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C1d C1D nuclear receptor corepressor [ Rattus norvegicus (Norway rat) ]

Gene ID: 289810, updated on 4-Jan-2025

Summary

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Official Symbol
C1dprovided by RGD
Official Full Name
C1D nuclear receptor corepressorprovided by RGD
Primary source
RGD:1560600
See related
EnsemblRapid:ENSRNOG00000005982 AllianceGenome:RGD:1560600
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1560600
Summary
Predicted to enable nuclear receptor binding activity; nucleic acid binding activity; and transcription corepressor activity. Predicted to be involved in maturation of 5.8S rRNA. Predicted to act upstream of or within negative regulation of DNA-templated transcription. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of transcription repressor complex. Orthologous to human C1D (C1D nuclear receptor corepressor). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Thymus (RPKM 71.6), Spleen (RPKM 65.7) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See C1d in Genome Data Viewer
Location:
14q22
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (95862550..95874796)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (91660951..91673177)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (100415645..100427878)

Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene partner of NOB1 homolog Neighboring gene dynein axonemal assembly factor 10 Neighboring gene uncharacterized LOC134481792 Neighboring gene heterogeneous nuclear ribonucleoprotein K, pseudogene 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. 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
  2. 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
  3. C1D and hMtr4p associate with the human exosome subunit PM/Scl-100 and are involved in pre-rRNA processing. Schilders G, et al. Nucleic Acids Res, 2007. PMID 17412707, Free PMC Article
  4. An overview of pre-ribosomal RNA processing in eukaryotes. Henras AK, et al. Wiley Interdiscip Rev RNA, 2015 Mar-Apr. PMID 25346433, Free PMC Article
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC188504

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables nuclear receptor binding ISO
Inferred from Sequence Orthology
more info
  
enables transcription corepressor activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
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 ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cytoplasm 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 ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
nuclear nucleic acid-binding protein C1D
Names
C1D nuclear receptor co-repressor
nuclear DNA binding protein, pseudogene 1
rCG23324

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_001106021.1 → NP_001099491.1  nuclear nucleic acid-binding protein C1D

    See identical proteins and their annotated locations for NP_001099491.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473996
    UniProtKB/TrEMBL
    A0A8I5Y0T0, A6JPZ6, B5DEI6, F7F7W2
    Related
    ENSRNOP00000008057.6, ENSRNOT00000008057.8
    Conserved Domains (1) summary
    pfam04000
    Location:13 → 96
    Sas10_Utp3; Sas10/Utp3/C1D family

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086032.1 Reference GRCr8

    Range
    95862550..95874796
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063272984.1 → XP_063129054.1  nuclear nucleic acid-binding protein C1D isoform X2

  2. XM_017599127.3 → XP_017454616.1  nuclear nucleic acid-binding protein C1D isoform X1

    UniProtKB/TrEMBL
    A0A8I5Y0T0, A6JPZ6, B5DEI6, F7F7W2
    Conserved Domains (1) summary
    pfam04000
    Location:13 → 96
    Sas10_Utp3; Sas10/Utp3/C1D family

  3. XM_063272983.1 → XP_063129053.1  nuclear nucleic acid-binding protein C1D isoform X2

  4. XM_006251516.5 → XP_006251578.1  nuclear nucleic acid-binding protein C1D isoform X1

    See identical proteins and their annotated locations for XP_006251578.1

    UniProtKB/TrEMBL
    A0A8I5Y0T0, A6JPZ6, B5DEI6, F7F7W2
    Related
    ENSRNOP00000077143.1, ENSRNOT00000096935.2
    Conserved Domains (1) summary
    pfam04000
    Location:13 → 96
    Sas10_Utp3; Sas10/Utp3/C1D family

  5. XM_063272981.1 → XP_063129051.1  nuclear nucleic acid-binding protein C1D isoform X1

    UniProtKB/TrEMBL
    A0A8I5Y0T0, A6JPZ6, B5DEI6, F7F7W2

  6. XM_063272980.1 → XP_063129050.1  nuclear nucleic acid-binding protein C1D isoform X1

    UniProtKB/TrEMBL
    A0A8I5Y0T0, A6JPZ6, B5DEI6, F7F7W2

  7. XM_063272982.1 → XP_063129052.1  nuclear nucleic acid-binding protein C1D isoform X1

    UniProtKB/TrEMBL
    A0A8I5Y0T0, A6JPZ6, B5DEI6, F7F7W2

  8. XM_039091765.2 → XP_038947693.1  nuclear nucleic acid-binding protein C1D isoform X1

    UniProtKB/TrEMBL
    A0A8I5Y0T0, A6JPZ6, B5DEI6, F7F7W2
    Conserved Domains (1) summary
    pfam04000
    Location:13 → 96
    Sas10_Utp3; Sas10/Utp3/C1D family
Nucleotide Protein Strain
Heading Accession and Version

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