Hspa1a (heat shock protein family A (Hsp70) member 1A) - Rat Genome Database

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Gene: Hspa1a (heat shock protein family A (Hsp70) member 1A) Rattus norvegicus
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Symbol: Hspa1a
Name: heat shock protein family A (Hsp70) member 1A
RGD ID: 1593284
Description: Predicted to enable several functions, including ATP binding activity; enzyme binding activity; and protein domain specific binding activity. Involved in several processes, including response to ethanol; response to ischemia; and response to unfolded protein. Located in membrane raft. Human ortholog(s) of this gene implicated in several diseases, including Kawasaki disease; autoimmune disease of musculoskeletal system (multiple); cystic fibrosis; schizophrenia (multiple); and toxic shock syndrome. Orthologous to several human genes including 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 (R)-lipoic acid; 1,3,5-trinitro-1,3,5-triazinane; 1-naphthyl isothiocyanate.
Type: protein-coding
Also known as: heat shock 70 kDa protein 1A; Heat shock 70 kDa protein 2; heat shock 70kD protein 1A; heat shock 70kD protein 1B; heat shock 70kD protein 1B (mapped); heat shock protein 1A; Heat shock protein 70-2; heat shock protein family A member 1A; Hsp70-1; Hsp70-2; HSP70.2; Hsp72; Hspa1; Hspa1b; Hspa2
RGD Orthologs
Human
Mouse
Bonobo
Squirrel
Green Monkey
Alliance Genes
More Info more info ...
Is Marker For: Strains:   SHR-Hspa1em1Mcwi  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0204,875,834 - 4,881,751 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl204,877,324 - 4,879,779 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0206,956,234 - 6,962,151 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,945,716 - 3,959,552 (+)NCBIRGSC3.4rn4RGSC3.4
Celera204,152,570 - 4,158,467 (-)NCBICelera
Cytogenetic Map20p12NCBI


