Hspa1b (heat shock protein family A (Hsp70) member 1B) - Rat Genome Database

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Gene: Hspa1b (heat shock protein family A (Hsp70) member 1B) Rattus norvegicus
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Symbol: Hspa1b
Name: heat shock protein family A (Hsp70) member 1B
RGD ID: 2840
Description: Exhibits NF-kappaB binding activity and protease binding activity. Involved in several processes, including negative regulation of cysteine-type endopeptidase activity involved in apoptotic process; negative regulation of vasoconstriction; and positive regulation of T cell mediated cytotoxicity. Localizes to several cellular components, including apical plasma membrane; basolateral plasma membrane; and membrane raft. Predicted to colocalize with COP9 signalosome. Human ortholog(s) of this gene implicated in several diseases, including brain ischemia; obesity; toxic shock syndrome; type 2 diabetes mellitus; and urinary tract infection. Orthologous to human HSPA1B (heat shock protein family A (Hsp70) member 1B); PARTICIPATES IN antigen processing and presentation pathway; endocytosis pathway; Endoplasmic Reticulum-associated degradation pathway; INTERACTS WITH (+)-alpha-tocopherol; (+)-schisandrin B; 1-naphthyl isothiocyanate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Heat shock 70 kDa protein 1; heat shock 70 kDa protein 1/2; Heat shock 70 kDa protein 1A; heat shock 70 kDa protein 1A/1B; heat shock 70 kDa protein 1B; Heat shock 70 kDa protein 2; heat shock 70kD protein 1A; heat shock 70kD protein 1B; heat shock protein 1B; Heat shock protein 70-1; heat shock protein family A member 1B; Hsp70-1; HSP70-1/HSP70-2; Hsp70-2; HSP70.1; HSP70.1/2; HSP70.1/HSP70.2; HSP70.2; HSP72; Hspa1; Hspa1a; Hspa2
RGD Orthologs
Human
Mouse
Dog
Squirrel
Green Monkey
Alliance Genes
More Info more info ...
Is Marker For: Strains:   SHR-Hspa1em1Mcwi  
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2203,855,104 - 3,859,148 (+)NCBI
Rnor_6.0 Ensembl202,699,712 - 2,701,815 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0204,877,638 - 4,880,112 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0207,029,038 - 7,033,025 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0204,802,576 - 4,804,849 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,955,274 - 3,957,748 (+)NCBIRGSC3.4rn4RGSC3.4
Celera204,167,705 - 4,171,749 (-)NCBICelera
RH 3.4 Map20 RGD
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-alpha-tocopherol  (EXP)
(+)-schisandrin B  (EXP)
(-)-epigallocatechin 3-gallate  (ISO)
(S)-amphetamine  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (ISO)
1H-pyrazole  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,5-hexanedione  (EXP)
2-hydroxyethyl methacrylate  (ISO)
2-methoxyethanol  (EXP)
2-methylcholine  (ISO)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (ISO)
3-phenylprop-2-enal  (ISO)
4-hydroxynon-2-enal  (ISO)
5-fluorouracil  (ISO)
acrolein  (ISO)
acrylamide  (ISO)
adefovir pivoxil  (ISO)
aflatoxin B1  (ISO)
alpha-pinene  (ISO)
AM-251  (ISO)
ammonium chloride  (EXP)
apigenin  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (EXP,ISO)
arsenous acid  (ISO)
atrazine  (ISO)
azetidinecarboxylic acid  (ISO)
benzene  (ISO)
benzene-1,2,4-triol  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-naphthoflavone  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
bromobenzene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
cannabidiol  (ISO)
captan  (ISO)
carbonyl cyanide p-trifluoromethoxyphenylhydrazone  (ISO)
carboplatin  (EXP)
carnosine  (EXP)
cefaloridine  (EXP)
celastrol  (ISO)
chloroacetaldehyde  (ISO)
chlorohydrocarbon  (EXP)
chloropicrin  (ISO)
chloroprene  (ISO)
chloroquine  (ISO)
cidofovir anhydrous  (ISO)
cisplatin  (EXP,ISO)
cobalt dichloride  (ISO)
cocaine  (EXP,ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) chloride  (ISO)
coumarin  (EXP)
crocidolite asbestos  (ISO)
cyclophosphamide  (EXP,ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dichloroacetic acid  (ISO)
diclofenac  (ISO)
dieldrin  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (EXP,ISO)
diquat  (ISO)
disulfiram  (ISO)
doxorubicin  (ISO)
elesclomol  (ISO)
ethanol  (ISO)
fluoranthene  (ISO)
folpet  (ISO)
formaldehyde  (ISO)
fructose  (EXP)
fulvestrant  (ISO)
furan  (EXP)
gedunin  (ISO)
genistein  (EXP)
gentamycin  (EXP)
glutathione  (EXP)
