Brca2 (BRCA2, DNA repair associated) - Rat Genome Database

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Gene: Brca2 (BRCA2, DNA repair associated) Rattus norvegicus
Analyze
Symbol: Brca2
Name: BRCA2, DNA repair associated
RGD ID: 2219
Description: Enables single-stranded DNA binding activity. Involved in several processes, including homologous chromosome orientation involved in meiotic metaphase I plate congression; response to estradiol; and spermatogenesis. Predicted to be located in several cellular components, including centrosome; chromosome, telomeric region; and nuclear lumen. Predicted to be part of BRCA2-MAGE-D1 complex; DNA repair complex; and nuclear ubiquitin ligase complex. Predicted to be active in nucleus. Used to study atrophy of testis; cancer; cataract; infertility; and osteosarcoma. Biomarker of ductal carcinoma in situ and prostate cancer. Human ortholog(s) of this gene implicated in several diseases, including Fanconi anemia (multiple); esophagus squamous cell carcinoma; hereditary breast ovarian cancer syndrome; melanoma (multiple); and reproductive organ cancer (multiple). Orthologous to human BRCA2 (BRCA2 DNA repair associated); PARTICIPATES IN homologous recombination pathway of double-strand break repair; ceramide signaling pathway; pancreatic cancer pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acetamide; aflatoxin B1.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: breast cancer 2; breast cancer 2, early onset; breast cancer 2, mutation 1, University of Wisconsin-Madison; breast cancer susceptibility protein 2; breast cancer type 2 susceptibility protein homolog; fanconi anemia group D1 protein homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Brca2m1Uwm  
Genetic Models: SD-Brca2m1Uwm
Is Marker For: Strains:   SD  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21259,492 - 103,789 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1259,819 - 100,567 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx12628,555 - 669,267 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0121,150,791 - 1,191,504 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01250,374 - 91,100 (+)NCBIRnor_WKY
Rnor_6.012503,660 - 544,754 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl12504,007 - 544,748 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.012490,733 - 535,090 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4124,282,952 - 4,323,693 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1124,282,951 - 4,323,693NCBI
Celera121,769,467 - 1,810,212 (+)NCBICelera
Cytogenetic Map12p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
atrophy of testis  (IMP)
bilateral breast cancer  (ISO)
breast cancer  (ISO)
Breast Cancer, Familial  (ISO)
breast carcinoma  (ISO)
breast ductal carcinoma  (ISO)
Breast Neoplasms  (ISO)
cancer  (IMP)
cataract  (IAGP,IMP)
cerebral palsy  (ISO)
chordoma  (ISO)
colon carcinoma  (ISO)
colorectal cancer  (ISO)
colorectal carcinoma  (ISO)
COVID-19  (ISO)
ductal carcinoma in situ  (IEP,ISO)
endometrial cancer  (ISO)
endometrial carcinoma  (ISO)
endometrial serous adenocarcinoma  (ISO)
esophageal atresia/tracheoesophageal fistula  (ISO)
esophageal cancer  (ISO)
esophageal carcinoma  (ISO)
esophagus squamous cell carcinoma  (ISO)
Fanconi anemia  (ISO)
Fanconi anemia complementation group D1  (ISO)
genetic disease  (ISO)
hematopoietic system disease  (ISO)
hepatoblastoma  (ISO)
hereditary breast ovarian cancer syndrome  (ISO)
hereditary mixed polyposis syndrome 1  (ISO)
Hereditary Neoplastic Syndromes  (ISO)
high grade glioma  (ISO)
infertility  (IMP)
intellectual disability  (ISO)
invasive ductal carcinoma  (ISO)
invasive lobular carcinoma  (ISO)
isolated growth hormone deficiency type IA  (ISO)
Lung Neoplasms  (ISO)
Lynch syndrome  (ISO)
male breast cancer  (ISO)
male breast carcinoma  (ISO)
Male Breast Neoplasms  (ISO)
medulloblastoma  (ISO)
melanoma  (ISO)
migraine  (ISO)
nephroblastoma  (ISO)
neuroblastoma  (ISO)
osteosarcoma  (IAGP)
ovarian cancer  (ISO)
Ovarian Neoplasms  (IAGP,ISO)
ovary serous adenocarcinoma  (ISO)
pancreatic cancer  (ISO)
pancreatic carcinoma  (ISO)
pancreatic endocrine carcinoma  (ISO)
polydactyly  (ISO)
primary ovarian insufficiency 16  (ISO)
prostate cancer  (IEP,ISO)
prostate small cell carcinoma  (ISO)
Prostatic Neoplasms  (ISO)
rhabdomyosarcoma  (ISO)
skin melanoma  (ISO)
Spinal Cord Injuries  (IEP)