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(R)-lipoic acid  (EXP)
(S)-amphetamine  (ISO)
1,3,5-trinitro-1,3,5-triazinane  (EXP)
1-chloro-2,4-dinitrobenzene  (ISO)
1-fluoro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
1H-pyrazole  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dichloroindophenol  (ISO)
2-amino-14,16-dimethyloctadecan-3-ol  (ISO)
2-hydroxyethyl methacrylate  (ISO)
2-hydroxypropanoic acid  (ISO)
2-methylcholine  (ISO)
3,4-dihydrocoumarin  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
4-phenylbutyric acid  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
7,12-dimethyltetraphene  (ISO)
8-Br-cAMP  (ISO)
acetylsalicylic acid  (ISO)
acrylamide  (EXP,ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
aminoglutethimide  (ISO)
ammonia  (ISO)
ammonium chloride  (EXP)
amphibole asbestos  (ISO)
aniline  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (EXP)
antimonite  (ISO)
antimycin A  (ISO)
antirheumatic drug  (ISO)
apigenin  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
Aurin  (ISO)
azadiradione  (ISO)
azetidinecarboxylic acid  (ISO)
benzene  (ISO)
benzene-1,2,4-triol  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
Benzo[k]fluoranthene  (ISO)
beta-naphthoflavone  (EXP)
bifenthrin  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
bromobenzene  (ISO)
C60 fullerene  (EXP)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
cadmium sulfate  (ISO)
cannabidiol  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
carbonyl cyanide p-trifluoromethoxyphenylhydrazone  (ISO)
carbonyl sulfide  (EXP)
carboplatin  (EXP)
carrageenan  (EXP)
cefaloridine  (EXP)
celastrol  (EXP,ISO)
cerium trichloride  (ISO)
chelerythrine  (EXP)
chloroform  (EXP)
chlorohydrocarbon  (EXP)
chloromethylisothiazolinone  (ISO)
chloropicrin  (ISO)
chloroprene  (ISO)
chrysene  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (EXP,ISO)
clofibrate  (EXP,ISO)
cobalt atom  (EXP,ISO)
cobalt dichloride  (EXP,ISO)
cocaine  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
crotonaldehyde  (ISO)
CU-O LINKAGE  (ISO)
curcumin  (EXP,ISO)
cyclophosphamide  (EXP,ISO)
cyclosporin A  (ISO)
cyfluthrin  (ISO)
D-penicillamine  (ISO)
decabromodiphenyl ether  (EXP)
desferrioxamine B  (ISO)
dexamethasone  (EXP,ISO)
dextran sulfate  (ISO)
diallyl disulfide  (EXP)
diarsenic trioxide  (ISO)
diazinon  (EXP)
dibenz[a,h]anthracene  (ISO)
dibenzo[a,l]pyrene  (ISO)
dichloroacetic acid  (ISO)
diclofenac  (EXP,ISO)
dicrotophos  (ISO)
dieldrin  (EXP)
diethylstilbestrol  (ISO)
dihydroxyacetone  (ISO)
Dimethyl adipate  (EXP)
dimethyl sulfoxide  (EXP)
dioxygen  (EXP,ISO)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (ISO)
diquat  (ISO)
disulfiram  (ISO)
diuron  (EXP)
dizocilpine maleate  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
edaravone  (EXP)
elemental selenium  (ISO)
elesclomol  (ISO)
endosulfan  (EXP)
enzyme inhibitor  (ISO)
ethanol  (ISO)
famotidine  (EXP)
fenbuconazole  (ISO)
ferric ammonium citrate  (ISO)
ferric oxide  (ISO)
flavone  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
formetanate  (ISO)
gadolinium trichloride  (EXP)
gamma-hexachlorocyclohexane  (ISO)
gedunin  (ISO)
gefitinib  (ISO)
geldanamycin  (EXP,ISO)
genistein  (EXP,ISO)
gentamycin  (EXP,ISO)
glyphosate  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
GYKI 52466  (ISO)
hydrogen chloride  (EXP)
hydrogen peroxide  (ISO)
hypochlorous acid  (ISO)
ibuprofen  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
indometacin  (ISO)
iron atom  (EXP)
iron(0)  (EXP)
ivermectin  (EXP)
kainic acid  (ISO)
kojic acid  (EXP)
L-ascorbic acid  (ISO)
lead diacetate  (ISO)
leflunomide  (ISO)