glyphosate  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
hydrogen chloride  (EXP)
hydrogen peroxide  (ISO)
hypochlorous acid  (ISO)
ifosfamide  (ISO)
lead diacetate  (ISO)
leflunomide  (ISO)
lithium atom  (EXP)
lithium hydride  (EXP)
LY294002  (ISO)
maneb  (ISO)
menadione  (ISO)
mercury atom  (ISO)
mercury dichloride  (EXP)
mercury(0)  (ISO)
methotrexate  (ISO)
methylisothiazolinone  (ISO)
methylmercury chloride  (EXP,ISO)
methylparaben  (ISO)
microcystin RR  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
motexafin gadolinium  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-methylformamide  (ISO)
N-nitrosodiethylamine  (ISO)
naphthalene  (ISO)
nickel dichloride  (ISO)
Niflumic acid  (ISO)
oleanolic acid  (ISO)
organoselenium compound  (ISO)
orphenadrine  (EXP)
ozone  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
perfluorooctanoic acid  (EXP,ISO)
phenobarbital  (EXP,ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
polaprezinc  (EXP)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
propanil  (ISO)
propiconazole  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
resorcinol  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
SB 203580  (ISO)
sertraline  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sirolimus  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium chloride  (ISO)
sodium dichromate  (ISO)
Sodium salicylate  (ISO)
Soman  (EXP)
succimer  (ISO)
sulfasalazine  (EXP)
sulforaphane  (ISO)
sulindac sulfide  (ISO)
tamoxifen  (ISO)
tanespimycin  (ISO)
teprenone  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
thimerosal  (ISO)
titanium dioxide  (EXP,ISO)
triazines  (ISO)
tributylstannane  (ISO)
trichostatin A  (ISO)
Triptolide  (EXP)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (EXP,ISO)
vanillin  (ISO)
vitamin E  (EXP)
zearalenone  (ISO)
zinc acetate  (ISO)
zinc atom  (ISO)
zinc dichloride  (ISO)
zinc sulfate  (EXP,ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
ATP metabolic process  (ISO)
binding of sperm to zona pellucida  (ISO)
cellular heat acclimation  (ISO)
cellular response to heat  (ISO)
cellular response to unfolded protein  (IBA,ISO)
chaperone cofactor-dependent protein refolding  (IBA)
chaperone-mediated protein complex assembly  (ISO)
defense response  (IDA)
lysosomal transport  (ISS)
mRNA catabolic process  (ISO,ISS)
negative regulation of apoptotic process  (IDA,ISO)
negative regulation of cell death  (ISO)
negative regulation of cell growth  (ISO,ISS)
negative regulation of cell population proliferation  (ISO,ISS)
negative regulation of cysteine-type endopeptidase activity involved in apoptotic process  (IDA,ISO)
negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway  (ISO)
negative regulation of extrinsic apoptotic signaling pathway in absence of ligand  (ISO)
negative regulation of inclusion body assembly  (ISO)
negative regulation of mitochondrial outer membrane permeabilization involved in apoptotic signaling pathway  (ISO)
negative regulation of myeloid cell apoptotic process  (IDA)
negative regulation of protein ubiquitination  (ISO)
negative regulation of transcription from RNA polymerase II promoter in response to stress  (ISO,ISS)
negative regulation of transforming growth factor beta receptor signaling pathway  (ISO)
negative regulation of vasoconstriction  (IMP)
positive regulation of endoribonuclease activity  (ISO)
positive regulation of erythrocyte differentiation  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of interleukin-8 production  (ISO)
positive regulation of microtubule nucleation  (ISO,ISS)
positive regulation of NF-kappaB transcription factor activity  (ISO)
positive regulation of nucleotide-binding oligomerization domain containing 2 signaling pathway  (ISO)
positive regulation of proteasomal ubiquitin-dependent protein catabolic process  (IBA,ISO)
positive regulation of RNA splicing  (ISO)
positive regulation of T cell mediated cytotoxicity  (IDA)
positive regulation of tumor necrosis factor-mediated signaling pathway  (ISO)
protein folding  (ISO)
protein refolding  (IBA,ISO,ISS)
protein stabilization  (ISO)
regulation of cell death  (ISO)
regulation of mitotic spindle assembly  (IBA,ISO,ISS)
regulation of protein ubiquitination  (ISO)
response to heat  (ISO)
response to unfolded protein  (IMP,ISO,ISS)
vesicle-mediated transport  (IBA)

Cellular Component

References