squamous cell neoplasm  (ISO)
Stomach Neoplasms  (ISO)
Tracheoesophageal Fistula  (ISO)
uveal melanoma  (ISO)
visual epilepsy  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(R)-lipoic acid  (ISO)
1,2-dichloroethane  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
4-hydroxyphenyl retinamide  (ISO)
acetamide  (EXP)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
asbestos  (ISO)
azathioprine  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
Benzo[ghi]perylene  (ISO)
benzophenanthridine  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
butanal  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
calcitriol  (ISO)
camptothecin  (ISO)
cannabidiol  (ISO)
carbon nanotube  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
coumestrol  (ISO)
CU-O LINKAGE  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
cylindrospermopsin  (ISO)
cytarabine  (ISO)
Decamethylcyclopentasiloxane  (ISO)
diarsenic trioxide  (ISO)
dibenzofuran  (EXP)
dibutyl phthalate  (ISO)
dioxygen  (EXP,ISO)
disodium selenite  (ISO)
doxorubicin  (EXP,ISO)
endosulfan  (ISO)
Enterolactone  (ISO)
ethanol  (ISO)
folic acid  (ISO)
furan  (EXP)
genistein  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
hexamethylcyclotrisiloxane  (ISO)
imiquimod  (ISO)
indole-3-methanol  (EXP,ISO)
L-methionine  (ISO)
Lasiocarpine  (ISO)
linsidomine  (EXP)
lipoic acid  (ISO)
lipopolysaccharide  (ISO)
lithocholic acid  (ISO)
lovastatin  (ISO)
lucanthone  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylseleninic acid  (ISO)
monocrotaline  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-nitrosodiethylamine  (ISO)
nitrogen mustard  (ISO)
O-methyleugenol  (EXP)
octamethylcyclotetrasiloxane  (ISO)
olaparib  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
PCB138  (ISO)
phenethyl isothiocyanate  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
promethazine  (EXP)
quercetin  (EXP,ISO)
resveratrol  (EXP,ISO)
riddelliine  (ISO)
rotenone  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
temozolomide  (ISO)
testosterone  (ISO)
thapsigargin  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
trovafloxacin  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
veliparib  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
brain development  (IEA,ISO)
cell population proliferation  (ISO)
cellular response to DNA damage stimulus  (ISO)
cellular response to ionizing radiation  (IEA,ISO)
cellular senescence  (IEA,ISO)
centrosome duplication  (IEA,ISO)
chordate embryonic development  (ISO)
chromosome organization  (ISO)
DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator  (IEA,ISO)
DNA recombination  (IDA)
double-strand break repair  (ISO)
double-strand break repair via homologous recombination  (IBA,IEA,ISO,ISS)
establishment of protein localization to telomere  (IEA,ISO)
female gonad development  (IEA,ISO)
hematopoietic stem cell proliferation  (IEA,ISO)
hemopoiesis  (ISO)
histone H3 acetylation  (IEA,ISO)
histone H4 acetylation  (IEA,ISO)
homologous chromosome orientation involved in meiotic metaphase I plate congression  (IMP)
inner cell mass cell proliferation  (IEA,ISO)
intrinsic apoptotic signaling pathway in response to DNA damage  (ISO)
intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator  (IEA,ISO)
male meiosis I  (IEA,ISO)
mammary gland development  (IMP)
mitotic recombination-dependent replication fork processing  (IEA,ISO)
multicellular organism growth  (IMP)
negative regulation of mammary gland epithelial cell proliferation  (IEA,ISO)
nucleotide-excision repair  (IEA,ISO)
obsolete cell aging  (ISO)
obsolete replication fork protection  (IEA,ISO)
oocyte maturation  (IEA,ISO)
positive regulation of DNA-templated transcription  (IEA,ISO)
positive regulation of mitotic cell cycle  (IEA,ISO)
regulation of cytokinesis  (IEA,ISO)
regulation of DNA-templated transcription  (IBA)
replication fork processing  (ISO)
response to estradiol  (IEP)
response to gamma radiation  (IEA,ISO)
response to nutrient  (IEP)
response to UV-C  (IEA,ISO)
response to X-ray  (IEA,ISO)
spermatogenesis  (IEA,IMP,ISO)
stem cell proliferation  (ISO)
telomere maintenance via recombination  (IEA,ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Mutations in Fanconi anemia genes and the risk of esophageal cancer. Akbari MR, etal., Hum Genet. 2011 May;129(5):573-82. doi: 10.1007/s00439-011-0951-7. Epub 2011 Jan 30.
