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Ercc8 ERCC excision repair 8, CSA ubiquitin ligase complex subunit [ Rattus norvegicus (Norway rat) ]

Gene ID: 310071, updated on 6-Jun-2024

Summary

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Official Symbol
Ercc8provided by RGD
Official Full Name
ERCC excision repair 8, CSA ubiquitin ligase complex subunitprovided by RGD
Primary source
RGD:1311570
See related
Ensembl:ENSRNOG00000009968 AllianceGenome:RGD:1311570
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Ckn1
Summary
Predicted to contribute to ubiquitin-protein transferase activity. Involved in response to auditory stimulus and response to organic cyclic compound. Located in cytoplasm; nucleus; and perikaryon. Human ortholog(s) of this gene implicated in Cockayne syndrome; Cockayne syndrome A; and UV-sensitive syndrome. Orthologous to human ERCC8 (ERCC excision repair 8, CSA ubiquitin ligase complex subunit). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Brain (RPKM 64.6), Thymus (RPKM 49.0) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Ercc8 in Genome Data Viewer
Location:
2q14
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (41380901..41418294)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (39647393..39686229)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (39434617..39473392)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene small integral membrane protein 15 Neighboring gene NADH:ubiquinone oxidoreductase complex assembly factor 2 Neighboring gene uncharacterized LOC134485832 Neighboring gene 60S ribosomal protein L29-like Neighboring gene ribosomal protein L29, pseudogene 23

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. Dynamic compartmentalization of DNA repair proteins within spiral ganglion neurons in response to noise stress. Guthrie OW. Int J Neurosci, 2012 Dec. PMID 22900489
  2. Cockayne syndrome type A: novel mutations in eight typical patients. Bertola DR, et al. J Hum Genet, 2006. PMID 16865293
  3. High carriers frequency of an apparently ancient founder mutation p.Tyr322X in the ERCC8 gene responsible for Cockayne syndrome among Christian Arabs in Northern Israel. Khayat M, et al. Am J Med Genet A, 2010 Dec. PMID 21108394
  4. Transcription-coupled nucleotide excision repair in mammalian cells: molecular mechanisms and biological effects. Fousteri M, et al. Cell Res, 2008 Jan. PMID 18166977
  5. The role of CSA in the response to oxidative DNA damage in human cells. D'Errico M, et al. Oncogene, 2007 Jun 28. PMID 17297471

See all (21) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
  
contributes_to ubiquitin-protein transferase activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA damage response ISO
Inferred from Sequence Orthology
more info
  
involved_in double-strand break repair via classical nonhomologous end joining ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of DNA repair ISO
Inferred from Sequence Orthology
more info
  
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in protein autoubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in protein polyubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein polyubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of transcription-coupled nucleotide-excision repair ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within response to UV ISO
Inferred from Sequence Orthology
more info
  
involved_in response to UV ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within response to X-ray ISO
Inferred from Sequence Orthology
more info
  
involved_in response to auditory stimulus IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to organic cyclic compound IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to oxidative stress ISO
Inferred from Sequence Orthology
more info
  
involved_in single strand break repair ISO
Inferred from Sequence Orthology
more info
  
involved_in transcription-coupled nucleotide-excision repair IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within transcription-coupled nucleotide-excision repair ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of Cul4-RING E3 ubiquitin ligase complex ISO
Inferred from Sequence Orthology
more info
  
part_of Cul4A-RING E3 ubiquitin ligase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of Cul4A-RING E3 ubiquitin ligase complex ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear matrix ISO
Inferred from Sequence Orthology
more info
  
part_of nucleotide-excision repair complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of nucleotide-excision repair complex ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in perikaryon IDA
Inferred from Direct Assay
more info
 PubMed 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
DNA excision repair protein ERCC-8
Names
Cockayne syndrome 1 (classical)
excision repair cross-complementation group 8
excision repair cross-complementing rodent repair deficiency, complementation group 8
excision repaiross-complementing rodent repair deficiency, complementation group 8

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_001107650.2 → NP_001101120.2  DNA excision repair protein ERCC-8

    See identical proteins and their annotated locations for NP_001101120.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the functional protein.
    Source sequence(s)
    JAXUCZ010000002
    UniProtKB/TrEMBL
    A6I5J9
    Conserved Domains (3) summary
    COG2319
    Location:42 → 369
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:47 → 97
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:42 → 361
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

RNA

  1. NR_073139.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses two alternate splice sites, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    BC089220, JAXUCZ010000002
    Related
    ENSRNOT00000013598.6

  2. NR_073140.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an exon and uses an alternate splice site, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    BC161924, JAXUCZ010000002
    Related
    ENSRNOT00000077938.2

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_086020.1 Reference GRCr8

    Range
    41380901..41418294
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017590821.3 → XP_017446310.1  DNA excision repair protein ERCC-8 isoform X1

  2. XM_063281720.1 → XP_063137790.1  DNA excision repair protein ERCC-8 isoform X3

  3. XM_039102174.2 → XP_038958102.1  DNA excision repair protein ERCC-8 isoform X2

    Conserved Domains (2) summary
    sd00039
    Location:47 → 97
    7WD40; WD40 repeat [structural motif]
    cl29593
    Location:42 → 345
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

  4. XM_039102176.2 → XP_038958104.1  DNA excision repair protein ERCC-8 isoform X3

    Conserved Domains (2) summary
    sd00039
    Location:47 → 97
    7WD40; WD40 repeat [structural motif]
    cl29593
    Location:42 → 278
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

  5. XM_063281721.1 → XP_063137791.1  DNA excision repair protein ERCC-8 isoform X4

    UniProtKB/TrEMBL
    A6I5K2

RNA

  1. XR_005500277.2 RNA Sequence

  2. XR_005500278.2 RNA Sequence

  3. XR_010063599.1 RNA Sequence

  4. XR_010063600.1 RNA Sequence

  5. XR_005500279.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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