Licochalcone B  (ISO)
lipoic acid  (EXP)
lipopolysaccharide  (EXP,ISO)
lithium chloride  (ISO)
LY294002  (ISO)
melatonin  (ISO)
menadione  (ISO)
mercury atom  (ISO)
mercury dichloride  (EXP,ISO)
mercury(0)  (ISO)
methamphetamine  (EXP)
methomyl  (ISO)
methoxychlor  (ISO)
methyl methanesulfonate  (ISO)
methylisothiazolinone  (ISO)
methylmercury chloride  (ISO)
morphine  (EXP)
motexafin gadolinium  (ISO)
N-acetyl-L-cysteine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (EXP,ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (EXP)
N-nitrosodiethylamine  (EXP,ISO)
N1'-[2-[[5-[(dimethylamino)methyl]-2-furanyl]methylthio]ethyl]-N1-methyl-2-nitroethene-1,1-diamine  (EXP)
naloxone  (EXP)
naphthalene  (ISO)
nickel atom  (EXP)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
nitrobenzenes  (EXP)
Nonylphenol  (EXP)
ochratoxin A  (EXP,ISO)
omeprazole  (EXP)
organoselenium compound  (ISO)
orphenadrine  (EXP)
oxaliplatin  (EXP)
ozone  (EXP)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
perfluorooctanoic acid  (EXP)
phenobarbital  (EXP,ISO)
PhIP  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
phosgene  (ISO)
pirimicarb  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
polaprezinc  (EXP)
poly(I:C)  (EXP)
potassium dichromate  (ISO)
progesterone  (EXP,ISO)
propiconazole  (ISO)
Protolichesterinic acid  (ISO)
pyrene  (ISO)
quartz  (ISO)
quercetin  (ISO)
quinolin-8-ol  (ISO)
rac-lactic acid  (ISO)
radicicol  (ISO)
raloxifene  (EXP,ISO)
ranitidine  (EXP)
reactive oxygen species  (ISO)
resorcinol  (ISO)
resveratrol  (EXP,ISO)
rotenone  (EXP)
SB 431542  (ISO)
SCH772984  (EXP)
selenium atom  (ISO)
selenomethionine  (ISO)
sertraline  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
silver(1+) nitrate  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP,ISO)
sodium dichromate  (ISO)
styrene  (ISO)
sulfasalazine  (ISO)
tamoxifen  (ISO)
tanespimycin  (ISO)
temozolomide  (ISO)
teprenone  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP,ISO)
tetracycline  (EXP)
tetraphene  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
thiostrepton  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
triazines  (ISO)
tributylstannane  (EXP)
Tributyltin oxide  (EXP,ISO)
Triptolide  (ISO)
troglitazone  (ISO)
tungsten  (EXP)
Tungsten carbide  (ISO)
urethane  (ISO)
usnic acid  (ISO)
valproic acid  (ISO)
vanadium atom  (EXP)
vanadium(0)  (EXP)
vemurafenib  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
wortmannin  (ISO)
zearalenone  (ISO)
zinc acetate  (ISO)
zinc atom  (EXP,ISO)
zinc dichloride  (ISO)
zinc molecular entity  (EXP,ISO)
zinc oxide  (ISO)
zinc pyrithione  (ISO)
zinc sulfate  (EXP,ISO)
zinc(0)  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
ATP metabolic process  (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)
DNA repair  (ISO)
lysosomal transport  (ISO,ISS)
mRNA catabolic process  (ISO,ISS)
negative regulation of apoptotic process  (ISO)
negative regulation of cell death  (IDA,ISO)
negative regulation of cell growth  (ISO,ISS)
negative regulation of cell population proliferation  (ISO,ISS)
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 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)
neuron differentiation  (IEP)
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 neuron differentiation  (IMP)
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 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 ethanol  (IEP)
response to heat  (ISO)
response to ischemia  (IEP)
response to mechanical stimulus  (IEP)
response to radiation  (IEP)
response to unfolded protein  (IMP,ISO,ISS)
telomere maintenance  (ISO)
vesicle-mediated transport  (IBA)