2. Localization of human BRCA1 and BRCA2 in non-inherited colorectal carcinomas and matched normal mucosas. Bernard-Gallon DJ, etal., Anticancer Res. 2001 May-Jun;21(3B):2011-20.
3. High incidence of BRCA1-2 germline mutations, previous breast cancer and familial cancer history in Jewish patients with uterine serous papillary carcinoma. Biron-Shental T, etal., Eur J Surg Oncol. 2006 Dec;32(10):1097-100. Epub 2006 May 2.
4. Effect of BRCA1/2 mutations on long-term survival of patients with invasive ovarian cancer: the national Israeli study of ovarian cancer. Chetrit A, etal., J Clin Oncol. 2008 Jan 1;26(1):20-5.
5. Characterizing a rat Brca2 knockout model. Cotroneo MS, etal., Oncogene. 2006 Sep 11;.
6. Characterizing a rat Brca2 knockout model. Cotroneo MS, etal., Oncogene. 2007 Mar 8;26(11):1626-35. Epub 2006 Sep 11.
7. Common variants of DNA repair genes and malignant melanoma. Debniak T, etal., Eur J Cancer. 2008 Jan;44(1):110-4. Epub 2007 Nov 19.
8. BRCA2 is required for neurogenesis and suppression of medulloblastoma. Frappart PO, etal., EMBO J. 2007 Jun 6;26(11):2732-42. Epub 2007 May 3.
9. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
10. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
11. A common missense variant in BRCA2 predisposes to early onset breast cancer. Gorski B, etal., Breast Cancer Res. 2005;7(6):R1023-7. Epub 2005 Oct 24.
12. Expression of DNA double-strand break repair proteins ATM and BRCA1 predicts survival in colorectal cancer. Grabsch H, etal., Clin Cancer Res. 2006 Mar 1;12(5):1494-500. doi: 10.1158/1078-0432.CCR-05-2105.
13. Regulation of homologous recombination in eukaryotes. Heyer WD, etal., Annu Rev Genet. 2010;44:113-39. doi: 10.1146/annurev-genet-051710-150955.
14. Biallelic inactivation of BRCA2 in Fanconi anemia. Howlett NG, etal., Science 2002 Jul 26;297(5581):606-9. Epub 2002 Jun 13.
15. Gene Data File Integration of LocusLink data, October 12, 2001
16. p53- and Bax-mediated apoptosis in injured rat spinal cord. Kotipatruni RR, etal., Neurochem Res. 2011 Nov;36(11):2063-74. doi: 10.1007/s11064-011-0530-2. Epub 2011 Jul 7.
17. A somatic BRCA2 mutation in RER+ endometrial carcinomas that specifically deletes the amino-terminal transactivation domain. Koul A, etal., Genes Chromosomes Cancer. 1999 Mar;24(3):207-12.
18. Evaluation of the protective effect of Nigella sativa extract and its primary active component thymoquinone against DMBA-induced breast cancer in female rats. Linjawi SA, etal., Arch Med Sci. 2015 Mar 16;11(1):220-9. doi: 10.5114/aoms.2013.33329. Epub 2013 Feb 28.
19. Loss of five amino acids in BRCA2 is associated with ovarian cancer. Martinez SL, etal., J Med Genet. 2004 Feb;41(2):e18.
