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Xrcc6 X-ray repair cross complementing 6 [ Rattus norvegicus (Norway rat) ]

Gene ID: 25019, updated on 2-Nov-2024

Summary

Official Symbol
Xrcc6provided by RGD
Official Full Name
X-ray repair cross complementing 6provided by RGD
Primary source
RGD:2643
See related
EnsemblRapid:ENSRNOG00000006392 AllianceGenome:RGD:2643
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
Ku70; G22p1; Kup70
Summary
Contributes to double-stranded DNA binding activity. Involved in cellular hyperosmotic salinity response and cellular response to X-ray. Part of protein-containing complex. Orthologous to human XRCC6 (X-ray repair cross complementing 6). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Thymus (RPKM 129.5), Adrenal (RPKM 111.3) and 9 other tissues See more
Orthologs
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Genomic context

See Xrcc6 in Genome Data Viewer
Location:
7q34
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (115423026..115443884)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (113542992..113563762)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (123259881..123280613)

Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479945 Neighboring gene NADH:ubiquinone oxidoreductase subunit B11B Neighboring gene uncharacterized LOC103692950 Neighboring gene desumoylating isopeptidase 1 Neighboring gene ATP synthase subunit a-like Neighboring gene small nuclear ribonucleoprotein 13

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables 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 hydrolysis activity ISO
Inferred from Sequence Orthology
more info
 
enables ATP-dependent activity, acting on DNA ISO
Inferred from Sequence Orthology
more info
 
contributes_to DNA end binding ISO
Inferred from Sequence Orthology
more info
 
enables DNA helicase activity ISO
Inferred from Sequence Orthology
more info
 
enables cyclin 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
 
contributes_to double-stranded DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables 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 protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
 
enables scaffold protein binding ISO
Inferred from Sequence Orthology
more info
 
enables telomeric DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables transcription cis-regulatory region binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within DNA damage response ISO
Inferred from Sequence Orthology
more info
 
involved_in DNA duplex unwinding IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within V(D)J recombination ISO
Inferred from Sequence Orthology
more info
 
involved_in activation of innate immune response ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular hyperosmotic salinity response IDA
Inferred from Direct Assay
more info
PubMed 
involved_in cellular response to X-ray IDA
Inferred from Direct Assay
more info
PubMed 
involved_in cellular response to gamma radiation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within double-strand break repair ISO
Inferred from Sequence Orthology
more info
 
involved_in double-strand break repair TAS
Traceable Author Statement
more info
PubMed 
involved_in double-strand break repair via classical nonhomologous end joining 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
 
acts_upstream_of_or_within double-strand break repair via nonhomologous end joining ISO
Inferred from Sequence Orthology
more info
 
involved_in double-strand break repair via nonhomologous end joining ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of neurogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of lymphocyte differentiation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of neurogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of protein kinase activity IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of protein kinase activity ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of transcription by RNA polymerase II 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 response to ionizing radiation ISO
Inferred from Sequence Orthology
more info
 
involved_in telomere maintenance IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
part_of DNA-dependent protein kinase complex ISO
Inferred from Sequence Orthology
more info
 
part_of DNA-dependent protein kinase-DNA ligase 4 complex ISO
Inferred from Sequence Orthology
more info
 
part_of Ku70:Ku80 complex IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of Ku70:Ku80 complex ISO
Inferred from Sequence Orthology
more info
 
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 IEA
Inferred from Electronic Annotation
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
part_of protein-DNA complex ISO
Inferred from Sequence Orthology
more info
 
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 
part_of transcription regulator complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
X-ray repair cross-complementing protein 6
Names
Ku70 DNA-binding component of DNA-dependent proteinkinase complex (thyroid autoantigen 70 kDa)
X-ray repair complementing defective repair in Chinese hamster cells 6
thyroid autoantigen

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_139080.2NP_620780.2  X-ray repair cross-complementing protein 6

    See identical proteins and their annotated locations for NP_620780.2

    Status: VALIDATED

    Source sequence(s)
    BC078718
    UniProtKB/TrEMBL
    E9PT85, Q6AZ64
    Related
    ENSRNOP00000061920.2, ENSRNOT00000066849.3
    Conserved Domains (4) summary
    cd00788
    Location:252527
    KU70; Ku-core domain, Ku70 subfamily; Ku70 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 ...
    cd01458
    Location:33247
    vWA_ku; Ku70/Ku80 N-terminal domain. The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or ...
    TIGR00578
    Location:22606
    ku70; ATP-dependent DNA helicase II, 70 kDa subunit (ku70)
    pfam02037
    Location:571605
    SAP; SAP domain

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_086025.1 Reference GRCr8

    Range
    115423026..115443884
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_008765671.4XP_008763893.1  X-ray repair cross-complementing protein 6 isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZXI9, E9PT85
    Related
    ENSRNOP00000082673.1, ENSRNOT00000108388.2
    Conserved Domains (4) summary
    cd00788
    Location:252473
    KU70; Ku-core domain, Ku70 subfamily; Ku70 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 ...
    cd01458
    Location:33247
    vWA_ku; Ku70/Ku80 N-terminal domain. The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or ...
    TIGR00578
    Location:22552
    ku70; ATP-dependent DNA helicase II, 70 kDa subunit (ku70)
    pfam02037
    Location:517551
    SAP; SAP domain
  2. XM_063263006.1XP_063119076.1  X-ray repair cross-complementing protein 6 isoform X2