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    Xrcc4 X-ray repair cross complementing 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 309995, updated on 9-Dec-2024

    Summary

    Official Symbol
    Xrcc4provided by RGD
    Official Full Name
    X-ray repair cross complementing 4provided by RGD
    Primary source
    RGD:1359573
    See related
    EnsemblRapid:ENSRNOG00000029966 AllianceGenome:RGD:1359573
    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
    Summary
    Predicted to enable FHA domain binding activity and identical protein binding activity. Predicted to contribute to 3' overhang single-stranded DNA endodeoxyribonuclease activity. Involved in cellular response to lithium ion. Predicted to be located in chromosome, telomeric region; cytosol; and nucleoplasm. Predicted to be part of DNA ligase IV complex; DNA-dependent protein kinase-DNA ligase 4 complex; and ERCC4-ERCC1 complex. Predicted to be active in cytoplasm; nucleus; and site of double-strand break. Human ortholog(s) of this gene implicated in multiple myeloma; salivary gland adenoid cystic carcinoma; and salivary gland carcinoma. Orthologous to human XRCC4 (X-ray repair cross complementing 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 28.4), Heart (RPKM 22.4) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Xrcc4 in Genome Data Viewer
    Location:
    2q12
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (22686506..22932929, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (20948464..21197705, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (18674496..18927463, complement)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene versican Neighboring gene uncharacterized LOC134485711 Neighboring gene 40S ribosomal protein S6 pseudogene Neighboring gene small nucleolar RNA U109 Neighboring gene transmembrane protein 167A Neighboring gene uncharacterized LOC134485712

    Genomic regions, transcripts, and products

    Expression

    • 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

    Pathways from PubChem

    General gene information

    Clone Names

    • MGC95022

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    contributes_to 3' overhang single-stranded DNA endodeoxyribonuclease activity  
    NOT enables DNA binding  
    enables FHA domain binding  
    enables identical protein binding  
    NOT enables ligase activity  
    Items 1 - 25 of 33
    Process Evidence Code Pubs
    acts_upstream_of_or_within DN2 thymocyte differentiation  
    acts_upstream_of_or_within DNA ligation  
    involved_in DNA ligation involved in DNA repair  
    involved_in DNA ligation involved in DNA repair  
    acts_upstream_of_or_within V(D)J recombination  
    involved_in cellular response to lithium ion PubMed 
    acts_upstream_of_or_within central nervous system development  
    acts_upstream_of_or_within double-strand break repair  
    involved_in double-strand break repair  
    involved_in double-strand break repair via nonhomologous end joining  
    acts_upstream_of_or_within double-strand break repair via nonhomologous end joining  
    involved_in double-strand break repair via nonhomologous end joining  
    acts_upstream_of fibroblast proliferation  
    involved_in immunoglobulin V(D)J recombination  
    acts_upstream_of_or_within immunoglobulin V(D)J recombination  
    acts_upstream_of_or_within in utero embryonic development  
    acts_upstream_of_or_within isotype switching  
    acts_upstream_of_or_within negative regulation of neuron apoptotic process  
    involved_in negative regulation of protection from non-homologous end joining at telomere  
    acts_upstream_of neurogenesis  
    acts_upstream_of neuron apoptotic process  
    acts_upstream_of_or_within positive regulation of fibroblast proliferation  
    involved_in positive regulation of ligase activity  
    acts_upstream_of_or_within positive regulation of neurogenesis  
    involved_in positive regulation of phosphatidylserine exposure on apoptotic cell surface  
    acts_upstream_of_or_within pro-B cell differentiation  
    involved_in protein localization to site of double-strand break  
    involved_in response to X-ray  
    acts_upstream_of_or_within response to X-ray  
    involved_in response to X-ray  
    acts_upstream_of_or_within response to gamma radiation  
    acts_upstream_of_or_within response to ionizing radiation  
    involved_in telomeric DNA-containing double minutes formation  
    Items 1 - 25 of 33
    Component Evidence Code Pubs
    part_of DNA ligase IV complex  
    part_of DNA ligase IV complex  
    part_of DNA-dependent protein kinase-DNA ligase 4 complex  
    part_of DNA-dependent protein kinase-DNA ligase 4 complex  
    part_of ERCC4-ERCC1 complex  
    located_in chromosome, telomeric region  
    NOT located_in condensed chromosome  
    is_active_in cytoplasm  
    located_in cytosol  
    part_of nonhomologous end joining complex  
    located_in nucleoplasm  
    located_in nucleoplasm  
    is_active_in nucleus  
    located_in nucleus  
    is_active_in site of double-strand break  
    located_in site of double-strand break  