References - curated
1. Akcetin Z, etal., Urol Int. 2000;65(1):32-9.
2. Akcetin Z, etal., Urol Res. 1999 Oct;27(5):306-11.
3. Arieli Y, etal., Brain Res 2003 Feb 7;962(1-2):15-20.
4. Buraczynska M, etal., Clin Sci (Lond). 2009 Jan;116(1):81-6. doi: 10.1042/CS20070411.
5. Chen HW, etal., Shock. 2005 Sep;24(3):232-8.
6. Chien CY, etal., Audiol Neurootol. 2012;17(6):381-5. doi: 10.1159/000341815. Epub 2012 Aug 22.
7. Chouchane L, etal., Int J Obes Relat Metab Disord. 2001 Apr;25(4):462-6.
8. Clarimon J, etal., J Geriatr Psychiatry Neurol. 2003 Sep;16(3):146-50.
9. Csont T, etal., Biochem Biophys Res Commun 2002 Feb 8;290(5):1535-8.
10. Cvoro A, etal., Mol Cell Biochem. 2004 Oct;265(1-2):27-35.
11. Dressel R, etal., J Immunol 2000 Mar 1;164(5):2362-71.
12. Fekete A, etal., Am J Physiol Renal Physiol. 2006 Oct;291(4):F806-11. Epub 2006 Apr 11.
13. Garg M, etal., Eur J Cancer. 2010 Jan;46(1):207-15. doi: 10.1016/j.ejca.2009.10.020. Epub .
14. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
15. Giacconi R, etal., Mech Ageing Dev. 2005 Aug;126(8):866-73. Epub 2005 Apr 18.
16. GOA data from the GO Consortium
17. Kim JJ, etal., Eur Arch Psychiatry Clin Neurosci. 2008 Jun;258(4):239-44.
18. Konings A, etal., Eur J Hum Genet. 2009 Mar;17(3):329-35. doi: 10.1038/ejhg.2008.172. Epub 2008 Sep 24.
19. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
20. Ledesma MD, etal., Brain Res. 2003 Oct 10;987(1):107-16.
21. Lee KJ, etal., Cell Stress Chaperones. 2004 Mar;9(1):58-68.
22. Lisowska K, etal., Acta Biochim Pol 1996;43(2):313-7.
23. Lisowska K, etal., Biochim Biophys Acta 1994 Sep 13;1219(1):64-72.
24. Longo FM, etal., J Neurosci Res 1993 Oct 15;36(3):325-35.
25. Maheswaran S, etal., Genes Dev. 1998 Apr 15;12(8):1108-20.
26. Matsumori Y, etal., Stroke. 2006 Feb;37(2):507-12. Epub 2006 Jan 5.
27. Mestril R, etal., Biochem J 1994 Mar 15;298 Pt 3:561-9.
28. MGD data from the GO Consortium
29. Mir KA, etal., Br J Surg. 2009 Oct;96(10):1205-9. doi: 10.1002/bjs.6689.
30. NCBI rat LocusLink and RefSeq merged data July 26, 2002
31. Nikaido H, etal., Circulation. 2004 Sep 28;110(13):1839-46. Epub 2004 Sep 20.
32. Novota P, etal., Transplantation. 2008 Jun 27;85(12):1809-16. doi: 10.1097/TP.0b013e31817753f7.
33. Pipeline to import KEGG annotations from KEGG into RGD
34. RGD automated data pipeline
35. RGD automated import pipeline for gene-chemical interactions
36. Rusai K, etal., Transplant Proc. 2010 Jul-Aug;42(6):2309-11. doi: 10.1016/j.transproceed.2010.05.010.
37. Walter L, etal., Immunogenetics 1994;40(5):325-30.
38. Waterer GW, etal., Crit Care Med. 2003 May;31(5):1367-72.
39. Zaffanello M, etal., J Biomed Biotechnol. 2010;2010:321082. doi: 10.1155/2010/321082. Epub 2010 Mar 30.
40. Zhang Y, etal., Cell Stress Chaperones. 2013 Nov;18(6):703-9. doi: 10.1007/s12192-013-0420-4. Epub 2013 May 11.
41. Zouari Bouassida K, etal., Diabetes Metab. 2004 Apr;30(2):175-80.
Additional References at PubMed
PMID:9122205   PMID:9499401   PMID:10205060   PMID:10811660   PMID:10859165   PMID:11785981   PMID:11879190   PMID:12070193   PMID:12150907   PMID:12399251   PMID:12654467   PMID:12791594  
