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

    Gene ID: 71722, updated on 9-Dec-2024

    Summary

    Official Symbol
    Cicprovided by MGI
    Official Full Name
    capicua transcriptional repressorprovided by MGI
    Primary source
    MGI:MGI:1918972
    See related
    Ensembl:ENSMUSG00000005442 AllianceGenome:MGI:1918972
    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
    Summary
    Enables chromatin binding activity. Involved in several processes, including learning or memory; negative regulation of DNA-templated transcription; and social behavior. Acts upstream of or within lung alveolus development and negative regulation of transcription by RNA polymerase II. Part of protein-containing complex. Is expressed in several structures, including central nervous system; early conceptus; female reproductive system; hemolymphoid system; and urinary system. Used to study disease of mental health. Human ortholog(s) of this gene implicated in autosomal dominant intellectual developmental disorder 45. Orthologous to human CIC (capicua transcriptional repressor). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in thymus adult (RPKM 35.3), adrenal adult (RPKM 24.3) and 28 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Cic in Genome Data Viewer
    Location:
    7 A3; 7 13.73 cM
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (24967054..24993584)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (25267658..25294159)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene Ets2 repressor factor Neighboring gene STARR-positive B cell enhancer ABC_E3706 Neighboring gene predicted gene, 53354 Neighboring gene STARR-seq mESC enhancer starr_18298 Neighboring gene STARR-positive B cell enhancer ABC_E348 Neighboring gene STARR-positive B cell enhancer ABC_E24 Neighboring gene predicted gene, 45974 Neighboring gene STARR-seq mESC enhancer starr_18299 Neighboring gene STARR-positive B cell enhancer ABC_E8154 Neighboring gene STARR-positive B cell enhancer ABC_E2226 Neighboring gene platelet-activating factor acetylhydrolase, isoform 1b, subunit 3 Neighboring gene STARR-seq mESC enhancer starr_18300 Neighboring gene proline rich 19

    Genomic regions, transcripts, and products

    Expression

    • 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

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    part_of protein-containing complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    protein capicua homolog
    Names
    capicua homolog

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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
      Q3UH79, Q3UHP4, Q6PDJ8, Q8CGE4, Q8CHH0, Q924A2, Q9CW61
      Related
      ENSMUSP00000132351.2, ENSMUST00000169266.8
      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
      ENSMUSP00000126659.2, ENSMUST00000163320.8
      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: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000073.7 Reference GRCm39 C57BL/6J

      Range
      24967054..24993584
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011250697.4XP_011248999.1  protein capicua homolog isoform X2

      See identical proteins and their annotated locations for XP_011248999.1

      Conserved Domains (4) summary
      PHA03247
      Location:16712172
      PHA03247; large tegument protein UL36; Provisional
      COG5648
      Location:10631222
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01388
      Location:11061177
      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 vertebrates, and ...
      pfam16090
      Location:253342
      DUF4819; Domain of unknown function (DUF4819)
    2. XM_017312309.2XP_017167798.1  protein capicua homolog isoform X3

      Conserved Domains (4) summary
      PHA03247
      Location:16712171
      PHA03247; large tegument protein UL36; Provisional
      COG5648
      Location:10631222
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01388
      Location:11061177
      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 vertebrates, and ...
      pfam16090
      Location:253342
      DUF4819; Domain of unknown function (DUF4819)
    3. XM_011250696.3XP_011248998.1  protein capicua homolog isoform X2

      See identical proteins and their annotated locations for XP_011248998.1

      Conserved Domains (4) summary
      PHA03247
      Location:16712172
      PHA03247; large tegument protein UL36; Provisional
      COG5648
      Location:10631222
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01388
      Location:11061177
      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 vertebrates, and ...
      pfam16090
      Location:253342
      DUF4819; Domain of unknown function (DUF4819)
    4. XM_036153438.1XP_036009331.1  protein capicua homolog isoform X2

      Conserved Domains (4) summary
      PHA03247
      Location:16712172
      PHA03247; large tegument protein UL36; Provisional
      COG5648
      Location:10631222
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01388
      Location:11061177
      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 vertebrates, and ...
      pfam16090
      Location:253342
      DUF4819; Domain of unknown function (DUF4819)
    5. XM_017312310.1XP_017167799.1  protein capicua homolog isoform X1

      Conserved Domains (4) summary
      PHA03247
      Location:16712172
      PHA03247; large tegument protein UL36; Provisional
      COG5648
      Location:10631222
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01388
      Location:11061177
      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 vertebrates, and ...
      pfam16090
      Location:253342
      DUF4819; Domain of unknown function (DUF4819)
    6. XM_030242991.1XP_030098851.1  protein capicua homolog isoform X9

      Conserved Domains (3) summary
      PHA03247
      Location:6091110
      PHA03247; large tegument protein UL36; Provisional
      COG5648
      Location:1160
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01388
      Location:44115
      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 vertebrates, and ...
    7. XM_036153442.1XP_036009335.1  protein capicua homolog isoform X10

      Conserved Domains (3) summary
      PHA03247
      Location:6091109
      PHA03247; large tegument protein UL36; Provisional
      COG5648
      Location:1160
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01388
      Location:44115
      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 vertebrates, and ...
    8. XM_036153441.1XP_036009334.1  protein capicua homolog isoform X8

      Related
      ENSMUST00000167379.2
      Conserved Domains (4) summary
      PHA03247
      Location:7421243
      PHA03247; large tegument protein UL36; Provisional
      COG5648
      Location:134293
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      PRK07764
      Location:7117
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      cd01388
      Location:177248
      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 vertebrates, and ...
    9. XM_006540368.2XP_006540431.1  protein capicua homolog isoform X5

      Conserved Domains (4) summary
      PHA03247
      Location:7641265
      PHA03247; large tegument protein UL36; Provisional
      COG5648
      Location:156315
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      PRK07764
      Location:29139
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      cd01388
      Location:199270
      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 vertebrates, and ...
    10. XM_036153439.1XP_036009332.1  protein capicua homolog isoform X6

      UniProtKB/TrEMBL
      E9QP01
      Related
      ENSMUSP00000005578.7, ENSMUST00000005578.13
      Conserved Domains (4) summary
      PHA03247
      Location:7641265
      PHA03247; large tegument protein UL36; Provisional
      COG5648
      Location:156315
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      PRK07764
      Location:29139
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      cd01388
      Location:199270
      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 vertebrates, and ...
    11. XM_036153440.1XP_036009333.1  protein capicua homolog isoform X7

      Conserved Domains (4) summary
      PHA03247
      Location:7641264
      PHA03247; large tegument protein UL36; Provisional
      COG5648
      Location:156315
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      PRK07764
      Location:29139
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      cd01388
      Location:199270
      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 vertebrates, and ...
    12. XM_006540367.1XP_006540430.1  protein capicua homolog isoform X4

      Conserved Domains (4) summary
      PHA03247
      Location:7651266
      PHA03247; large tegument protein UL36; Provisional
      COG5648
      Location:157316
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      PRK07764
      Location:30140
      PRK07764; DNA polymerase III subunits gamma and tau; Validated
      cd01388
      Location:200271
      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 vertebrates, 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.