Rad50 (RAD50 double strand break repair protein) - Rat Genome Database

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Gene: Rad50 (RAD50 double strand break repair protein) Rattus norvegicus
Analyze
Symbol: Rad50
Name: RAD50 double strand break repair protein
RGD ID: 621542
Description: Enables double-stranded DNA binding activity. Involved in several processes, including DNA damage response; negative regulation of viral entry into host cell; and response to human chorionic gonadotropin. Located in inclusion body; nuclear lumen; and perinuclear region of cytoplasm. Part of chromatin. Used to study liver cirrhosis and myocardial infarction. Human ortholog(s) of this gene implicated in transitional cell carcinoma. Orthologous to human RAD50 (RAD50 double strand break repair protein); PARTICIPATES IN ataxia telangiectasia-mutated (ATM) signaling pathway; homologous recombination pathway of double-strand break repair; non-homologous end joining pathway of double-strand break repair; INTERACTS WITH 1,3-dinitrobenzene; 2,3,7,8-tetrachlorodibenzodioxine; 4-hydroperoxycyclophosphamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: DNA repair protein RAD50; RAD50 homolog; RAD50 homolog (S. cerevisiae); RAD50 homolog, double strand break repair protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81038,310,147 - 38,362,100 (-)NCBIGRCr8
mRatBN7.21037,809,353 - 37,861,309 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1037,808,726 - 37,861,396 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1042,501,288 - 42,553,213 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01041,991,358 - 42,043,283 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01037,495,080 - 37,547,005 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01039,002,130 - 39,054,042 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1039,001,498 - 39,054,142 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01038,783,860 - 38,835,810 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41039,112,733 - 39,164,694 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11039,121,979 - 39,173,935 (-)NCBI
Celera1037,153,558 - 37,205,520 (-)NCBICelera
Cytogenetic Map10q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(S)-nicotine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
1-chloro-2,4-dinitrobenzene  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-methylcholine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroperoxycyclophosphamide  (EXP)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acrolein  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
amphibole asbestos  (ISO)
arecoline  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
Brevetoxin B  (ISO)
bromoacetate  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
calcium dichloride  (ISO)
camptothecin  (ISO)
carbamazepine  (ISO)
chloroprene  (EXP)
chlorpyrifos  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clorgyline  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cyclophosphamide  (EXP)
cyclosporin A  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
diclofenac  (ISO)
disodium selenite  (ISO)
erlotinib hydrochloride  (ISO)
fenofibrate  (EXP)
fenvalerate  (EXP)
ferric oxide  (ISO)
flavone  (ISO)
folic acid  (ISO)
FR900359  (ISO)
hydrogen peroxide  (ISO)
indole-3-methanol  (EXP)
isocyanates  (ISO)
ivermectin  (ISO)
kojic acid  (ISO)
L-ascorbic acid  (ISO)
lipopolysaccharide  (ISO)
lycopene  (ISO)
methimazole  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
Monobutylphthalate  (EXP)
monocrotaline  (ISO)
myristicin  (ISO)
N,N-dimethylformamide  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
nickel dichloride  (EXP)
nicotine  (ISO)
O-methyleugenol  (EXP)
oxybenzone  (ISO)
ozone  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenytoin  (ISO)
piperonyl butoxide  (EXP)
pirinixic acid  (ISO)
piroxicam  (ISO)
potassium chromate  (ISO)
Ptaquiloside  (ISO)
quercetin  (ISO)
resveratrol  (EXP,ISO)
retinyl acetate  (ISO)
rifampicin  (ISO)
rotenone  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
tamibarotene  (ISO)
testosterone enanthate  (ISO)
tetrachloroethene  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
trovafloxacin  (ISO)