PMID:12842450   PMID:14697321   PMID:15060004   PMID:15528251   PMID:15603737   PMID:15632090   PMID:15809055   PMID:15885686   PMID:15919508   PMID:16081876   PMID:16207717   PMID:16252069  
PMID:16679378   PMID:16690792   PMID:16809764   PMID:16945336   PMID:17069463   PMID:17167422   PMID:17182002   PMID:17240064   PMID:17289661   PMID:17376863   PMID:17569768   PMID:18242848  
PMID:18755693   PMID:18850735   PMID:18931043   PMID:19103603   PMID:19190083   PMID:19199708   PMID:19546256   PMID:19945465   PMID:20235222   PMID:20458337   PMID:20625543   PMID:20809232  
PMID:20817947   PMID:20853596   PMID:21231916   PMID:21311744   PMID:21423176   PMID:21789629   PMID:21880732   PMID:21909508   PMID:22319056   PMID:22516433   PMID:22658674   PMID:22681889  
PMID:22763123   PMID:23180211   PMID:23206709   PMID:23303413   PMID:23349634   PMID:23372380   PMID:23533145   PMID:23816752   PMID:23851625   PMID:23902977   PMID:23904609   PMID:23921388  
PMID:24061851   PMID:24186360   PMID:24325467   PMID:24442868   PMID:24613385   PMID:24790089   PMID:25096025   PMID:25259839   PMID:25281747   PMID:25334068   PMID:25394481   PMID:25468996  
PMID:25863030   PMID:26073348   PMID:26279425   PMID:26488549   PMID:26851345   PMID:27137183   PMID:27279016   PMID:27288968   PMID:27435079   PMID:27496612   PMID:27708256   PMID:28205128  
PMID:28393561   PMID:28637952   PMID:28738356   PMID:28755400   PMID:30343606   PMID:30596969   PMID:31233366   PMID:31904090  


Genomics

Comparative Map Data
Hspa1b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2203,855,104 - 3,859,148 (+)NCBI
Rnor_6.0 Ensembl202,699,712 - 2,701,815 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0204,877,638 - 4,880,112 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0207,029,038 - 7,033,025 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0204,802,576 - 4,804,849 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,955,274 - 3,957,748 (+)NCBIRGSC3.4rn4RGSC3.4
Celera204,167,705 - 4,171,749 (-)NCBICelera
RH 3.4 Map20 RGD
Cytogenetic Map20p12NCBI
HSPA1B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl631,827,738 - 31,830,254 (+)EnsemblGRCh38hg38GRCh38
GRCh38631,827,738 - 31,830,254 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37631,795,515 - 31,798,031 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36631,903,503 - 31,906,010 (+)NCBINCBI36hg18NCBI36
Build 34631,903,502 - 31,906,010NCBI
Celera633,393,763 - 33,396,281 (+)NCBI
Cytogenetic Map6p21.33NCBI
HuRef631,582,004 - 31,584,555 (+)NCBIHuRef
CHM1_1631,797,655 - 31,800,174 (+)NCBICHM1_1
Hspa1b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391735,175,405 - 35,178,214 (-)NCBIGRCm39mm39
GRCm39 Ensembl1735,175,412 - 35,178,214 (-)Ensembl
GRCm381734,956,429 - 34,959,238 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1734,956,436 - 34,959,238 (-)EnsemblGRCm38mm10GRCm38
MGSCv371735,093,374 - 35,096,183 (-)NCBIGRCm37mm9NCBIm37
MGSCv361734,564,485 - 34,567,642 (-)NCBImm8
Celera1738,052,658 - 38,055,467 (-)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.5NCBI
HSP70
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1121,285,282 - 1,287,670 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha121,420,953 - 1,423,341 (+)NCBI
