as part of an immune response.", "xrefs" : [ "GOC:add", "PMID:11698225" ] }, "comments" : [ "This term was obsoleted because it is a pre-composed term that should be captured as a GO-CAM model." ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "NK cell differentiation during immune response" }, { "pred" : "hasRelatedSynonym", "val" : "natural killer cell development involved in immune response", "xrefs" : [ "GOC:add" ] }, { "pred" : "hasRelatedSynonym", "val" : "natural killer cell differentiation during immune response", "xrefs" : [ "GOC:tb" ] } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/31306" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002326", "lbl" : "B cell lineage commitment", "type" : "CLASS", "meta" : { "definition" : { "val" : "The process in which a lymphoid progenitor cell becomes committed to become any type of B cell.", "xrefs" : [ "GOC:add", "ISBN:0781735149" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "B lymphocyte lineage commitment" }, { "pred" : "hasExactSynonym", "val" : "B-cell lineage commitment" }, { "pred" : "hasExactSynonym", "val" : "B-lymphocyte lineage commitment" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002327", "lbl" : "immature B cell differentiation", "type" : "CLASS", "meta" : { "definition" : { "val" : "The process in which a precursor cell type acquires the specialized features of an immature B cell.", "xrefs" : [ "GOC:jal", "ISBN:0781735149", "PMID:16551251" ] }, "comments" : [ "Note that immunologists typically use the word 'development' to refer to cells of B or T cell lineages undergoing the process that GO describes as 'cell differentiation'." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "immature B lymphocyte differentiation" }, { "pred" : "hasExactSynonym", "val" : "immature B-cell differentiation" }, { "pred" : "hasExactSynonym", "val" : "immature B-lymphocyte differentiation" }, { "pred" : "hasRelatedSynonym", "val" : "immature B cell development", "xrefs" : [ "GOC:add" ] } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002328", "lbl" : "pro-B cell differentiation", "type" : "CLASS", "meta" : { "definition" : { "val" : "The process in which a precursor cell type acquires the specialized features of a pro-B cell. 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PRRs bind pathogen-associated molecular pattern (PAMPs), structures conserved among microbial species.", "xrefs" : [ "GOC:add", "GOC:ar", "ISBN:0781735149", "PMID:15199967", "PMID:17328678", "PMID:18272355", "PMID:19531363", "PMID:21187438" ] }, "comments" : [ "This term should be used for annotation when it is not known which cytoplasmic pattern recognition receptor (PRR) has been activated. If the PRR is known, consider instead the child terms. The RIG-like family is composed of at least RIG-I (retinoic acid inducible gene I; also known as DDX58), melanoma differentiation-associated gene 5 (MDA5; also known as helicard or IFIH1) and LGP2." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cytoplasmic PRR signaling pathway" }, { "pred" : "hasExactSynonym", "val" : "cytoplasmic pathogen receptor signaling pathway" }, { "pred" : "hasExactSynonym", "val" : "cytoplasmic pattern recognition receptor signalling pathway" }, { "pred" : "hasExactSynonym", "val" : "cytosolic PAMP receptor signaling pathway" }, { "pred" : "hasExactSynonym", "val" : "cytosolic pattern recognition receptor signaling pathway" }, { "pred" : "hasNarrowSynonym", "val" : "cytoplasmic caspase-recruiting domain (CARD) helicase signaling pathway", "xrefs" : [ "PMID:17328678" ] } ], "xrefs" : [ { "val" : "Reactome:R-HSA-9645460", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Alpha-protein kinase 1 signaling pathway" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/17080" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/18588" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "bf" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2011-12-20T02:43:15Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0039528" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002754", "lbl" : "endosomal pattern recognition receptor signaling pathway", "type" : "CLASS", "meta" : { "definition" : { "val" : "The series of molecular signals initiated by the binding of a ligand to an intracellular vesicle pattern recognition receptor (PRR). PRRs bind pathogen-associated molecular pattern (PAMPs), structures conserved among microbial species.", "xrefs" : [ "GOC:add", "GOC:ar", "ISBN:0781735149", "PMID:15199967" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "intracellular endosomal pattern recognition receptor signaling pathway" }, { "pred" : "hasRelatedSynonym", "val" : "intracellular vesicle PAMP receptor signaling pathway" }, { "pred" : "hasRelatedSynonym", "val" : "intracellular vesicle PRR signaling pathway" }, { "pred" : "hasRelatedSynonym", "val" : "intracellular vesicle pathogen receptor signaling pathway" }, { "pred" : "hasRelatedSynonym", "val" : "intracellular vesicle pattern recognition receptor signaling pathway" }, { "pred" : "hasRelatedSynonym", "val" : "intracellular vesicle pattern recognition receptor signalling pathway" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/17080" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/18679" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002755", "lbl" : "MyD88-dependent toll-like receptor signaling pathway", "type" : "CLASS", "meta" : { "definition" : { "val" : "A toll-like receptor signaling pathway in which the MyD88 adaptor molecule mediates transduction of the signal. Toll-like receptors directly bind pattern motifs from a variety of microbial sources to initiate an innate immune response.", "xrefs" : [ "GOC:add", "ISBN:0781735149", "PMID:12467241", "PMID:12524386", "PMID:12855817", "PMID:15585605", "PMID:15728447" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "MyD88-dependent TLR signaling pathway" }, { "pred" : "hasExactSynonym", "val" : "MyD88-dependent toll-like receptor signalling pathway" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-166058", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "MyD88:MAL(TIRAP) cascade initiated on plasma membrane" } ] } }, { "val" : "Reactome:R-HSA-975871", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "MyD88 cascade initiated on plasma membrane" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002756", "lbl" : "MyD88-independent toll-like receptor signaling