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C1d C1D nuclear receptor co-repressor [ Mus musculus (house mouse) ]

Gene ID: 57316, updated on 27-Nov-2024

Summary

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Official Symbol
C1dprovided by MGI
Official Full Name
C1D nuclear receptor co-repressorprovided by MGI
Primary source
MGI:MGI:1927354
See related
Ensembl:ENSMUSG00000000581 AllianceGenome:MGI:1927354
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
SUN-CoR; 1110036E10Rik
Summary
Enables DNA binding activity; nuclear receptor binding activity; and transcription corepressor activity. Acts upstream of or within negative regulation of DNA-templated transcription. Part of transcription repressor complex. Is expressed in limb and limb mesenchyme. Orthologous to human C1D (C1D nuclear receptor corepressor). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in CNS E18 (RPKM 11.9), CNS E14 (RPKM 8.8) and 21 other tissues See more
Orthologs
human all
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Genomic context

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See C1d in Genome Data Viewer
Location:
11 A2; 11 9.89 cM
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (17207547..17219176)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (17257547..17269176)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E3933 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:17111656-17111843 Neighboring gene partner of NOB1 homolog Neighboring gene dynein axonemal assembly factor 10 Neighboring gene STARR-seq mESC enhancer starr_28705 Neighboring gene aldo-keto reductase family 1, member B3 pseudogene Neighboring gene STARR-seq mESC enhancer starr_28707 Neighboring gene predicted gene, 31268

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. C1D family proteins in coordinating RNA processing, chromosome condensation and DNA damage response. Jackson RA, et al. Cell Div, 2016. PMID 27030795, Free PMC Article
  2. cDNA cloning, recombinant expression and characterization of polypetides with exceptional DNA affinity. Nehls P, et al. Nucleic Acids Res, 1998 Mar 1. PMID 9469821, Free PMC Article
  3. Cloning and characterization of a corepressor and potential component of the nuclear hormone receptor repression complex. Zamir I, et al. Proc Natl Acad Sci U S A, 1997 Dec 23. PMID 9405624, Free PMC Article
  4. The sperm-associated antigen 6 interactome and its role in spermatogenesis. Liu Y, et al. Reproduction, 2019 Aug. PMID 31146259, Free PMC Article
  5. A global genomic transcriptional code associated with CNS-expressed genes. Bailey PJ, et al. Exp Cell Res, 2006 Oct 1. PMID 16919269

See all (19) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (4) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables nuclear receptor binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transcription corepressor activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in apoptotic process IEA
Inferred from Electronic Annotation
more info
  
involved_in maturation of 5.8S rRNA IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in maturation of 5.8S rRNA IEA
Inferred from Electronic Annotation
more info
  
involved_in maturation of 5.8S rRNA ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of gene expression IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
part_of exosome (RNase complex) IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleolus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
part_of transcription repressor complex IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
nuclear nucleic acid-binding protein C1D
Names
nuclear DNA-binding protein
small unique nuclear receptor corepressor

NCBI Reference Sequences (RefSeq)

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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_001330649.1 → NP_001317578.1  nuclear nucleic acid-binding protein C1D

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate exon in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AI430211, AK028702, AK035169, AL603925
    Consensus CDS
    CCDS24451.1
    UniProtKB/Swiss-Prot
    O35473, Q5SWJ6, Q61368
    UniProtKB/TrEMBL
    A0A0A0MQK7
    Related
    ENSMUSP00000121134.2, ENSMUST00000156784.2
    Conserved Domains (1) summary
    pfam04000
    Location:18 → 95
    Sas10_Utp3; Sas10/Utp3/C1D family

  2. NM_020558.4 → NP_065583.2  nuclear nucleic acid-binding protein C1D

    See identical proteins and their annotated locations for NP_065583.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the shorter transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK028702, AK035169, AL603925
    Consensus CDS
    CCDS24451.1
    UniProtKB/Swiss-Prot
    O35473, Q5SWJ6, Q61368
    UniProtKB/TrEMBL
    A0A0A0MQK7
    Related
    ENSMUSP00000000594.3, ENSMUST00000000594.9
    Conserved Domains (1) summary
    pfam04000
    Location:18 → 95
    Sas10_Utp3; Sas10/Utp3/C1D family

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_000077.7 Reference GRCm39 C57BL/6J

    Range
    17207547..17219176
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O35473.1 GenPept UniProtKB/Swiss-Prot:O35473

Gene LinkOut

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