ROS_Cfam_1.0121,428,137 - 1,430,527 (+)NCBI
UMICH_Zoey_3.1121,287,147 - 1,289,536 (+)NCBI
UNSW_CanFamBas_1.0121,354,295 - 1,356,685 (+)NCBI
UU_Cfam_GSD_1.0121,418,720 - 1,421,109 (+)NCBI
LOC101955831
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494635,839,910 - 35,842,392 (+)NCBI
SpeTri2.0NW_0049367271,718,952 - 1,721,691 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC103221743
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11740,191,695 - 40,194,459 (-)NCBI
ChlSab1.1 Ensembl1740,203,936 - 40,205,858 (-)Ensembl

Position Markers
D20Wox12  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,868,847 - 3,869,052 (-)MAPPER
Rnor_6.0204,881,491 - 4,881,693NCBIRnor6.0
Rnor_5.0206,961,891 - 6,962,093UniSTSRnor5.0
Cytogenetic Map20p12UniSTS
PMC117401P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map20p12UniSTS
RH128946  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,872,885 - 3,873,070 (-)MAPPER
Rnor_6.0204,877,475 - 4,877,659NCBIRnor6.0
Rnor_5.0206,957,875 - 6,958,059UniSTSRnor5.0
RGSC_v3.4203,957,727 - 3,957,911UniSTSRGSC3.4
Celera204,154,211 - 4,154,395UniSTS
RH 3.4 Map2051.62UniSTS
Cytogenetic Map20p12UniSTS
RH131596  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,858,636 - 3,858,854 (-)MAPPER
Rnor_6.0204,955,962 - 4,956,179NCBIRnor6.0
Rnor_5.0207,029,332 - 7,029,549UniSTSRnor5.0
Celera204,167,999 - 4,168,216UniSTS
RH 3.4 Map2052.42UniSTS
Cytogenetic Map20p12UniSTS
RH94530  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,872,918 - 3,873,105 (-)MAPPER
Rnor_6.0204,877,440 - 4,877,626NCBIRnor6.0
Rnor_5.0206,957,840 - 6,958,026UniSTSRnor5.0
RGSC_v3.4203,957,760 - 3,957,946UniSTSRGSC3.4
Celera204,154,176 - 4,154,362UniSTS
RH 3.4 Map2052.22UniSTS
Cytogenetic Map20p12UniSTS
PMC314357P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,871,310 - 3,871,800 (-)MAPPER
mRatBN7.2203,856,718 - 3,857,207 (-)MAPPER
Rnor_6.0204,878,745 - 4,879,233NCBIRnor6.0
Rnor_6.0202,700,781 - 2,701,269NCBIRnor6.0
Rnor_5.0204,803,650 - 4,804,138UniSTSRnor5.0
Rnor_5.0206,959,145 - 6,959,633UniSTSRnor5.0
RGSC_v3.4203,956,153 - 3,956,641UniSTSRGSC3.4
Celera204,155,481 - 4,155,969UniSTS
Celera204,169,646 - 4,170,134UniSTS
Cytogenetic Map20p12UniSTS
D20Wox12  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,868,846 - 3,869,052 (-)MAPPER
Rnor_6.0204,881,491 - 4,881,694NCBIRnor6.0
Rnor_5.0206,961,891 - 6,962,094UniSTSRnor5.0
Cytogenetic Map20p12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724519Bp144Blood pressure QTL 1440.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2015192000Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124652101Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125653396Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20127357423Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20128375393Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20128375393Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20128375393Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20128375393Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20128375393Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20133300419Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20137550487Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20137550487Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20201865447018654Rat