pathway", "type" : "CLASS", "meta" : { "definition" : { "val" : "A toll-like receptor signaling pathway not relying on the MyD88 adaptor molecule. Toll-like receptors directly bind pattern motifs from a variety of microbial sources to initiate innate an immune response.", "xrefs" : [ "GOC:add", "ISBN:0781735149", "PMID:12467241", "PMID:12524386", "PMID:12855817", "PMID:15585605", "PMID:15728447" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "MyD88-independent TLR signaling pathway" }, { "pred" : "hasExactSynonym", "val" : "MyD88-independent toll-like receptor signalling pathway" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-166166", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "MyD88-independent TLR4 cascade" } ] } }, { "val" : "Reactome:R-HSA-168927", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "TICAM1, RIP1-mediated IKK complex recruitment" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002757", "lbl" : "immune response-activating signaling pathway", "type" : "CLASS", "meta" : { "definition" : { "val" : "The series of molecular signals generated by a ligand binding to its receptor that lead to the activation or perpetuation of an immune response.", "xrefs" : [ "GOC:add" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "immune response-activating signal transduction" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002758", "lbl" : "innate immune response-activating signaling pathway", "type" : "CLASS", "meta" : { "definition" : { "val" : "The series of molecular signals generated by a ligand binding to its receptor that lead to the activation or perpetuation of an innate immune response.", "xrefs" : [ "GOC:jy", "GOC:mah", "PMID:11418339", "PMID:28105028" ] }, "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "effector triggered immunity" }, { "pred" : "hasBroadSynonym", "val" : "effector-triggered immunity" }, { "pred" : "hasRelatedSynonym", "val" : "defence response signaling pathway, resistance gene-dependent" }, { "pred" : "hasRelatedSynonym", "val" : "defence response signaling pathway, resistance gene-independent" }, { "pred" : "hasRelatedSynonym", "val" : "defence response signalling pathway, resistance gene-dependent" }, { "pred" : "hasRelatedSynonym", "val" : "defence response signalling pathway, resistance gene-independent" }, { "pred" : "hasRelatedSynonym", "val" : "defense response signaling pathway, resistance gene-dependent" }, { "pred" : "hasRelatedSynonym", "val" : "defense response signaling pathway, resistance gene-independent" }, { "pred" : "hasRelatedSynonym", "val" : "defense response signalling pathway, resistance gene-dependent" }, { "pred" : "hasRelatedSynonym", "val" : "effector-triggered immune signaling" } ], "basicPropertyValues" : [ { 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"basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002760", "lbl" : "positive regulation of antimicrobial humoral response", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process that activates or increases the frequency, rate, or extent of an antimicrobial humoral response.", "xrefs" : [ "GOC:add" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "up regulation of antimicrobial humoral response" }, { "pred" : "hasExactSynonym", "val" : "up-regulation of antimicrobial humoral response" }, { "pred" : "hasExactSynonym", "val" : "upregulation of antimicrobial humoral response" }, { "pred" : "hasNarrowSynonym", "val" : "activation of antimicrobial humoral response" }, { "pred" : "hasNarrowSynonym", "val" : "stimulation of antimicrobial humoral response" } ], "basicPropertyValues" : [ { "pred" : 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: "down-regulation of myeloid leukocyte differentiation" }, { "pred" : "hasExactSynonym", "val" : "downregulation of myeloid leukocyte differentiation" }, { "pred" : "hasNarrowSynonym", "val" : "inhibition of myeloid leukocyte differentiation" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002763", "lbl" : "positive regulation of myeloid leukocyte differentiation", "type" : "CLASS", "meta" : { "definition" : { "val" : "Any process that activates or increases the frequency, rate, or extent of myeloid leukocyte differentiation.", "xrefs" : [ "GOC:add" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "up regulation of myeloid leukocyte differentiation" }, { "pred" : "hasExactSynonym", "val" : "up-regulation of myeloid leukocyte differentiation" }, { "pred" : "hasExactSynonym", "val" : "upregulation of myeloid leukocyte differentiation" }, { 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"http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002765", "lbl" : "immune response-inhibiting signal transduction", "type" : "CLASS", "meta" : { "definition" : { "val" : "The cascade of processes by which a signal interacts with a receptor, causing a change in the level or activity of a second messenger or other downstream target, and ultimately leading to inhibition of an immune response.", "xrefs" : [ "GOC:add", "ISBN:0781735149" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002766", "lbl" : "innate immune response-inhibiting signal transduction", "type" : "CLASS", "meta" : { "definition" : { "val" : "The cascade of processes by which a signal interacts with a receptor, causing a change in the level or activity of a second messenger or other 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Binding to DNA in a random coil configuration.", "xrefs" : [ "GOC:mah" ] }, "comments" : [ "This term was obsoleted because the definition was not clear enough as to what is directing specificity of the binding to the DNA." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "random coil binding" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/18879" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0016017" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003696", "lbl" : "satellite DNA binding", "type" : "CLASS", "meta" : { "definition" : { "val" : "Binding to satellite DNA, 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.", "xrefs" : [ "GOC:jl", "SO:0000005" ] }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003697", "lbl" : "single-stranded DNA binding", "type" : "CLASS", "meta" : { "definition" : { "val" : "Binding to single-stranded DNA.", "xrefs" : [ "GOC:elh", "GOC:vw", "PMID:22976174" ] }, "comments" : [ "Note that this term is restricted to those cases where the binding is to a single-stranded DNA molecule, not to one of the stands of double-stranded DNA." