Xrcc1 X-ray repair cross complementing 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Xrcc1provided by RGD
Official Full Name: X-ray repair cross complementing 1provided by RGD
Primary source: RGD:619823
See related: EnsemblRapid:ENSRNOG00000019915 AllianceGenome:RGD:619823
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 several functions, including ADP-D-ribose modification-dependent protein binding activity; oxidized DNA binding activity; and poly-ADP-D-ribose binding activity. Predicted to contribute to 3' overhang single-stranded DNA endodeoxyribonuclease activity. Involved in base-excision repair; response to hypoxia; and response to xenobiotic stimulus. Predicted to be located in chromosome and nuclear lumen. Predicted to be part of ERCC4-ERCC1 complex. Predicted to be active in nucleus and site of DNA damage. Used to study in situ carcinoma. Biomarker of asphyxia neonatorum; transient cerebral ischemia; and visual epilepsy. Human ortholog(s) of this gene implicated in several diseases, including artery disease (multiple); carcinoma (multiple); central nervous system cancer (multiple); gastrointestinal system cancer (multiple); and hematologic cancer (multiple). Orthologous to human XRCC1 (X-ray repair cross complementing 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 97.0), Lung (RPKM 84.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q21

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (89268721..89296619)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (80140495..80168705)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (81412635..81441680)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

Xrcc1 (e-PCR), detects polymorphism
- UniSTS:144801

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
contributes_to 3' overhang single-stranded DNA endodeoxyribonuclease activity	ISO Inferred from Sequence Orthology more info
enables ADP-D-ribose modification-dependent protein binding	ISO Inferred from Sequence Orthology more info
enables damaged DNA binding	IEA Inferred from Electronic Annotation more info
enables enzyme binding	ISO Inferred from Sequence Orthology more info
enables oxidized DNA binding	ISO Inferred from Sequence Orthology more info
enables poly-ADP-D-ribose binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA damage response	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within DNA repair	ISO Inferred from Sequence Orthology more info
involved_in base-excision repair	IBA Inferred from Biological aspect of Ancestor more info
involved_in base-excision repair	IDA Inferred from Direct Assay more info	PubMed
involved_in base-excision repair	ISO Inferred from Sequence Orthology more info
involved_in base-excision repair	TAS Traceable Author Statement more info	PubMed
involved_in cerebellum morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in double-strand break repair via nonhomologous end joining	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hippocampus development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of protection from non-homologous end joining at telomere	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA ligase activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of single strand break repair	ISO Inferred from Sequence Orthology more info
involved_in replication-born double-strand break repair via sister chromatid exchange	ISO Inferred from Sequence Orthology more info
involved_in response to hydroperoxide	ISO Inferred from Sequence Orthology more info
involved_in response to hypoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in single strand break repair	IEA Inferred from Electronic Annotation more info
involved_in telomeric DNA-containing double minutes formation	ISO Inferred from Sequence Orthology more info
involved_in voluntary musculoskeletal movement	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of ERCC4-ERCC1 complex	ISO Inferred from Sequence Orthology more info
located_in chromatin	ISO Inferred from Sequence Orthology more info
located_in chromosome, telomeric region	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
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
is_active_in site of DNA damage	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: DNA repair protein XRCC1

Names: X-ray repair complementing defective repair in Chinese hamster cells 1; X-ray repair cross-complementing protein 1; x-ray repair cross-complementing group 1 protein

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)

NM_053435.2 → NP_445887.2 DNA repair protein XRCC1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000001

UniProtKB/Swiss-Prot

Q6IRJ9, Q9ESZ0

UniProtKB/TrEMBL

A0A8I6AHG8, A6J8Z7

Related

ENSRNOP00000027057.6, ENSRNOT00000027057.7

Conserved Domains (5) summary

PHA03247
Location:229 → 351

PHA03247; large tegument protein UL36; Provisional

pfam05793
Location:406 → 532

TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)

cd17707
Location:536 → 629

BRCT_XRCC1_rpt2; Second (C-terminal) BRCT domain in X-ray repair cross-complementing protein 1 (XRCC1) and similar proteins

cd17725
Location:322 → 390

BRCT_XRCC1_rpt1; First (central) BRCT domain in X-ray repair cross-complementing protein 1 (XRCC1) and similar proteins

pfam01834
Location:1 → 151

XRCC1_N; XRCC1 N terminal 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

NC_086019.1 Reference GRCr8

Range

89268721..89296619

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063275851.1 → XP_063131921.1 DNA repair protein XRCC1 isoform X1

UniProtKB/TrEMBL

A0A8I6AHG8

Related

ENSRNOP00000092376.2, ENSRNOT00000100887.2
XM_017589797.3 → XP_017445286.3 DNA repair protein XRCC1 isoform X2

UniProtKB/TrEMBL

A0A8I6AHG8
XM_039092853.2 → XP_038948781.1 DNA repair protein XRCC1 isoform X3

UniProtKB/TrEMBL

A0A8I6AHG8

Conserved Domains (5) summary

PRK06975
Location:159 → 232

PRK06975; bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed

pfam05793
Location:311 → 437

TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)

cd17707
Location:441 → 534

BRCT_XRCC1_rpt2; Second (C-terminal) BRCT domain in X-ray repair cross-complementing protein 1 (XRCC1) and similar proteins

cd17725
Location:227 → 295

BRCT_XRCC1_rpt1; First (central) BRCT domain in X-ray repair cross-complementing protein 1 (XRCC1) and similar proteins

pfam01834
Location:1 → 56

XRCC1_N; XRCC1 N terminal domain