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2020187706567419Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20299970747999707Rat
61472Aia1Adjuvant induced arthritis QTL 1180.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2031518156896013Rat
61448Ciaa1CIA Autoantibody QTL 1300.001blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)2031518156896013Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20340211127968216Rat
7175096Tcs1T cell selection QTL 1T cell selectionexpression2039105555533640Rat
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2040391135875448Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20403911318872273Rat
4889857Pur27Proteinuria QTL 2712.20.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20403911318872273Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)20410895649108956Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2048554689899946Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RChigh CD8 T cell count to CD45RClow CD8 T cell count ratio (CMO:0001990)20485546810800530Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20485547515050565Rat


Related Rat Strains
The following Strains have been annotated to Hspa1b

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:24
Count of miRNA genes:24
Interacting mature miRNAs:24
Transcripts:ENSRNOT00000061950
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.


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 1 3
Low 3 10 12 1 9 1 7 9 29 31 24 8 7
Below cutoff 33 42 37 10 37 1 2 43 4 16 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000049667   ⟹   ENSRNOP00000050605
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl202,699,712 - 2,701,637 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000061950   ⟹   ENSRNOP00000067749
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl202,699,715 - 2,701,815 (-)Ensembl
RefSeq Acc Id: NM_031971   ⟹   NP_114177
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,855,104 - 3,859,148 (+)NCBI
Rnor_6.0204,877,638 - 4,880,112 (-)NCBI
Rnor_5.0204,802,576 - 4,804,849 (-)NCBI
Rnor_5.0207,029,038 - 7,033,025 (-)NCBI
RGSC_v3.4203,955,274 - 3,957,748 (+)RGD
Celera204,167,705 - 4,171,749 (-)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_114177   ⟸   NM_031971
- UniProtKB: P0DMW1 (UniProtKB/Swiss-Prot),   P0DMW0 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067749   ⟸   ENSRNOT00000061950
RefSeq Acc Id: ENSRNOP00000050605   ⟸   ENSRNOT00000049667

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 4877767 4877768 T C snv WN/N (MCW), ACI/N (MCW)
20 4877851 4877852 T C snv WKY/N (MCW), WN/N (MCW)
20 4877944 4877945 C T snv ACI/N (MCW)
20 4878040 4878041 G A snv ACI/N (MCW)
20 4878127 4878128 T G snv BN/SsN (MCW), Buf/N (MCW), WKY/N (MCW), M520/N (MCW), WN/N (MCW)
20 4878133 4878134 G A snv BN/SsN (MCW)
20 4878145 4878146 C T snv BN/SsN (MCW)
20 4878235 4878236 G C snv F344/NRrrc (MCW)