20. Characterization of the rat and mouse homologues of the BRCA2 breast cancer susceptibility gene. McAllister KA, etal., Cancer Res 1997 Aug 1;57(15):3121-5.
21. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
22. Prostate cancer in male BRCA1 and BRCA2 mutation carriers has a more aggressive phenotype. Mitra A, etal., Br J Cancer. 2008 Jan 8;.
23. Risk of cancer other than breast or ovarian in individuals with BRCA1 and BRCA2 mutations. Moran A, etal., Fam Cancer. 2012 Jun;11(2):235-42. doi: 10.1007/s10689-011-9506-2.
24. Hematopoietic dysfunction in a mouse model for Fanconi anemia group D1. Navarro S, etal., Mol Ther. 2006 Oct;14(4):525-35. Epub 2006 Jul 20.
25. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
26. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
27. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
28. Consortium analysis of 7 candidate SNPs for ovarian cancer. Ramus SJ, etal., Int J Cancer. 2008 Jul 15;123(2):380-8. doi: 10.1002/ijc.23448.
29. Biallelic BRCA2 mutations are associated with multiple malignancies in childhood including familial Wilms tumour. Reid S, etal., J Med Genet. 2005 Feb;42(2):147-51.
30. GOA pipeline RGD automated data pipeline
31. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
32. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
33. Comprehensive gene review and curation RGD comprehensive gene curation
34. Molecular characterization, homology modeling and docking studies of the R2787H missense variation in BRCA2 gene: Association with breast cancer. Riahi A, etal., J Theor Biol. 2016 Aug 21;403:188-196. doi: 10.1016/j.jtbi.2016.05.013. Epub 2016 May 19.
35. Breast cancer risk among male BRCA1 and BRCA2 mutation carriers. Tai YC, etal., J Natl Cancer Inst. 2007 Dec 5;99(23):1811-4. Epub 2007 Nov 27.
36. Phytoestrogen-rich diets modulate expression of Brca1 and Brca2 tumor suppressor genes in mammary glands of female Wistar rats. Vissac-Sabatier C, etal., Cancer Res 2003 Oct 15;63(20):6607-12.
37. Identification of the breast cancer susceptibility gene BRCA2. Wooster R, etal., Nature. 1995 Dec 21-28;378(6559):789-92.
38. Cloning of rat Brca2 and linkage mapping to chromosome 12. Yamada S, etal., Mamm Genome 1997;8(11):850-1.
39. BRCA2 function in DNA binding and recombination from a BRCA2-DSS1-ssDNA structure. Yang H, etal., Science 2002 Sep 13;297(5588):1837-48.
40. Genetic variants in fanconi anemia pathway genes BRCA2 and FANCA predict melanoma survival. Yin J, etal., J Invest Dermatol. 2015 Feb;135(2):542-50. doi: 10.1038/jid.2014.416. Epub 2014 Sep 22.
41. Enhanced induction of prostatic dysplasia and carcinoma in Noble rat model by combination of neonatal estrogen exposure and hormonal treatments at adulthood. Yuen MT, etal., Int J Oncol. 2005 Dec;27(6):1685-95.
42. Production of knockout rats using ENU mutagenesis and a yeast-based screening assay. Zan Y, etal., Nat Biotechnol 2003 Jun;21(6):645-51.