usnic acid  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)
wortmannin  (ISO)
zinc pyrithione  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Estrus synchronization and ovarian hyper-stimulation treatments have negligible effects on cumulus oocyte complex gene expression whereas induction of ovulation causes major expression changes. Agca C, etal., Mol Reprod Dev. 2013 Feb;80(2):102-17. doi: 10.1002/mrd.22141.
2. Altered expression of DNA double-strand break detection and repair proteins in breast carcinomas. Angele S, etal., Histopathology. 2003 Oct;43(4):347-53.
3. ATM protein kinase: the linchpin of cellular defenses to stress. Bhatti S, etal., Cell Mol Life Sci. 2011 Sep;68(18):2977-3006. doi: 10.1007/s00018-011-0683-9. Epub 2011 May 2.
4. A Rad50-dependent pathway of DNA repair is deficient in Fanconi anemia fibroblasts. Donahue SL and Campbell C, Nucleic Acids Res 2004 Jun 15;32(10):3248-57. Print 2004.
5. Localisation of RAD50 and MRE11 in spermatocyte nuclei of mouse and rat. Eijpe M, etal., Chromosoma. 2000;109(1-2):123-32.
6. Meiotic cohesin REC8 marks the axial elements of rat synaptonemal complexes before cohesins SMC1beta and SMC3. Eijpe M, etal., J Cell Biol. 2003 Mar 3;160(5):657-70.
7. 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.
8. Paternal exposure to cyclophosphamide induces DNA damage and alters the expression of DNA repair genes in the rat preimplantation embryo. Harrouk W, etal., Mutat Res 2000 Nov 9;461(3):229-41.
9. Adenovirus type 5 early region 1B 55-kDa oncoprotein can promote cell transformation by a mechanism independent from blocking p53-activated transcription. Hartl B, etal., Oncogene. 2008 Jun 12;27(26):3673-84. Epub 2008 Jan 21.
10. RAD50 and NBS1 are breast cancer susceptibility genes associated with genomic instability. Heikkinen K, etal., Carcinogenesis. 2006 Aug;27(8):1593-9. Epub 2006 Feb 12.
11. Regulation of homologous recombination in eukaryotes. Heyer WD, etal., Annu Rev Genet. 2010;44:113-39. doi: 10.1146/annurev-genet-051710-150955.
12. Tightly-bound to DNA proteins in rat experimental hepatomas and normal liver cells. Labeikyte D, etal., Exp Oncol. 2011 Sep;33(3):121-5.
13. The MRE11-NBS1-RAD50 pathway is perturbed in SV40 large T antigen-immortalized AT-1, AT-2 and HL-1 cardiomyocytes. Lanson NA Jr, etal., Nucleic Acids Res 2000 Aug 1;28(15):2882-92.
14. Terminal differentiation of cardiac and skeletal myocytes induces permissivity to AAV transduction by relieving inhibition imposed by DNA damage response proteins. Lovric J, etal., Mol Ther. 2012 Nov;20(11):2087-97. doi: 10.1038/mt.2012.144. Epub 2012 Jul 31.
15. Antibody-array technique reveals overexpression of important DNA-repair proteins during cardiac ischemic preconditioning. Mathur P, etal., J Mol Cell Cardiol. 2005 Jan;38(1):99-102.
16. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
17. Microsatellite instability and mutation analysis of candidate genes in urothelial cell carcinomas of upper urinary tract. Mongiat-Artus P, etal., Oncogene. 2006 Mar 30;25(14):2113-8.
18. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
19. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
20. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
21. GOA pipeline RGD automated data pipeline
22. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
23. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
24. Overexpressed human RAD50 exhibits cell death in a p21(WAF1/CIP1)-dependent manner: its potential utility in local gene therapy of tumor. Shin BA, etal., Cell Growth Differ. 2001 May;12(5):243-54.
25. Hepatoprotective effects and mechanisms of dehydrocavidine in rats with carbon tetrachloride-induced hepatic fibrosis. Wang T, etal., J Ethnopharmacol. 2011 Oct 31;138(1):76-84. doi: 10.1016/j.jep.2011.08.039. Epub 2011 Aug 24.
26. DNA damage: a trigger of innate immunity but a requirement for adaptive immune homeostasis. Xu Y Nat Rev Immunol. 2006 Apr;6(4):261-70.
Additional References at PubMed
PMID:8756642   PMID:9590181   PMID:9705271   PMID:10888888   PMID:12152085   PMID:15607978   PMID:15790808   PMID:15916964   PMID:16374507   PMID:17500065   PMID:17694070   PMID:17982445  
PMID:19001091   PMID:19135898   PMID:19151086   PMID:19946888   PMID:24270157   PMID:28134932  