Cellular Component

References

References - curated
1. Arai C, etal., Histochem Cell Biol. 2010 Oct;134(4):337-43. Epub 2010 Sep 1.
2. Buraczynska M, etal., Clin Sci (Lond). 2009 Jan;116(1):81-6. doi: 10.1042/CS20070411.
3. Chien CY, etal., Audiol Neurootol. 2012;17(6):381-5. doi: 10.1159/000341815. Epub 2012 Aug 22.
4. Corvol H, etal., J Cyst Fibros. 2012 Jan;11(1):63-7. Epub 2011 Oct 10.
5. Dong Z, etal., Mol Ther. 2005 Jan;11(1):80-8.
6. Dulin E, etal., Cell Stress Chaperones. 2010 Nov;15(6):929-37. Epub 2010 May 20.
7. Dulin E, etal., Cell Stress Chaperones. 2012 Jul;17(4):507-16. doi: 10.1007/s12192-012-0328-4. Epub 2012 Feb 11.
8. Fung HC, etal., Dement Geriatr Cogn Disord. 2005;20(1):1-7. Epub 2005 Apr 12.
9. Furnrohr BG, etal., Ann Rheum Dis. 2010 Nov;69(11):1983-9. Epub 2010 May 24.
10. Garg M, etal., Eur J Cancer. 2010 Jan;46(1):207-15. doi: 10.1016/j.ejca.2009.10.020. Epub .
11. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
12. Grossin L, etal., FASEB J. 2006 Jan;20(1):65-75.
13. He M, etal., PLoS One. 2009;4(3):e4851. doi: 10.1371/journal.pone.0004851. Epub 2009 Mar 31.
14. Hua F, etal., J Neuroinflammation. 2011 May 8;8:42.
15. Jenei ZM, etal., Cell Stress Chaperones. 2013 Apr 7.
16. Jenei ZM, etal., Cell Stress Chaperones. 2013 Jul;18(4):447-54. doi: 10.1007/s12192-012-0399-2. Epub 2013 Jan 16.
17. Kawaguchi S, etal., Acta Otolaryngol. 2008 Nov;128(11):1173-7. doi: 10.1080/00016480801901675.
18. Khachatoorian R, etal., Exp Mol Pathol. 2013 Feb;94(1):243-6. doi: 10.1016/j.yexmp.2012.09.024. Epub 2012 Oct 6.
19. Kim JJ, etal., Eur Arch Psychiatry Clin Neurosci. 2008 Jun;258(4):239-44.
20. Kowalczyk M, etal., Cell Stress Chaperones. 2013 Jul 28.
21. Ledesma MD, etal., Brain Res. 2003 Oct 10;987(1):107-16.
22. Lonati C, etal., Anesthesiology. 2012 Mar;116(3):692-700. doi: 10.1097/ALN.0b013e318246ea68.
23. Maggioli E, etal., Int J Immunogenet. 2014 Feb;41(1):44-53. doi: 10.1111/iji.12077. Epub 2013 Jul 22.
24. Maheswaran S, etal., Genes Dev. 1998 Apr 15;12(8):1108-20.
25. Millenbaugh NJ, etal., Radiat Res. 2008 Mar;169(3):288-300. doi: 10.1667/RR1121.1.
26. Mosenson JA, etal., Sci Transl Med. 2013 Feb 27;5(174):174ra28. doi: 10.1126/scitranslmed.3005127.
27. Neuhofer W, etal., Pflugers Arch 2002 Oct;445(1):67-73. Epub 2002 Sep 19.
28. Novota P, etal., Transplantation. 2008 Jun 27;85(12):1809-16. doi: 10.1097/TP.0b013e31817753f7.
29. Pae CU, etal., Prog Neuropsychopharmacol Biol Psychiatry. 2007 Jun 30;31(5):1006-11. Epub 2007 Feb 27.
30. Pipeline to import KEGG annotations from KEGG into RGD
31. Rejdak K, etal., Epilepsia. 2012 May;53(5):922-7. doi: 10.1111/j.1528-1167.2012.03459.x. Epub 2012 Apr 17.
32. RGD automated data pipeline
33. RGD automated import pipeline for gene-chemical interactions
34. RGD comprehensive gene curation
35. Shao J, etal., Int J Biochem Cell Biol. 2012 Dec;44(12):2253-60. doi: 10.1016/j.biocel.2012.09.013. Epub 2012 Sep 20.
36. Wilhide ME, etal., J Mol Cell Cardiol. 2011 Jul;51(1):82-9. doi: 10.1016/j.yjmcc.2011.03.011. Epub 2011 Mar 23.
37. Yang M, etal., Cell Stress Chaperones. 2006 Autumn;11(3):233-9.
38. Zhang HN, etal., Neurol Sci. 2013 Apr;34(4):471-7. doi: 10.1007/s10072-012-1063-4. Epub 2012 Apr 18.
39. Zhang X, etal., Cardiology. 2011;119(1):57-64. doi: 10.1159/000329917. Epub 2011 Aug 17.
Additional References at PubMed
PMID:7927536   PMID:8862176   PMID:9499401   PMID:10205060   PMID:10679071   PMID:10811660   PMID:10859165   PMID:11785981   PMID:12150907   PMID:12543451   PMID:14701760   PMID:15603737  
PMID:15885686   PMID:16809764   PMID:16906134   PMID:17167422   PMID:17182002   PMID:17289661   PMID:18755693   PMID:18850735   PMID:19190083   PMID:19199708   PMID:19472539   PMID:19723345  
PMID:20458337   PMID:20625543   PMID:21231916   PMID:21423176   PMID:21909508   PMID:21975426   PMID:22495301   PMID:22516433   PMID:22658674   PMID:22681889   PMID:23349634   PMID:23533145  
PMID:23921388   PMID:24061851   PMID:24395641   PMID:24613385   PMID:24790089   PMID:25281747   PMID:25446099   PMID:25468996   PMID:26126513   PMID:27137183   PMID:27496612   PMID:27708256  
PMID:27789271  


