XRCC1 (X-ray repair cross complementing 1) - Rat Genome Database

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Gene: XRCC1 (X-ray repair cross complementing 1) Canis lupus familiaris
Analyze
Symbol: XRCC1
Name: X-ray repair cross complementing 1
RGD ID: 12298741
Description: ENCODES a protein that exhibits 3' overhang single-stranded DNA endodeoxyribonuclease activity (ortholog); INVOLVED IN base-excision repair (ortholog); DNA damage response (ortholog); DNA repair (ortholog); PARTICIPATES IN base excision repair pathway; nucleotide excision repair pathway; ASSOCIATED WITH 5 Alpha Fluorouracil Toxicity (ortholog); acute lymphoblastic leukemia (ortholog); asphyxia neonatorum (ortholog); FOUND IN site of DNA damage (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: DNA repair protein XRCC1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11111,548,719 - 111,571,816 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1111,548,719 - 111,571,816 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1111,028,445 - 111,051,541 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01112,158,850 - 112,181,954 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1112,158,850 - 112,181,954 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11111,746,938 - 111,770,215 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01111,380,774 - 111,403,889 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01112,265,054 - 112,288,168 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
5 Alpha Fluorouracil Toxicity  (ISO)
acute lymphoblastic leukemia  (ISO)
asphyxia neonatorum  (ISO)
autosomal recessive spinocerebellar ataxia 26  (ISO)
B-Cell Chronic Lymphocytic Leukemia  (ISO)
Birth Weight  (ISO)
brain glioma  (ISO)
Breast Neoplasms  (ISO)
cataract  (ISO)
central nervous system cancer  (ISO)
cervical cancer  (ISO)
Chemical and Drug Induced Liver Injury  (ISO)
Chronic Hepatitis C  (ISO)
chronic myeloid leukemia  (ISO)
colorectal adenocarcinoma  (ISO)
colorectal cancer  (ISO)
colorectal carcinoma  (ISO)
contact dermatitis  (ISO)
coronary artery disease  (ISO)
diabetic retinopathy  (ISO)
Erythema  (ISO)
esophageal cancer  (ISO)
esophagus squamous cell carcinoma  (ISO)
ethylmalonic encephalopathy  (ISO)
gallbladder cancer  (ISO)
gastric cardia adenocarcinoma  (ISO)
gastric cardia carcinoma  (ISO)
genetic disease  (ISO)
glioblastoma  (ISO)
hepatitis A  (ISO)
hepatitis B  (ISO)
hepatocellular carcinoma  (ISO)
high grade glioma  (ISO)
Human Viral Hepatitis  (ISO)
hypertension  (ISO)
impotence  (ISO)
in situ carcinoma  (ISO)
invasive ductal carcinoma  (ISO)
laryngeal carcinoma  (ISO)
laryngeal squamous cell carcinoma  (ISO)
leiomyoma  (ISO)
liver cancer  (ISO)
liver cirrhosis  (ISO)
lung adenocarcinoma  (ISO)
lung cancer  (ISO)
lung non-small cell carcinoma  (ISO)
male infertility  (ISO)
malignant mesothelioma  (ISO)
meningioma  (ISO)
Mesothelioma  (ISO)
Micronuclei, Chromosome-Defective  (ISO)
Mouth Neoplasms  (ISO)
myelodysplastic syndrome  (ISO)
nasopharynx carcinoma  (ISO)
Neoplasm Metastasis  (ISO)
Occupational Diseases  (ISO)
oral mucosa leukoplakia  (ISO)
pancreatic cancer  (ISO)
prostate cancer  (ISO)
Prostatic Neoplasms  (ISO)
renal cell carcinoma  (ISO)
Reperfusion Injury  (ISO)
Salivary Gland Neoplasms  (ISO)
schizophrenia  (ISO)
seminoma  (ISO)
senile cataract  (ISO)
stomach cancer  (ISO)
stomach carcinoma  (ISO)
Stomach Neoplasms  (ISO)
stomatitis  (ISO)
thyroid gland papillary carcinoma  (ISO)
transient cerebral ischemia  (ISO)
transitional cell carcinoma  (ISO)
type 2 diabetes mellitus  (ISO)
urinary bladder cancer  (ISO)
visual epilepsy  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:10967132   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