Additional References at PubMed
PMID:8589722   PMID:8738145   PMID:9126734   PMID:9126738   PMID:9171368   PMID:9171369   PMID:9398843   PMID:9560268   PMID:9619837   PMID:9660919   PMID:9699678   PMID:9774970  
PMID:9824164   PMID:11172592   PMID:11477095   PMID:12145750   PMID:12410562   PMID:14660434   PMID:14681210   PMID:15314155   PMID:15375219   PMID:15485900   PMID:15735671   PMID:15930293  
PMID:16845393   PMID:17286961   PMID:20729832   PMID:20890790   PMID:21076401   PMID:21276791   PMID:21601571   PMID:21719596   PMID:25282148  


Genomics

Comparative Map Data
Brca2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21259,492 - 103,789 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1259,819 - 100,567 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx12628,555 - 669,267 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0121,150,791 - 1,191,504 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01250,374 - 91,100 (+)NCBIRnor_WKY
Rnor_6.012503,660 - 544,754 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl12504,007 - 544,748 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.012490,733 - 535,090 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4124,282,952 - 4,323,693 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1124,282,951 - 4,323,693NCBI
Celera121,769,467 - 1,810,212 (+)NCBICelera
Cytogenetic Map12p12NCBI
BRCA2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381332,315,508 - 32,400,268 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1332,315,086 - 32,400,268 (+)EnsemblGRCh38hg38GRCh38
GRCh371332,889,645 - 32,974,405 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361331,787,617 - 31,871,809 (+)NCBINCBI36Build 36hg18NCBI36
Build 341331,787,616 - 31,871,805NCBI
Celera1313,956,447 - 14,040,613 (+)NCBICelera
Cytogenetic Map13q13.1NCBI
HuRef1313,701,252 - 13,785,592 (+)NCBIHuRef
CHM1_11332,857,164 - 32,941,322 (+)NCBICHM1_1
T2T-CHM13v2.01331,532,753 - 31,617,510 (+)NCBIT2T-CHM13v2.0
Brca2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395150,445,759 - 150,493,612 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5150,446,095 - 150,493,794 (+)EnsemblGRCm39 Ensembl
GRCm385150,522,297 - 150,570,147 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5150,522,630 - 150,570,329 (+)EnsemblGRCm38mm10GRCm38
MGSCv375151,325,198 - 151,372,324 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365150,791,554 - 150,838,126 (+)NCBIMGSCv36mm8
Celera5148,527,149 - 148,574,274 (+)NCBICelera
Cytogenetic Map5G3NCBI
cM Map589.52NCBI
Brca2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543113,449,543 - 13,527,432 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543113,449,287 - 13,526,878 (-)NCBIChiLan1.0ChiLan1.0
BRCA2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11332,009,039 - 32,092,463 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1332,010,066 - 32,091,332 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01313,574,422 - 13,658,967 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
BRCA2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1257,734,450 - 7,797,851 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl257,734,453 - 7,797,815 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha257,764,412 - 7,827,765 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0257,830,897 - 7,895,637 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl257,831,514 - 7,895,646 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1257,730,810 - 7,794,166 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0257,729,079 - 7,792,446 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0257,786,384 - 7,849,984 (-)NCBIUU_Cfam_GSD_1.0
Brca2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945168,936,254 - 169,007,337 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493647226,945,659 - 27,017,693 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BRCA2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl118,805,953 - 8,858,418 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1118,805,950 - 8,858,128 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
BRCA2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1311,070,086 - 11,155,257 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl311,071,682 - 11,155,213 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605733,194,816 - 33,282,150 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Brca2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247765,497,779 - 5,550,993 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247765,497,552 - 5,573,465 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Brca2
62 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:13
Count of miRNA genes:13
Interacting mature miRNAs:13
Transcripts:ENSRNOT00000001475
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300174Bw15Body weight QTL 152.93body mass (VT:0001259)body weight loss (CMO:0001399)1219318387Rat
2312418Kidm41Kidney mass QTL 413.70.0001kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)12119611090Rat
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12122591684Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123297788Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12129333307Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12134851688Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)12142110980Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)12142110980Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12142450532Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12144465750Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12144503507Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12144503507Rat

Markers in Region
D12Rat58  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21291,605 - 91,764 (+)MAPPERmRatBN7.2
Rnor_6.012535,793 - 535,951NCBIRnor6.0
Rnor_5.012522,811 - 522,969UniSTSRnor5.0
RGSC_v3.4124,291,748 - 4,291,907RGDRGSC3.4
RGSC_v3.4124,291,749 - 4,291,907UniSTSRGSC3.4
RGSC_v3.1124,291,748 - 4,291,907RGD
Celera121,801,251 - 1,801,409UniSTS
SHRSP x BN Map122.13RGD
SHRSP x BN Map122.13UniSTS
Cytogenetic Map12p12UniSTS


Related Rat Strains
The following Strains have been annotated to Brca2
SD


