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    Xrcc5 X-ray repair complementing defective repair in Chinese hamster cells 5 [ Mus musculus (house mouse) ]

    Gene ID: 22596, updated on 22-Aug-2021

    Summary

    Official Symbol
    Xrcc5provided by MGI
    Official Full Name
    X-ray repair complementing defective repair in Chinese hamster cells 5provided by MGI
    Primary source
    MGI:MGI:104517
    See related
    Ensembl:ENSMUSG00000026187
    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
    Ku80; Ku86; CTC85; CTCBF; AI314015
    Expression
    Broad expression in CNS E11.5 (RPKM 10.7), placenta adult (RPKM 9.8) and 24 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Xrcc5 in Genome Data Viewer
    Location:
    1 C3; 1 36.5 cM
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (72346576..72434112)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (72307417..72394953)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 1 NC_000067.5 (72353995..72441527)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA D230017M19 gene Neighboring gene peroxisomal trans-2-enoyl-CoA reductase Neighboring gene transmembrane protein 169 Neighboring gene predicted gene, 51631 Neighboring gene predicted gene, 39661 Neighboring gene membrane associated ring-CH-type finger 4 Neighboring gene ribosomal protein L17 pseudogene

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2)  1 citation
    • Chemically induced (ENU) (1) 
    • Endonuclease-mediated (1) 

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    contributes_to 5'-deoxyribose-5-phosphate lyase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP-dependent activity, acting on DNA ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    contributes_to DNA end binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA end binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables U3 snoRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables damaged DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    contributes_to double-stranded DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    contributes_to double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to double-stranded telomeric DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables helicase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein C-terminus binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein-containing complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables telomeric DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables telomeric DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription cis-regulatory region binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ubiquitin protein ligase binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA recombination IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in DNA recombination IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within DNA repair IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in activation of innate immune response ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cell population proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in cellular hyperosmotic salinity response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to DNA damage stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to X-ray IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in cellular response to X-ray ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to gamma radiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in cellular response to gamma radiation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cellular response to leukemia inhibitory factor IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    acts_upstream_of_or_within double-strand break repair IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within double-strand break repair IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in double-strand break repair ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in double-strand break repair via nonhomologous end joining IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in double-strand break repair via nonhomologous end joining ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within hematopoietic stem cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within immune system process IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within innate immune response IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within leptotene IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of t-circle formation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of neurogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of protein kinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of telomere maintenance via telomerase ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of smooth muscle cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within ribosome biogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in small-subunit processome assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in telomere maintenance IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of Ku70:Ku80 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of Ku70:Ku80 complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in chromosome, telomeric region ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    part_of nonhomologous end joining complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    part_of protein-DNA complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of ribonucleoprotein complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in site of DNA damage ISO
    Inferred from Sequence Orthology
    more info
     
    part_of small-subunit processome ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    X-ray repair cross-complementing protein 5
    Names
    ATP-dependent DNA helicase 2 subunit 2
    ATP-dependent DNA helicase II 80 kDa subunit
    CTC box-binding factor 85 kDa subunit
    DNA repair protein XRCC5
    Ku p80
    ku autoantigen protein p86 homolog
    nuclear factor IV
    NP_001344448.1
    NP_001344449.1
    NP_033559.2
    XP_006495955.1
    XP_006495956.1

    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_001357519.1NP_001344448.1  X-ray repair cross-complementing protein 5 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC114629, AC114905
      Conserved Domains (3) summary
      cd00873
      Location:225523
      KU80; Ku-core domain, Ku80 subfamily; Ku80 is a subunit of the Ku protein, which plays a key role in multiple nuclear processes such as DNA repair, chromosome maintenance, transcription regulation, and V(D)J recombination. The mechanism underlying the ...
      pfam03731
      Location:1225
      Ku_N; Ku70/Ku80 N-terminal alpha/beta domain
      pfam08785
      Location:575687
      Ku_PK_bind; Ku C terminal domain like
    2. NM_001357520.1NP_001344449.1  X-ray repair cross-complementing protein 5 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC114629, AC114905
      Conserved Domains (3) summary
      cd00873
      Location:225523
      KU80; Ku-core domain, Ku80 subfamily; Ku80 is a subunit of the Ku protein, which plays a key role in multiple nuclear processes such as DNA repair, chromosome maintenance, transcription regulation, and V(D)J recombination. The mechanism underlying the ...
      pfam03731
      Location:1225
      Ku_N; Ku70/Ku80 N-terminal alpha/beta domain
      pfam08785
      Location:575687
      Ku_PK_bind; Ku C terminal domain like
    3. NM_009533.2NP_033559.2  X-ray repair cross-complementing protein 5 isoform 1

      See identical proteins and their annotated locations for NP_033559.2

      Status: VALIDATED

      Source sequence(s)
      AK081633, AK165470, CJ220465
      Consensus CDS
      CCDS35608.1
      UniProtKB/Swiss-Prot
      P27641
      Related
      ENSMUSP00000027379.9, ENSMUST00000027379.10
      Conserved Domains (4) summary
      cd00873
      Location:244542
      KU80; Ku-core domain, Ku80 subfamily; Ku80 is a subunit of the Ku protein, which plays a key role in multiple nuclear processes such as DNA repair, chromosome maintenance, transcription regulation, and V(D)J recombination. The mechanism underlying the ...
      TIGR00578
      Location:9577
      ku70; ATP-dependent DNA helicase II, 70 kDa subunit (ku70)
      pfam03731
      Location:9244
      Ku_N; Ku70/Ku80 N-terminal alpha/beta domain
      pfam08785
      Location:594706
      Ku_PK_bind; Ku C terminal domain like

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000067.7 Reference GRCm39 C57BL/6J

      Range
      72346576..72434112
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006495892.2XP_006495955.1  X-ray repair cross-complementing protein 5 isoform X1

      Conserved Domains (3) summary
      cd00873
      Location:244542
      KU80; Ku-core domain, Ku80 subfamily; Ku80 is a subunit of the Ku protein, which plays a key role in multiple nuclear processes such as DNA repair, chromosome maintenance, transcription regulation, and V(D)J recombination. The mechanism underlying the ...
      pfam03731
      Location:9244
      Ku_N; Ku70/Ku80 N-terminal alpha/beta domain
      pfam08785
      Location:594722
      Ku_PK_bind; Ku C terminal domain like
    2. XM_006495893.4XP_006495956.1  X-ray repair cross-complementing protein 5 isoform X2

      Conserved Domains (3) summary
      cd00873
      Location:225523
      KU80; Ku-core domain, Ku80 subfamily; Ku80 is a subunit of the Ku protein, which plays a key role in multiple nuclear processes such as DNA repair, chromosome maintenance, transcription regulation, and V(D)J recombination. The mechanism underlying the ...
      pfam03731
      Location:1225
      Ku_N; Ku70/Ku80 N-terminal alpha/beta domain
      pfam08785
      Location:575703
      Ku_PK_bind; Ku C terminal domain like
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