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "ssDNA binding", "xrefs" : [ "GOC:mah" ] } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0003698" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0003699" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003698", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", "val" : "http://purl.obolibrary.org/obo/IAO_0000227" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0003697" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003699", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", "val" : "http://purl.obolibrary.org/obo/IAO_0000227" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0003697" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003700", "lbl" : "DNA-binding transcription factor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "A transcription regulator activity that modulates transcription of gene sets via selective and non-covalent binding to a specific double-stranded genomic DNA sequence (sometimes referred to as a motif) within a cis-regulatory region. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons.", "xrefs" : [ "GOC:txnOH-2018" ] }, "comments" : [ "Usage guidance: Most DNA-binding transcription factors do not have enzymatic activity. The presence of specific DNA-binding domains known to be present in DNA-binding transcription factors (HOX, GATA etc) should be used to help decide whether a protein is a DNA binding transcription factor or a coregulator. If a protein has an enzymatic activity (for example, ubiquitin ligase, histone acetyl transferase) and no known DNA binding domain, consider annotating to GO:0003712 transcription coregulator activity. Special care should be taken with proteins containing zinc fingers, Myb/SANT and ARID domains, since only a subset of proteins containing these domains directly and selectively bind to regulatory DNA motifs in cis-regulatory regions." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "nucleic acid binding transcription factor activity" }, { "pred" : "hasBroadSynonym", "val" : "transcription factor activity" }, { "pred" : "hasExactSynonym", "val" : "DNA binding transcription factor activity" }, { "pred" : "hasExactSynonym", "val" : "gene-specific transcription factor activity" }, { "pred" : "hasExactSynonym", "val" : "sequence-specific DNA binding transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "bacterial-type DNA binding transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "bacterial-type RNA polymerase core promoter proximal region sequence-specific DNA binding transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "bacterial-type RNA polymerase transcription enhancer sequence-specific DNA binding transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "bacterial-type RNA polymerase transcription factor activity, metal ion regulated sequence-specific DNA binding" }, { "pred" : "hasNarrowSynonym", "val" : "bacterial-type RNA polymerase transcription factor activity, sequence-specific DNA binding" }, { "pred" : "hasNarrowSynonym", "val" : "metal ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "metal ion regulated sequence-specific DNA binding transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity" }, { "pred" : "hasNarrowSynonym", "val" : "transcription factor activity, bacterial-type RNA polymerase core promoter proximal region sequence-specific binding" }, { "pred" : "hasNarrowSynonym", "val" : "transcription factor activity, bacterial-type RNA polymerase proximal promoter sequence-specific DNA binding" }, { "pred" : "hasNarrowSynonym", "val" : "transcription factor activity, bacterial-type RNA polymerase transcription enhancer sequence-specific binding" }, { "pred" : "hasNarrowSynonym", "val" : "transcription factor activity, metal ion regulated sequence-specific DNA binding" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-163666", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Formation of ChREBP:MLX heterodimer" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/15704" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/16534" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20253" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-10-21T04:37:54Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0000130" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001071" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001130" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001131" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001151" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001199" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001204" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003701", "lbl" : "obsolete RNA polymerase I transcription factor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. Functions to initiate or regulate RNA polymerase I transcription.", "xrefs" : [ "GOC:jl" ] }, "comments" : [ "This term was obsoleted because it is essentially identical to a Process term (specifically the Biological Process term which has been selected as a term to consider for reannotation), i.e. it is defined only in terms of the process it acts in and it does NOT convey any information about the molecular nature of the function or whether the function is based on binding DNA, on interacting with other proteins, or some other mechanism. To transfer all annotations without review, the BP term indicated is considered to be equivalent and thus the only appropriate destination for all annotations. To reannotate to a MF term, you will probably need to revisit the original literature or other primary data because this \"MF\" term was not defined in terms of mechanism of action and there are multiple possibilities in the revised MF structure. In reannotation, please also consider descendent terms of the suggested MF terms as a more specific term may be more appropriate than the MF terms indicated. Please be aware that you may wish to request a new term if the mechanism of action of this gene product is not yet represented or if you are annotating for an RNAP different than one for which there is a specific suggested term. Also note that if there is no information about how the gene product acts, it may be appropriate to annotate to the root term for molecular_function." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "RNA polymerase I transcription factor activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0001181" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0006360" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003702", "lbl" : "obsolete RNA polymerase II transcription factor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. Functions to initiate or regulate RNA polymerase II transcription.", "xrefs" : [ "GOC:jl" ] }, "comments" : [ "This term was obsoleted because it is essentially identical to a Process term (specifically the Biological Process term which has been selected as a term to consider for reannotation), i.e. it is defined only in terms of the process it acts in and it does NOT convey any information about the molecular nature of the function or whether the function is based on binding DNA, on interacting with other proteins, or some other mechanism. To transfer all annotations without review, the BP term indicated is considered to be equivalent and thus the only appropriate destination for all annotations. To reannotate to a MF term, you will probably need to revisit the original literature or other primary data because this \"MF\" term was not defined in terms of mechanism of action and there are multiple possibilities in the revised MF structure. In reannotation, please also consider descendent terms of the suggested MF terms as a more specific term may be more appropriate than the MF terms indicated. Please be aware that you may wish to request a new term if the mechanism of action of this gene product is not yet represented or if you are annotating for an RNAP different than one for which there is a specific suggested term. Also note that if there is no information about how the gene product acts, it may be appropriate to annotate to the root term for molecular_function." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "RNA polymerase II transcription factor activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0000981" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0006366" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003703", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", "val" : "http://purl.obolibrary.org/obo/IAO_0000227" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0016251" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003704", "lbl" : "obsolete specific RNA polymerase II transcription factor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. Functions to enable the transcription of specific, or specific sets, of genes by RNA polymerase II.", "xrefs" : [ "GOC:ma" ] }, "comments" : [ "This term was obsoleted because \"general/nonspecific/basal\" transcription vs \"specific\" transcription were determined not to be separable, distinct process. Thus, terms trying to distinguish \"general/nonspecific/basal\" transcription from \"specific\" transcription were removed from both the Molecular Function and the Biological Process ontologies. In addition, this Molecular Function term was defined only in terms of the process it acts in and it does NOT convey any information about the molecular nature of the function or whether the function is based on binding DNA, on interacting with other proteins, or some other mechanism. To transfer all annotations without review, the BP term indicated is considered to be equivalent and thus the only appropriate destination for all annotations. To reannotate to a MF term, you will probably need to revisit the original literature or other primary data because this \"MF\" term was not defined in terms of mechanism of action and there are multiple possibilities in the revised MF structure. In reannotation, please also consider descendent terms of the suggested MF terms as a more specific term may be more appropriate than the MF terms indicated. Also note that if there is no information about how the gene product acts, it may be appropriate to annotate to the root term for molecular_function." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "specific RNA polymerase II transcription factor activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0000981" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0006366" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003705", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", "val" : "http://purl.obolibrary.org/obo/IAO_0000227" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0000981" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003706", "lbl" : "obsolete ligand-regulated transcription factor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. Functions to enable the transcription of specific, or specific sets, of genes by RNA polymerase II in response to a ligand.", "xrefs" : [ "GOC:curators" ] }, "comments" : [ "This term was made obsolete because it does not convey any information about the molecular nature of the function or whether the function is based on binding DNA, on interacting with other proteins, or some other mechanism." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "ligand-regulated transcription factor activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0003713" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0004879" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003707", "lbl" : "nuclear steroid receptor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "A nuclear receptor activity regulated by steroid binding and modulating the transcription of specific gene sets transcribed by RNA polymerase II.", "xrefs" : [ "GOC:signaling", "PMID:14708019" ] }, "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "steroid hormone receptor activity" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-8963915", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "1,25(OH)2D binds VDR" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/16717" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/26957" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/29150" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003708", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", "val" : "http://purl.obolibrary.org/obo/IAO_0000227" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0004879" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003709", "lbl" : "obsolete RNA polymerase III transcription factor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. Functions to initiate or regulate RNA polymerase III