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    Cic capicua transcriptional repressor [ Mus musculus (house mouse) ]

    Gene ID: 71722, updated on 4-Jun-2017
    Official Symbol
    Cicprovided by MGI
    Official Full Name
    capicua transcriptional repressorprovided by MGI
    Primary source
    MGI:MGI:1918972
    See related
    Ensembl:ENSMUSG00000005442 Vega:OTTMUSG00000036029
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    mKIAA0306; 1200010B10Rik
    Orthologs
    Location:
    7; 7 A3
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 7 NC_000073.6 (25267656..25294159)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 7 NC_000073.5 (26067198..26079167)

    Chromosome 7 - NC_000073.6Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 9130221H12 gene Neighboring gene glycogen synthase kinase 3 alpha Neighboring gene Ets2 repressor factor Neighboring gene predicted gene, 45974 Neighboring gene platelet-activating factor acetylhydrolase, isoform 1b, subunit 3 Neighboring gene proline rich 19

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Gene trapped (1) 
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    lung alveolus development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    lung alveolus development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of transcription from RNA polymerase II promoter IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    regulation of transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    protein complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Preferred Names
    protein capicua homolog
    Names
    capicua homolog

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001302811.1NP_001289740.1  protein capicua homolog isoform CIC-L

      See identical proteins and their annotated locations for NP_001289740.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR, uses an alternate promoter, an alternate start codon, and has multiple differences in the coding region compared to variant 1. It encodes isoform CIC-L (PMID: 17190598), which has a distinct N-terminus and is longer than isoform CIC-S.
      Source sequence(s)
      AC156992, AK147535, BF455793
      Consensus CDS
      CCDS80678.1
      UniProtKB/Swiss-Prot
      Q924A2
      Related
      ENSMUSP00000132351.1, OTTMUSP00000051114, ENSMUST00000169266.7, OTTMUST00000092472
      Conserved Domains (3) summary
      COG5648
      Location:10631222
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01388
      Location:11061177
      SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...
      pfam16090
      Location:253342
      DUF4819; Domain of unknown function (DUF4819)
    2. NM_027882.4NP_082158.2  protein capicua homolog isoform CIC-S

      See identical proteins and their annotated locations for NP_082158.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the shorter isoform (CIC-S, PMID: 17190598).
      Source sequence(s)
      AC156992, AK147276, BF455793
      Consensus CDS
      CCDS52146.1
      UniProtKB/Swiss-Prot
      Q924A2
      Related
      ENSMUSP00000126659.1, OTTMUSP00000051115, ENSMUST00000163320.7, OTTMUST00000092473
      Conserved Domains (2) summary
      COG5648
      Location:156315
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01388
      Location:199270
      SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000073.6 Reference GRCm38.p4 C57BL/6J

      Range
      25267656..25294159
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011250697.2XP_011248999.1  protein capicua homolog isoform X3

      See identical proteins and their annotated locations for XP_011248999.1

      Conserved Domains (3) summary
      COG5648
      Location:10631222
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01388
      Location:11061177
      SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...
      pfam16090
      Location:253342
      DUF4819; Domain of unknown function (DUF4819)
    2. XM_011250696.1XP_011248998.1  protein capicua homolog isoform X3

      See identical proteins and their annotated locations for XP_011248998.1

      Conserved Domains (3) summary
      COG5648
      Location:10631222
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01388
      Location:11061177
      SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...
      pfam16090
      Location:253342
      DUF4819; Domain of unknown function (DUF4819)
    3. XM_017312310.1XP_017167799.1  protein capicua homolog isoform X2

    4. XM_017312309.1XP_017167798.1  protein capicua homolog isoform X1

    5. XM_006540368.1XP_006540431.1  protein capicua homolog isoform X5

      Related
      ENSMUSP00000005578.6, ENSMUST00000005578.12
      Conserved Domains (2) summary
      COG5648
      Location:156315
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01388
      Location:199270
      SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...
    6. XM_006540367.1XP_006540430.1  protein capicua homolog isoform X4

      Conserved Domains (2) summary
      COG5648
      Location:157316
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01388
      Location:200271
      SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001110131.1: Suppressed sequence

      Description
      NM_001110131.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    2. NM_001110132.1: Suppressed sequence

      Description
      NM_001110132.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
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