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SEQUENCE ONTOLOGY - ANNOTATIONS

The Sequence Types and Features Ontology (SO) is downloaded weekly from the SourceForge CVS repository at http://song.cvs.sourceforge.net/viewvc/song/ontology/. For more information about this ontology, see the Sequence Ontology Home Page at http://www.sequenceontology.org/.

Term:cis_regulatory_module
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Accession:SO:0000727 term browser browse the term
Definition:A regulatory region where transcription factor binding sites are clustered to regulate various aspects of transcription activities. (CRMs can be located a few kb to hundreds of kb upstream of the core promoter, in the coding sequence, within introns, or in the untranslated regions (UTR) sequences, and even on a different chromosome). A single gene can be regulated by multiple CRMs to give precise control of its spatial and temporal expression. CRMs function as nodes in large, intertwined regulatory network. CRM DNA accessibility is subject to regulation by dbTFs and transcription co-TFs.
Comment:Requested by Stephen Grossmann Dec 2004. Changed relationship from has_part SO:0000235 TF_binding site to TF_binding_site is part_of SO:0000727 CRM in response to requests from GREEKC initiative in Aug 2020. Removed 3' from definition because 5' UTRs are included as well, notified by Colin Logie of GREEKC. Nov 9 2020. DS Updated name from 'CRM' to 'cis_regulatory_module' on 08 Feb 2021. See GitHub Issue #526. DS Added final sentence to definition as part of GREEKC Feb 16, 2021. See GitHub Issue #534.
Synonyms:exact_synonym: CRM;   TF module;   cis regulatory module;   transcription factor module



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Term paths to the root
Path 1
Term Annotations click to browse term
  SO ontology 0
    sequence_feature 0
      region 0
        biological_region 0
          gene_member_region 0
            regulatory_region 0
              transcriptional_cis_regulatory_region 0
                cis_regulatory_module 0
                  DNA_loop_anchor 0
                  TF_binding_site + 0
                  enhancer + 0
                  insulator + 0
                  locus_control_region 0
                  silencer + 0
Path 2
Term Annotations click to browse term
  SO ontology 0
    sequence_feature 0
      region 0
        biological_region 0
          gene_group 0
            gene 0
              gene_member_region 0
                regulatory_region 0
                  transcriptional_cis_regulatory_region 0
                    cis_regulatory_module 0
                      DNA_loop_anchor 0
                      TF_binding_site + 0
                      enhancer + 0
                      insulator + 0
                      locus_control_region 0
                      silencer + 0
paths to the root