transcription.", "xrefs" : [ "GOC:jl" ] }, "comments" : [ "This term was obsoleted because it is essentially identical to a Process term (specifically the Biological Process term which has been selected as a term to consider for reannotation), i.e. it is defined only in terms of the process it acts in and it does NOT convey any information about the molecular nature of the function or whether the function is based on binding DNA, on interacting with other proteins, or some other mechanism. To transfer all annotations without review, the BP term indicated is considered to be equivalent and thus the only appropriate destination for all annotations. To reannotate to a MF term, you will probably need to revisit the original literature or other primary data because this \"MF\" term was not defined in terms of mechanism of action and there are multiple possibilities in the revised MF structure. In reannotation, please also consider descendent terms of the suggested MF terms as a more specific term may be more appropriate than the MF terms indicated. Please be aware that you may wish to request a new term if the mechanism of action of this gene product is not yet represented or if you are annotating for an RNAP different than one for which there is a specific suggested term. Also note that if there is no information about how the gene product acts, it may be appropriate to annotate to the root term for molecular_function." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "RNA polymerase III transcription factor activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0000995" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0006383" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003710", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", "val" : "http://purl.obolibrary.org/obo/IAO_0000227" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0016563" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003711", "lbl" : "transcription elongation factor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "A molecular function that stimulates the elongation properties of the RNA polymerase during the elongation phase of transcription. A subclass of transcription elongation factors enable the transition from transcription initiation to elongation, while another class rescue stalled RNA polymerases.", "xrefs" : [ "GOC:txnOH-2018", "PMID:23878398", "PMID:28892040" ] }, "comments" : [ "Restored term from obsolete." ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "transcription elongation regulator activity" }, { "pred" : "hasRelatedSynonym", "val" : "transcriptional elongation regulator activity" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/14398" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003712", "lbl" : "transcription coregulator activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "A transcription regulator activity that modulates the transcription of specific gene sets via binding to a DNA-binding transcription factor at a specific genomic locus, either on its own or as part of a complex. Coregulators often act by altering chromatin structure and modifications. For example, one class of transcription coregulators modifies chromatin structure through covalent modification of histones. A second class remodels the conformation of chromatin in an ATP-dependent fashion. A third class modulates interactions of DNA-bound DNA-binding transcription factors with other transcription coregulators.", "xrefs" : [ "GOC:txnOH-2018", "PMID:10213677", "PMID:16858867", "PMID:24203923", "PMID:25957681", "Wikipedia:Transcription_coregulator" ] }, "comments" : [ "Usage guidance: Most transcription coregulators do not bind DNA. Those that do usually bind DNA either in a non-specific or non-direct manner. If a protein binds DNA specifically, consider annotating to GO:0003700 DNA binding transcription factor activity." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "transcription cofactor activity" }, { "pred" : "hasExactSynonym", "val" : "transcription coreceptor activity" }, { "pred" : "hasExactSynonym", "val" : "transcriptional co-regulator" }, { "pred" : "hasNarrowSynonym", "val" : "nuclear receptor coreceptor activity" }, { "pred" : "hasRelatedSynonym", "val" : "RNA polymerase II transcriptional cofactor activity" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-5340251", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "NR1H4:DCA,CDCA,LCHA binds RXRA and NCOA1,2" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/15536" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/15665" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/15998" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20253" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20464" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20862" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20962" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/26489" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/28926" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/31471" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-11-24T03:02:15Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001104" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0016455" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003713", "lbl" : "transcription coactivator activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "A transcription coregulator activity that activates or increases the transcription of specific gene sets via binding to a DNA-binding transcription factor at a specific genomic locus, either on its own or as part of a complex. Coactivators often act by altering chromatin structure and modifications. For example, one class of transcription coactivators modifies chromatin structure through covalent modification of histones. A second class remodels the conformation of chromatin in an ATP-dependent fashion. A third class modulates interactions of DNA-bound DNA-binding transcription factors with other transcription coregulators. A fourth class of coactivator activity is the bridging of a DNA-binding transcription factor to the general (basal) transcription machinery. The Mediator complex, which bridges sequence-specific DNA binding transcription factors and RNA polymerase, is also a transcription coactivator.", "xrefs" : [ "GOC:txnOH-2018", "PMID:10213677", "PMID:16858867" ] }, "comments" : [ "For usage guidance, see comment in GO:0003712 ; transcription coregulator activity." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "transcription co-activator activity" }, { "pred" : "hasRelatedSynonym", "val" : "RNA polymerase II transcription co-activator activity" }, { "pred" : "hasRelatedSynonym", "val" : "RNA polymerase II transcription coactivator activity" }, { "pred" : "hasRelatedSynonym", "val" : "RNA polymerase II transcription mediator activity" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/15665" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/15998" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20253" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20464" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/28926" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-11-24T03:08:19Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001105" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003714", "lbl" : "transcription corepressor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "A transcription coregulator activity that represses or decreases the transcription of specific gene sets via binding to a DNA-binding transcription factor at a specific genomic locus, either on its own or as part of a complex. Corepressors often act by altering chromatin structure and modifications. For example, one class of transcription corepressors modifies chromatin structure through covalent modification of histones. A second class remodels the conformation of chromatin in an ATP-dependent fashion. A third class modulates interactions of DNA-bound DNA-binding transcription factors with other transcription coregulators.", "xrefs" : [ "GOC:txnOH-2018", "PMID:10213677", "PMID:16858867" ] }, "comments" : [ "For usage guidance, see comment in GO:0003712 ; transcription coregulator activity." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "transcription co-repressor activity" }, { "pred" : "hasRelatedSynonym", "val" : "RNA polymerase II transcription co-repressor activity" }, { "pred" : "hasRelatedSynonym", "val" : "RNA polymerase II transcription corepressor activity" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-400183", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "PPARA:RXRA binds Corepressors of PPARA" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/15665" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/15998" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/20464" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/28926" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "krc" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-11-24T03:14:44Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0001106" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003715", "lbl" : "obsolete transcription termination factor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. Any activity that brings about termination of transcription.", "xrefs" : [ "GOC:mah" ] }, "comments" : [ "This term was obsoleted because it is essentially identical to a Process term (specifically the Biological Process term which has been selected as a term to consider for reannotation), i.e. it is defined only in terms of the process it acts in and it does NOT convey any information about the molecular nature of the function or whether the function is based on binding DNA, on interacting with other proteins, or some other mechanism. To transfer all annotations without review, the BP term indicated is considered to be equivalent and thus the only appropriate destination for all annotations. To reannotate to a MF term, you will probably need to revisit the original literature or other primary data because this \"MF\" term was not defined in terms of mechanism of action and there are multiple possibilities in the revised MF structure. In reannotation, please also consider descendent terms of the suggested MF terms as a more specific term may be more appropriate than the MF terms indicated. Please be aware that you may wish to request a new term if the mechanism of action of this gene product is not yet represented or if you are annotating for an RNAP different than one for which there is a specific suggested term. Also note that if there is no information about how the gene product acts, it may be appropriate to annotate to the root term for molecular_function." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "transcription termination factor activity" }, { "pred" : "hasExactSynonym", "val" : "transcriptional termination factor activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0006353" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003716", "lbl" : "obsolete RNA polymerase I transcription termination factor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. Any activity that brings about termination of transcription by RNA polymerase I.", "xrefs" : [ "GOC:mah" ] }, "comments" : [ "This term was obsoleted because it is essentially identical to a Process term (specifically the Biological Process term which has been selected as a term to consider for reannotation), i.e. it is defined only in terms of the process it acts in and it does NOT convey any information about the molecular nature of the function or whether the function is based on binding DNA, on interacting with other proteins, or some other mechanism. To transfer all annotations without review, the BP term indicated is considered to be equivalent and thus the only appropriate destination for all annotations. To reannotate to a MF term, you will probably need to revisit the original literature or other primary data because this \"MF\" term was not defined in terms of mechanism of action and there are multiple possibilities in the revised MF structure. In reannotation, please also consider descendent terms of the suggested MF terms as a more specific term may be more appropriate than the MF terms indicated. Please be aware that you may wish to request a new term if the mechanism of action of this gene product is not yet represented or if you are annotating for an RNAP different than one for which there is a specific suggested term. Also note that if there is no information about how the gene product acts, it may be appropriate to annotate to the root term for molecular_function." