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

    Gene ID: 289810, updated on 2-Nov-2024

    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 and regulation of gene expression. Predicted to act upstream of or within negative regulation of DNA-templated transcription. Predicted to be located in nucleoplasm. Predicted to be part of exosome (RNase complex) and transcription repressor complex. Predicted to be active in nucleolus. Orthologous to human C1D (C1D nuclear receptor corepressor). [provided by Alliance of Genome Resources, Nov 2024]
    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 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 IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    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 IBA
    Inferred from Biological aspect of Ancestor
    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
    		  
    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 ISO
    Inferred from Sequence Orthology
    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

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

      UniProtKB/TrEMBL
      A0A8I5Y0T0, A6JPZ6, B5DEI6

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

      UniProtKB/TrEMBL
      A0A8I5Y0T0, A6JPZ6, B5DEI6

    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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