Genomics

Comparative Map Data
Rad50
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81038,310,147 - 38,362,100 (-)NCBIGRCr8
mRatBN7.21037,809,353 - 37,861,309 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1037,808,726 - 37,861,396 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1042,501,288 - 42,553,213 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01041,991,358 - 42,043,283 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01037,495,080 - 37,547,005 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01039,002,130 - 39,054,042 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1039,001,498 - 39,054,142 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01038,783,860 - 38,835,810 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41039,112,733 - 39,164,694 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11039,121,979 - 39,173,935 (-)NCBI
Celera1037,153,558 - 37,205,520 (-)NCBICelera
Cytogenetic Map10q22NCBI
RAD50
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385132,556,977 - 132,646,349 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5132,556,019 - 132,646,349 (+)EnsemblGRCh38hg38GRCh38
GRCh375131,892,669 - 131,982,041 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365131,920,529 - 132,007,498 (+)NCBINCBI36Build 36hg18NCBI36
Build 345131,920,528 - 132,007,492NCBI
Celera5128,022,732 - 128,110,444 (+)NCBICelera
Cytogenetic Map5q31.1NCBI
HuRef5127,084,875 - 127,172,627 (+)NCBIHuRef
CHM1_15131,325,888 - 131,413,608 (+)NCBICHM1_1
T2T-CHM13v2.05133,076,780 - 133,166,151 (+)NCBIT2T-CHM13v2.0
Rad50
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391153,540,346 - 53,598,146 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1153,540,346 - 53,598,146 (-)EnsemblGRCm39 Ensembl
GRCm381153,649,519 - 53,707,319 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1153,649,519 - 53,707,319 (-)EnsemblGRCm38mm10GRCm38
MGSCv371153,463,021 - 53,520,821 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361153,492,993 - 53,550,720 (-)NCBIMGSCv36mm8
Celera1158,229,063 - 58,286,859 (-)NCBICelera
Cytogenetic Map11B1.3NCBI
cM Map1131.98NCBI
Rad50
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554083,953,800 - 4,035,494 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554083,953,801 - 4,035,494 (+)NCBIChiLan1.0ChiLan1.0
RAD50
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24127,867,909 - 127,955,144 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15126,007,455 - 126,094,708 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05127,972,630 - 128,059,911 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15134,134,506 - 134,222,261 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5134,134,495 - 134,222,261 (+)Ensemblpanpan1.1panPan2
RAD50
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11120,836,863 - 20,928,930 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1120,836,879 - 20,928,819 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1119,500,587 - 19,730,384 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01121,484,565 - 21,714,833 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1121,622,834 - 21,714,817 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11120,203,382 - 20,433,320 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01120,051,430 - 20,280,918 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01120,693,292 - 20,923,363 (+)NCBIUU_Cfam_GSD_1.0
Rad50
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213115,536,406 - 115,761,319 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366472,543,599 - 2,637,846 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366472,546,100 - 2,637,524 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RAD50
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2134,700,817 - 134,939,189 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12134,844,460 - 134,939,188 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22140,313,725 - 140,407,469 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RAD50
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12335,375,206 - 35,458,801 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2335,375,305 - 35,458,622 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603442,481,288 - 42,568,716 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rad50
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473339,447,461 - 39,544,409 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473339,445,083 - 39,544,415 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rad50
128 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:188
Count of miRNA genes:148
Interacting mature miRNAs:159
Transcripts:ENSRNOT00000063772
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103539245763642539Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103129743976297439Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)103449055945579777Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102132980561345413Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103539226764155584Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102929950464155584Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)103756507982565079Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102652195761345413Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)103756507982565079Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)101960648364606483Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
1354614Hpcl1Hepatic cholesterol level QTL 13.3liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)103539226751793994Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101790711351786432Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103397392178973921Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)102887565052200160Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103122402675632053Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)101960648364606483Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat


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 3 26 32 18 19 18 1 1 72 24 41 11 1
Low 17 25 23 23 7 10 2 11 7
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000063772   ⟹   ENSRNOP00000062378
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1037,808,726 - 37,861,251 (-)Ensembl
Rnor_6.0 Ensembl1039,001,498 - 39,054,142 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106947   ⟹   ENSRNOP00000078113
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1037,808,726 - 37,861,396 (-)Ensembl
RefSeq Acc Id: NM_022246   ⟹   NP_071582
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81038,310,147 - 38,362,100 (-)NCBI
mRatBN7.21037,809,353 - 37,861,309 (-)NCBI
Rnor_6.01039,002,130 - 39,054,042 (-)NCBI
Rnor_5.01038,783,860 - 38,835,810 (-)NCBI
RGSC_v3.41039,112,733 - 39,164,694 (-)RGD
Celera1037,153,558 - 37,205,520 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_071582 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF91229 (Get FASTA)   NCBI Sequence Viewer  
  EDM04395 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000062378.1
  ENSRNOP00000078113.1
GenBank Protein Q9JIL8 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_071582   ⟸   NM_022246
- UniProtKB: Q9JIL8 (UniProtKB/Swiss-Prot),   G3V9X6 (UniProtKB/TrEMBL),   A6HEE0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000062378   ⟸   ENSRNOT00000063772
RefSeq Acc Id: ENSRNOP00000078113   ⟸   ENSRNOT00000106947
Protein Domains
Zinc-hook

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9JIL8-F1-model_v2 AlphaFold Q9JIL8 1-1312 view protein structure

Transcriptome

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

Promoters
RGD ID:13697182
Promoter ID:EPDNEW_R7706
Type:multiple initiation site
Name:Rad50_1
Description:RAD50 double strand break repair protein
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01039,054,149 - 39,054,209EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621542 AgrOrtholog
BioCyc Gene G2FUF-25134 BioCyc
Ensembl Genes ENSRNOG00000033065 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000063772.3 UniProtKB/TrEMBL
  ENSRNOT00000106947.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rad50/SbcC_AAA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rad50_eukaryotes UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Zn_hook_RAD50 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:64012 UniProtKB/Swiss-Prot
NCBI Gene 64012 ENTREZGENE
PANTHER DNA REPAIR PROTEIN RAD50 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RAD50 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam AAA_23 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rad50_zn_hook UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SbcC_Walker_B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rad50 PhenoGen
PROSITE ZN_HOOK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000033065 RatGTEx
Superfamily-SCOP Rad50 coiled-coil Zn hook UniProtKB/TrEMBL
  SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5Y858_RAT UniProtKB/TrEMBL
  A6HEE0 ENTREZGENE, UniProtKB/TrEMBL
  G3V9X6 ENTREZGENE, UniProtKB/TrEMBL
  Q9JIL8 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-03 Rad50  RAD50 double strand break repair protein  Rad50  RAD50 homolog, double strand break repair protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-17 Rad50  RAD50 homolog, double strand break repair protein  Rad50  RAD50 homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Rad50  RAD50 homolog (S. cerevisiae)      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Rad50  RAD50 homolog (S. cerevisiae)      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction forms a complex with MRE11 and NBS1 68816
gene_protein 160 kDa 68816