XRCC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11111,548,719 - 111,571,816 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1111,548,719 - 111,571,816 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1111,028,445 - 111,051,541 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01112,158,850 - 112,181,954 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1112,158,850 - 112,181,954 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11111,746,938 - 111,770,215 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01111,380,774 - 111,403,889 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01112,265,054 - 112,288,168 (+)NCBIUU_Cfam_GSD_1.0
XRCC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381943,543,311 - 43,575,527 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1943,543,311 - 43,580,473 (-)EnsemblGRCh38hg38GRCh38
GRCh371944,047,463 - 44,079,679 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361948,739,304 - 48,771,555 (-)NCBINCBI36Build 36hg18NCBI36
Build 341948,739,303 - 48,771,555NCBI
Celera1940,850,091 - 40,882,209 (-)NCBICelera
Cytogenetic Map19q13.31NCBI
HuRef1940,478,136 - 40,510,489 (-)NCBIHuRef
CHM1_11944,049,115 - 44,081,452 (-)NCBICHM1_1
T2T-CHM13v2.01946,364,840 - 46,397,157 (-)NCBIT2T-CHM13v2.0
Xrcc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39724,246,124 - 24,272,863 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl724,245,714 - 24,272,865 (+)EnsemblGRCm39 Ensembl
GRCm38724,546,699 - 24,573,438 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl724,546,289 - 24,573,440 (+)EnsemblGRCm38mm10GRCm38
MGSCv37725,332,169 - 25,358,457 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36724,255,049 - 24,282,192 (+)NCBIMGSCv36mm8
Celera719,161,255 - 19,187,540 (+)NCBICelera
Cytogenetic Map7A3NCBI
cM Map711.42NCBI
Xrcc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8189,268,721 - 89,296,619 (+)NCBIGRCr8
mRatBN7.2180,140,495 - 80,168,705 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl180,141,207 - 80,168,701 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx185,534,876 - 85,562,653 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0194,084,721 - 94,112,152 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0187,290,702 - 87,318,402 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0181,412,635 - 81,441,680 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl181,413,353 - 81,441,678 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0182,673,571 - 82,701,082 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4179,834,167 - 79,860,300 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1179,912,277 - 79,938,411 (+)NCBI
Celera174,594,313 - 74,621,523 (+)NCBICelera
Cytogenetic Map1q21NCBI
Xrcc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555551,293,416 - 1,315,839 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555551,293,416 - 1,315,839 (-)NCBIChiLan1.0ChiLan1.0
XRCC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22049,702,261 - 49,739,417 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11951,570,527 - 51,608,367 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01940,485,052 - 40,522,188 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11949,093,928 - 49,125,723 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1949,094,014 - 49,125,520 (-)Ensemblpanpan1.1panPan2
Xrcc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934916,407,084 - 16,436,413 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936706751,108 - 783,777 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936706752,571 - 783,746 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
XRCC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl650,403,689 - 50,425,729 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1650,403,691 - 50,425,730 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2646,158,742 - 46,180,744 (-)NCBISscrofa10.2Sscrofa10.2susScr3
XRCC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1637,062,149 - 37,095,138 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl637,060,439 - 37,095,094 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607316,603,474 - 16,637,686 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Xrcc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249071,087,611 - 1,113,266 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249071,087,611 - 1,113,275 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in XRCC1