20 4878320 4878321 C T snv F344/NRrrc (MCW), Buf/N (MCW), BN/SsN (MCW), ACI/N (MCW), WN/N (MCW), WKY/N (MCW), MR/N (MCW), M520/N (MCW)
20 4878406 4878407 G T snv ACI/N (MCW), M520/N (MCW)
20 4878508 4878509 T C snv M520/N (MCW), WN/N (MCW), ACI/N (MCW), MR/N (MCW)
20 4878955 4878956 C T snv WN/N (MCW)
20 4878976 4878977 C T snv F344/NRrrc (MCW)
20 4879051 4879052 C T snv WN/N (MCW)
20 4879174 4879175 G C snv ACI/N (MCW), MR/N (MCW)
20 4879483 4879484 C A snv MR/N (MCW), F344/NRrrc (MCW), WKY/N (MCW), WN/N (MCW), M520/N (MCW), BN/SsN (MCW)
20 4879579 4879580 C A snv Buf/N (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 3956197 3956198 C G snv HCR/1Mco (UMich), HCR/2Mco (UMich), LCR/1Mco (UMich), LCR/2Mco (UMich)
20 3956715 3956716 C A snv LCR/2Mco (UMich), HCR/1Mco (UMich), FHL/EurMcwi (MCW), FHH/EurMcwi (MCW), LCR/1Mco (UMich)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2840 AgrOrtholog
Ensembl Genes ENSRNOG00000045654 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00000050647 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000050605 UniProtKB/Swiss-Prot
  ENSRNOP00000067749 UniProtKB/Swiss-Prot
  ENSRNOP00000075599 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000049667 UniProtKB/Swiss-Prot
  ENSRNOT00000061950 UniProtKB/Swiss-Prot
  ENSRNOT00000081924 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.1270.10 UniProtKB/Swiss-Prot
  2.60.34.10 UniProtKB/Swiss-Prot
InterPro ATPase_NBD UniProtKB/Swiss-Prot
  Heat_shock_70_CS UniProtKB/Swiss-Prot
  HSP70_C_sf UniProtKB/Swiss-Prot
  HSP70_peptide-bd_sf UniProtKB/Swiss-Prot
  Hsp_70_fam UniProtKB/Swiss-Prot
KEGG Report rno:108348108 UniProtKB/Swiss-Prot
  rno:24472 UniProtKB/Swiss-Prot
  rno:294254 UniProtKB/Swiss-Prot
NCBI Gene 24472 ENTREZGENE
PANTHER PTHR19375 UniProtKB/Swiss-Prot
Pfam HSP70 UniProtKB/Swiss-Prot
PhenoGen Hspa1b PhenoGen
PROSITE HSP70_1 UniProtKB/Swiss-Prot
  HSP70_2 UniProtKB/Swiss-Prot
  HSP70_3 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF100920 UniProtKB/Swiss-Prot
  SSF100934 UniProtKB/Swiss-Prot
  SSF53067 UniProtKB/Swiss-Prot
UniProt HS71A_RAT UniProtKB/Swiss-Prot
  HS71B_RAT UniProtKB/Swiss-Prot
  P0DMW0 ENTREZGENE
  P0DMW1 ENTREZGENE
UniProt Secondary P42853 UniProtKB/Swiss-Prot
  Q07439 UniProtKB/Swiss-Prot
  Q63256 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-10-12 Hspa1b  heat shock protein family A (Hsp70) member 1B  Hspa1b  heat shock protein family A member 1B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-09-09 Hspa1b  heat shock protein family A member 1B  Hspa1b  heat shock protein 1B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-12 Hspa1b  heat shock 70kD protein 1B  Hspa1a  heat shock 70kD protein 1A  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2008-03-12 Hspa1b  heat shock protein 1B  Hspa1b  heat shock 70kD protein 1B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-11-06 Hspa1a  heat shock 70kD protein 1A    Heat shock protein 70-1  Name updated 625702 APPROVED
2002-06-10 Hspa1a  Heat shock protein 70-1      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_regulation induced by heat 1298960
gene_regulation induced in rat brain 8 hours following global ischemia and kainic acid-induced seizures 1298961