Genetic Models
This gene Brca2 is modified in the following models/strains

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 renal system reproductive system respiratory system appendage
High
Medium 12 4 14 4 14 2 27
Low 3 40 40 32 5 32 8 8 60 33 14 11 8
Below cutoff 3 5 5 5 3

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_031542 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598375 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598376 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089540 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089541 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089542 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089543 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089544 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005491644 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF322646 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH014113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH014114 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D89653 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000223 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U89653 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000001475   ⟹   ENSRNOP00000001475
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1259,819 - 100,567 (+)Ensembl
Rnor_6.0 Ensembl12504,007 - 544,748 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000103794   ⟹   ENSRNOP00000096899
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1259,819 - 100,567 (+)Ensembl
RefSeq Acc Id: NM_031542   ⟹   NP_113730
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21259,819 - 100,567 (+)NCBI
Rnor_6.012504,007 - 544,754 (+)NCBI
Rnor_5.012490,733 - 535,090 (+)NCBI
RGSC_v3.4124,282,952 - 4,323,693 (-)RGD
Celera121,769,467 - 1,810,212 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598372   ⟹   XP_017453861
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21259,492 - 100,575 (+)NCBI
Rnor_6.012503,660 - 544,754 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039089540   ⟹   XP_038945468
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21259,492 - 100,575 (+)NCBI
RefSeq Acc Id: XM_039089541   ⟹   XP_038945469
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21259,492 - 100,375 (+)NCBI
RefSeq Acc Id: XM_039089542   ⟹   XP_038945470
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21259,492 - 100,575 (+)NCBI
RefSeq Acc Id: XM_039089543   ⟹   XP_038945471
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21259,492 - 100,375 (+)NCBI
RefSeq Acc Id: XM_039089544   ⟹   XP_038945472
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21259,492 - 83,297 (+)NCBI
RefSeq Acc Id: XR_005491644
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21259,492 - 103,789 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_113730   ⟸   NM_031542
- UniProtKB: Q66MH4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017453861   ⟸   XM_017598372
- Peptide Label: isoform X2
- UniProtKB: Q66MH4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000001475   ⟸   ENSRNOT00000001475
RefSeq Acc Id: XP_038945468   ⟸   XM_039089540
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038945470   ⟸   XM_039089542
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038945469   ⟸   XM_039089541
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038945471   ⟸   XM_039089543
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038945472   ⟸   XM_039089544
- Peptide Label: isoform X6
RefSeq Acc Id: ENSRNOP00000096899   ⟸   ENSRNOT00000103794
Protein Domains
Tower

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2219 AgrOrtholog
BioCyc Gene G2FUF-20527 BioCyc
Ensembl Genes ENSRNOG00000001111 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000001475 ENTREZGENE
  ENSRNOP00000001475.4 UniProtKB/TrEMBL
  ENSRNOP00000096899.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000001475 ENTREZGENE
  ENSRNOT00000001475.8 UniProtKB/TrEMBL
  ENSRNOT00000103794.1 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.140 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro BRCA2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BRCA2_hlx UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BRCA2_hlx_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BRCA2_OB_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BRCA2_OB_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BRCA2_repeat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NA-bd_OB-fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tower_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:360254 UniProtKB/TrEMBL
NCBI Gene 360254 ENTREZGENE
PANTHER PTHR11289 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam BRCA-2_helical UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BRCA-2_OB1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BRCA-2_OB3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BRCA2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tower UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB BRCA2 RGD
PhenoGen Brca2 PhenoGen
PIRSF BRCA2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE BRCA2_REPEAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Tower UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50249 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF81872 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6B500_RAT UniProtKB/TrEMBL
  BRCA2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q66MH4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-01 Brca2  BRCA2, DNA repair associated  Brca2  breast cancer 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-11-25 Brca2  breast cancer 2  Brca2  breast cancer 2, early onset  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-01-14 Brca2  breast cancer 2, early onset  Brca2  breast cancer 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Brca2  breast cancer 2      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains contains three oligonucleotide-binding (OB) folds, a helix-turn-helix (HTH) motif and a BRCA2 domain 632363
gene_expression mRNA expression highest in testis, low in liver and lung, minimal in kidneys and brain 70324