235 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 5 16 6 6 10 8 10 5
Low 5 6 6 6 6 2 1
Below cutoff

Sequence


RefSeq Acc Id: ENSCAFT00000007644   ⟹   ENSCAFP00000007079
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1111,548,719 - 111,571,816 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000061471   ⟹   ENSCAFP00000050789
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1111,548,885 - 111,571,816 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000082499   ⟹   ENSCAFP00000064180
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1111,548,719 - 111,571,731 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845000235   ⟹   ENSCAFP00845000170
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1112,158,850 - 112,181,954 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845000244   ⟹   ENSCAFP00845000176
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1112,159,016 - 112,181,954 (+)Ensembl
RefSeq Acc Id: NM_001286982   ⟹   NP_001273911
RefSeq Status: VALIDATED
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11111,548,719 - 111,571,816 (+)NCBI
Dog10K_Boxer_Tasha1111,028,445 - 111,051,541 (+)NCBI
ROS_Cfam_1.01112,158,850 - 112,181,954 (+)NCBI
UMICH_Zoey_3.11111,746,938 - 111,770,215 (+)NCBI
UNSW_CanFamBas_1.01111,380,774 - 111,403,889 (+)NCBI
UU_Cfam_GSD_1.01112,265,054 - 112,288,168 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001273911   ⟸   NM_001286982
- UniProtKB: A0A8C0SJ49 (UniProtKB/TrEMBL),   A0A8C0KMF7 (UniProtKB/TrEMBL),   A0A8I3MFG7 (UniProtKB/TrEMBL),   A0A8C0LRH2 (UniProtKB/TrEMBL),   A0A8I3MA02 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000064180   ⟸   ENSCAFT00000082499
RefSeq Acc Id: ENSCAFP00000050789   ⟸   ENSCAFT00000061471
RefSeq Acc Id: ENSCAFP00000007079   ⟸   ENSCAFT00000007644
RefSeq Acc Id: ENSCAFP00845000176   ⟸   ENSCAFT00845000244
RefSeq Acc Id: ENSCAFP00845000170   ⟸   ENSCAFT00845000235
Protein Domains
BRCT

Promoters
RGD ID:13682263
Promoter ID:EPDNEW_C333
Type:initiation region
Name:XRCC1_1
Description:Canis lupus familiaris X-ray repair cross complementing 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11111,548,812 - 111,548,872EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000004746 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030000353 UniProtKB/TrEMBL
  ENSCAFG00040013963 UniProtKB/TrEMBL
  ENSCAFG00845000135 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000007644.5 UniProtKB/TrEMBL
  ENSCAFT00000061471.2 UniProtKB/TrEMBL
  ENSCAFT00030000670.1 UniProtKB/TrEMBL
  ENSCAFT00030000693.1 UniProtKB/TrEMBL
  ENSCAFT00040025786.1 UniProtKB/TrEMBL
  ENSCAFT00040025904.1 UniProtKB/TrEMBL
  ENSCAFT00040026024.1 UniProtKB/TrEMBL
  ENSCAFT00845000235 ENTREZGENE
  ENSCAFT00845000235.1 UniProtKB/TrEMBL
  ENSCAFT00845000244.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.10190 UniProtKB/TrEMBL
  Galactose-binding domain-like UniProtKB/TrEMBL
InterPro BRCT_dom UniProtKB/TrEMBL
  BRCT_dom_sf UniProtKB/TrEMBL
  BRCT_XRCC1_rpt1 UniProtKB/TrEMBL
  Galactose-bd-like_sf UniProtKB/TrEMBL
  Xrcc1_N UniProtKB/TrEMBL
KEGG Report cfa:476447 UniProtKB/TrEMBL
NCBI Gene XRCC1 ENTREZGENE
PANTHER DNA REPAIR PROTEIN XRCC1 UniProtKB/TrEMBL
  DNA-REPAIR PROTEIN XRCC1 UniProtKB/TrEMBL
Pfam BRCT UniProtKB/TrEMBL
  BRCT_2 UniProtKB/TrEMBL
  XRCC1_N UniProtKB/TrEMBL
PROSITE BRCT UniProtKB/TrEMBL
SMART BRCT UniProtKB/TrEMBL
Superfamily-SCOP SSF49785 UniProtKB/TrEMBL
  SSF52113 UniProtKB/TrEMBL
UniProt A0A8C0KMF7 ENTREZGENE
  A0A8C0LRH2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0SJ49 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0SJX0_CANLF UniProtKB/TrEMBL
  A0A8I3MA02 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MFG7 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:54004 ENTREZGENE