    General protein information

    Preferred Names
    DNA repair protein XRCC4
    Names
    X-ray repair complementing defective repair in Chinese hamster cells 4
    X-ray repair cross complementing protein 4

    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_001006999.1NP_001007000.1  DNA repair protein XRCC4

      See identical proteins and their annotated locations for NP_001007000.1

      Status: PROVISIONAL

      Source sequence(s)
      BC083848
      UniProtKB/TrEMBL
      A0A8I6A2T0, A6I4N6, F7EEB9, Q5XI44
      Related
      ENSRNOP00000048754.4, ENSRNOT00000045850.4
      Conserved Domains (1) summary
      pfam06632
      Location:2323
      XRCC4; DNA double-strand break repair and V(D)J recombination protein XRCC4

    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
      22686506..22932929 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008760636.3XP_008758858.1  DNA repair protein XRCC4 isoform X1

      See identical proteins and their annotated locations for XP_008758858.1

      UniProtKB/TrEMBL
      F7EEB9
      Conserved Domains (1) summary
      pfam06632
      Location:2334
      XRCC4; DNA double-strand break repair and V(D)J recombination protein XRCC4
    2. XM_006231751.4XP_006231813.1  DNA repair protein XRCC4 isoform X2

      See identical proteins and their annotated locations for XP_006231813.1

      UniProtKB/TrEMBL
      A0A8I6A2T0, A6I4N6, F7EEB9, Q5XI44
      Conserved Domains (1) summary
      pfam06632
      Location:2323
      XRCC4; DNA double-strand break repair and V(D)J recombination protein XRCC4
    3. XM_008760637.4XP_008758859.1  DNA repair protein XRCC4 isoform X1

      See identical proteins and their annotated locations for XP_008758859.1

      UniProtKB/TrEMBL
      F7EEB9
      Conserved Domains (1) summary
      pfam06632
      Location:2334
      XRCC4; DNA double-strand break repair and V(D)J recombination protein XRCC4
    4. XM_063281711.1XP_063137781.1  DNA repair protein XRCC4 isoform X2

      UniProtKB/TrEMBL
      A0A8I6A2T0, A6I4N6, F7EEB9, Q5XI44
    5. XM_039102166.2XP_038958094.1  DNA repair protein XRCC4 isoform X1

      UniProtKB/TrEMBL
      F7EEB9
      Conserved Domains (1) summary
      pfam06632
      Location:2334
      XRCC4; DNA double-strand break repair and V(D)J recombination protein XRCC4
    6. XM_063281710.1XP_063137780.1  DNA repair protein XRCC4 isoform X2

      UniProtKB/TrEMBL
      A0A8I6A2T0, A6I4N6, F7EEB9, Q5XI44
    7. XM_039102165.2XP_038958093.1  DNA repair protein XRCC4 isoform X1

      UniProtKB/TrEMBL
      F7EEB9
      Conserved Domains (1) summary
      pfam06632
      Location:2334
      XRCC4; DNA double-strand break repair and V(D)J recombination protein XRCC4
    8. XM_039102168.2XP_038958096.1  DNA repair protein XRCC4 isoform X2

      UniProtKB/TrEMBL
      A0A8I6A2T0, A6I4N6, F7EEB9, Q5XI44
      Related
      ENSRNOP00000085204.2, ENSRNOT00000097360.2
      Conserved Domains (1) summary
      pfam06632
      Location:2323
      XRCC4; DNA double-strand break repair and V(D)J recombination protein XRCC4
    9. XM_063281713.1XP_063137783.1  DNA repair protein XRCC4 isoform X4

    10. XM_063281712.1XP_063137782.1  DNA repair protein XRCC4 isoform X3

    11. XM_063281714.1XP_063137784.1  DNA repair protein XRCC4 isoform X4

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