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "Pol I transcription termination factor activity" }, { "pred" : "hasExactSynonym", "val" : "RNA polymerase I transcription termination factor activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0006363" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003717", "lbl" : "obsolete RNA polymerase II transcription termination factor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. Any activity that brings about termination of transcription by RNA polymerase II.", "xrefs" : [ "GOC:mah" ] }, "comments" : [ "This term was obsoleted because it is essentially identical to a Process term (specifically the Biological Process term which has been selected as a term to consider for reannotation), i.e. it is defined only in terms of the process it acts in and it does NOT convey any information about the molecular nature of the function or whether the function is based on binding DNA, on interacting with other proteins, or some other mechanism. To transfer all annotations without review, the BP term indicated is considered to be equivalent and thus the only appropriate destination for all annotations. To reannotate to a MF term, you will probably need to revisit the original literature or other primary data because this \"MF\" term was not defined in terms of mechanism of action and there are multiple possibilities in the revised MF structure. In reannotation, please also consider descendent terms of the suggested MF terms as a more specific term may be more appropriate than the MF terms indicated. Please be aware that you may wish to request a new term if the mechanism of action of this gene product is not yet represented or if you are annotating for an RNAP different than one for which there is a specific suggested term. Also note that if there is no information about how the gene product acts, it may be appropriate to annotate to the root term for molecular_function." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "Pol II transcription termination factor activity" }, { "pred" : "hasExactSynonym", "val" : "RNA polymerase II transcription termination factor activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0006369" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003718", "lbl" : "obsolete RNA polymerase III transcription termination factor activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. Any activity that brings about termination of transcription by RNA polymerase III.", "xrefs" : [ "GOC:mah" ] }, "comments" : [ "This term was obsoleted because it is essentially identical to a Process term (specifically the Biological Process term which has been selected as a term to consider for reannotation), i.e. it is defined only in terms of the process it acts in and it does NOT convey any information about the molecular nature of the function or whether the function is based on binding DNA, on interacting with other proteins, or some other mechanism. To transfer all annotations without review, the BP term indicated is considered to be equivalent and thus the only appropriate destination for all annotations. To reannotate to a MF term, you will probably need to revisit the original literature or other primary data because this \"MF\" term was not defined in terms of mechanism of action and there are multiple possibilities in the revised MF structure. In reannotation, please also consider descendent terms of the suggested MF terms as a more specific term may be more appropriate than the MF terms indicated. Please be aware that you may wish to request a new term if the mechanism of action of this gene product is not yet represented or if you are annotating for an RNAP different than one for which there is a specific suggested term. Also note that if there is no information about how the gene product acts, it may be appropriate to annotate to the root term for molecular_function." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "Pol III transcription termination factor activity" }, { "pred" : "hasExactSynonym", "val" : "RNA polymerase III transcription termination factor activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", "val" : "http://purl.obolibrary.org/obo/GO_0006386" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003719", "lbl" : "obsolete transcription factor binding, cytoplasmic sequestering", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. (Was not defined before being made obsolete).", "xrefs" : [ "GOC:jl" ] }, "comments" : [ "This term was made obsolete because sequestering is a process rather than a function." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "transcription factor binding, cytoplasmic sequestering" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003720", "lbl" : "telomerase activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "Catalysis of the reaction: a 2'-deoxyribonucleoside 5'-triphosphate + DNA(n) = diphosphate + DNA(n+1) using an internal RNA template that encodes the telomeric repeat sequence.", "xrefs" : [ "GOC:krc", "PMID:11812242", "PMID:28732250" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "telomerase RNA reverse transcriptase activity" }, { "pred" : "hasExactSynonym", "val" : "telomerase, catalyst" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-163090", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Elongation Of The Telomeric Chromosome End" } ] } }, { "val" : "Reactome:R-HSA-164617", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Elongation of Extended Telomeric Chromosome End" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/28394" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/28520" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" }, { "pred" : "http://www.w3.org/2004/02/skos/core#broadMatch", "val" : "http://purl.uniprot.org/enzyme/2.7.7.49" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003721", "lbl" : "obsolete telomerase RNA reverse transcriptase activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "OBSOLETE. Catalysis of the extension of the 3' end of a DNA strand by one deoxynucleotide at a time. Cannot initiate a chain de novo; uses the RNA subunit of the telomerase enzyme complex as its template.", "xrefs" : [ "PMID:11812242" ] }, "comments" : [ "This term was obsoleted because it represents the same activity as telomerase activity ; GO:0003720." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "telomerase, catalyst" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/28394" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "http://purl.obolibrary.org/obo/GO_0003720" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003723", "lbl" : "RNA binding", "type" : "CLASS", "meta" : { "definition" : { "val" : "Binding to an RNA molecule or a portion thereof.", "xrefs" : [ "GOC:jl", "GOC:mah" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_euk_cellular_processes_ribbon", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_plant_ribbon", "http://purl.obolibrary.org/obo/go#goslim_prokaryote", "http://purl.obolibrary.org/obo/go#goslim_prokaryote_ribbon", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "base pairing with RNA" }, { "pred" : "hasRelatedSynonym", "val" : "poly(A) RNA binding" }, { "pred" : "hasRelatedSynonym", "val" : "poly(A)-RNA binding" }, { "pred" : "hasRelatedSynonym", "val" : "poly-A RNA binding" } ], "xrefs" : [ { "val" : "Reactome:R-HSA-203922", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Exportin-5 recognizes 3' overhang of pre-miRNA" } ] } } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0000498" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0044822" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003724", "lbl" : "RNA helicase activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "Unwinding of an RNA helix, driven by ATP hydrolysis.", "xrefs" : [ "GOC:jl", "PMID:19158098" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "ATP-dependent RNA helicase activity" } ], "xrefs" : [ { "val" : "EC:3.6.4.13" }, { "val" : "MetaCyc:RXN-11109" }, { "val" : "Reactome:R-HSA-72647", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Cap-bound mRNA is activated by helicases" } ] } }, { "val" : "Reactome:R-HSA-9770129", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Formation of the Spliceosomal A complex" } ] } }, { "val" : "Reactome:R-HSA-9770131", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Formation of the Spliceosomal B* complex" } ] } }, { "val" : "Reactome:R-HSA-9770141", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Formation of the Spliceosomal C* complex" } ] } }, { "val" : "Reactome:R-HSA-9770142", "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.w3.org/2000/01/rdf-schema#label", "val" : "Formation of the Spliceosomal B complex" } ] } }, { "val" : "Reactome:R-HSA-9770145", "meta" : { "basicPropertyValues" : [ { "pred" : 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The original EC used for this reaction was not appropriate." ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "(S)-dihydroorotate:oxygen oxidoreductase activity" }, { "pred" : "hasRelatedSynonym", "val" : "4,5-L-dihydroorotate:oxygen oxidoreductase activity" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/23786" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ], "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/GO_0004159", "lbl" : "dihydropyrimidine dehydrogenase (NAD+) activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "Catalysis of the reaction: a 5,6-dihydropyrimidine (5,6-dihydrouracil or 5,6-dihydrothymine) + NAD+ = a pyrimidine (uracil or thymine) + NADH + H+.", "xrefs" : [ "PMID:23150645" ] }, "synonyms" : [ { "pred" : "hasNarrowSynonym", "val" : "dihydrothymine dehydrogenase (NAD+) activity" }, { "pred" : "hasNarrowSynonym", "val" : "dihydrouracil dehydrogenase (NAD+) activity" }, { "pred" : "hasNarrowSynonym", "val" : "thymine reductase activity" }, { "pred" : "hasNarrowSynonym", "val" : "uracil reductase activity" }, { "pred" : "hasRelatedSynonym", "val" : "5,6-dihydrouracil:NAD+ oxidoreductase activity" }, { "pred" : "hasRelatedSynonym", "val" : "pyrimidine reductase activity" } ], "xrefs" : [ { "val" : "EC:1.3.1.1" }, { "val" : "MetaCyc:DIHYDROURACIL-DEHYDROGENASE-NAD+-RXN" }, { "val" : "RHEA:20189" }, { "val" : "RHEA:28791" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/21891" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" }, { "pred" : "http://www.w3.org/2004/02/skos/core#exactMatch", "val" : "http://purl.uniprot.org/enzyme/1.3.1.1" }, { "pred" : "http://www.w3.org/2004/02/skos/core#narrowMatch", "val" : "http://rdf.rhea-db.org/20189" }, { "pred" : "http://www.w3.org/2004/02/skos/core#narrowMatch", "val" : "http://rdf.rhea-db.org/28791" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0004160", "lbl" : "dihydroxy-acid dehydratase activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "Catalysis of the reaction: (2R)-2,3-dihydroxy-3-methylbutanoate = 3-methyl-2-oxobutanoate + H2O.", "xrefs" : [ "RHEA:24809" ] }, "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "2,3-dihydroxy-acid hydro-lyase (3-methyl-2-oxobutanoate-forming)", "xrefs" : [ "EC:4.2.1.9" ] }, { "pred" : "hasRelatedSynonym", "val" : "2,3-dihydroxy-acid hydro-lyase activity", "xrefs" : [ "EC:4.2.1.9" ] }, { "pred" : "hasRelatedSynonym", "val" : "2,3-dihydroxyisovalerate dehydratase activity", "xrefs" : [ "EC:4.2.1.9" ] }, { "pred" : "hasRelatedSynonym", "val" : "DHAD", "xrefs" : [ "EC:4.2.1.9" ] }, { "pred" : "hasRelatedSynonym", "val" : "acetohydroxyacid dehydratase activity", "xrefs" : [ "EC:4.2.1.9" ] }, { "pred" : "hasRelatedSynonym", "val" : "alpha,beta-dihydroxyacid dehydratase activity", "xrefs" : [ "EC:4.2.1.9" ] }, { "pred" : "hasRelatedSynonym", "val" : "alpha,beta-dihydroxyisovalerate dehydratase activity", "xrefs" : [ "EC:4.2.1.9" ] }, { "pred" : "hasRelatedSynonym", "val" : "dihydroxy acid dehydrase activity", "xrefs" : [ "EC:4.2.1.9" ] } ], "xrefs" : [ { "val" : "EC:4.2.1.9" }, { "val" : "MetaCyc:DIHYDROXYISOVALDEHYDRAT-RXN" }, { "val" : "RHEA:24809" }, { "val" : "RHEA:27694" } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/28613" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/28938" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" }, { "pred" : "http://www.w3.org/2004/02/skos/core#exactMatch", "val" : "http://purl.uniprot.org/enzyme/4.2.1.9" }, { "pred" : "http://www.w3.org/2004/02/skos/core#exactMatch", "val" : "http://rdf.rhea-db.org/24809" }, { "pred" : "http://www.w3.org/2004/02/skos/core#narrowMatch", "val" : "http://rdf.rhea-db.org/27694" } ] } }, { "id" : "http://purl.obolibrary.org/obo/GO_0004161", "lbl" : "dimethylallyltranstransferase activity", "type" : "CLASS", "meta" : { "definition" : { "val" : "Catalysis of the reaction: dimethylallyl diphosphate + isopentenyl diphosphate = (2E)-geranyl diphosphate + diphosphate.", "xrefs" : [ "RHEA:22408" ] }, "comments" : [ "Note that this is the first step in the formation of farnesyl diphosphate. 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