Genomics

Comparative Map Data
Hspa1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0204,875,834 - 4,881,751 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl204,877,324 - 4,879,779 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0206,956,234 - 6,962,151 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,945,716 - 3,959,552 (+)NCBIRGSC3.4rn4RGSC3.4
Celera204,152,570 - 4,158,467 (-)NCBICelera
Cytogenetic Map20p12NCBI
HSPA1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl631,815,543 - 31,817,946 (+)EnsemblGRCh38hg38GRCh38
GRCh38631,815,543 - 31,817,942 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37631,783,320 - 31,785,719 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36631,891,316 - 31,893,698 (+)NCBINCBI36hg18NCBI36
Build 34631,891,315 - 31,893,698NCBI
Celera633,381,540 - 33,383,968 (+)NCBI
Cytogenetic Map6p21.33NCBI
HuRef631,569,698 - 31,572,209 (+)NCBIHuRef
CHM1_1631,785,425 - 31,787,853 (+)NCBICHM1_1
Hspa1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391735,188,335 - 35,191,132 (-)NCBIGRCm39mm39
GRCm39 Ensembl1735,188,166 - 35,191,132 (-)Ensembl
GRCm381734,969,359 - 34,972,156 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1734,969,190 - 34,972,156 (-)EnsemblGRCm38mm10GRCm38
MGSCv371735,106,304 - 35,109,101 (-)NCBIGRCm37mm9NCBIm37
MGSCv361734,577,246 - 34,580,180 (-)NCBImm8
Celera1738,065,583 - 38,068,380 (-)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.51NCBI
HSPA1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1632,363,499 - 32,366,005 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0631,476,710 - 31,491,411 (+)NCBIMhudiblu_PPA_v0panPan3
LOC101956126
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494635,825,952 - 35,828,975 (+)NCBI
SpeTri2.0NW_0049367271,732,323 - 1,735,128 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC103221745
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11740,203,647 - 40,206,028 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1740,203,936 - 40,205,858 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236679469,302 - 10,259 (-)NCBIVero_WHO_p1.0

Position Markers
PMC117401P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map20p12UniSTS
RH128946  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,872,885 - 3,873,070 (-)MAPPERmRatBN7.2
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 (-)MAPPERmRatBN7.2
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 (-)MAPPERmRatBN7.2
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 (-)MAPPERmRatBN7.2
mRatBN7.2203,856,718 - 3,857,207 (-)MAPPERmRatBN7.2
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 (-)MAPPERmRatBN7.2
Rnor_6.0204,881,491 - 4,881,694NCBIRnor6.0
Rnor_5.0206,961,891 - 6,962,094UniSTSRnor5.0
Cytogenetic Map20p12UniSTS


Related Rat Strains
The following Strains have been annotated to Hspa1a


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: NM_212504   ⟹   NP_997669
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0204,875,834 - 4,881,751 (-)NCBI
Rnor_5.0206,956,234 - 6,962,151 (-)NCBI
RGSC_v3.4203,945,716 - 3,959,552 (+)RGD
Celera204,152,570 - 4,158,467 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_997669 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAA54423 (Get FASTA)   NCBI Sequence Viewer  
  CAA99320 (Get FASTA)   NCBI Sequence Viewer  
  CAE83977 (Get FASTA)   NCBI Sequence Viewer  
  EDL83472 (Get FASTA)   NCBI Sequence Viewer  
  P0DMW0 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_997669   ⟸   NM_212504
- Sequence:

Transcriptome

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

Promoters
RGD ID:13701372
Promoter ID:EPDNEW_R11893
Type:multiple initiation site
Name:LOC108348108_1
Description:heat shock 70 kDa protein 1A
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_6.0204,879,825 - 4,879,885EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
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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
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (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
BUF/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/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
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)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
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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
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
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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)
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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
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
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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/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (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
LEW/Crl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (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
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
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (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
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
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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)
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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
SHR/NHsd (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
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (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
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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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)
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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
SS/Jr (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
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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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)
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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
WAG/Rij (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
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (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
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/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
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (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
WKY/NHsd (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
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 4877767 4877768 T C snv ACI/N (MCW), WN/N (MCW)
20 4877851 4877852 T C snv WN/N (MCW), WKY/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 Buf/N (MCW), M520/N (MCW), WKY/N (MCW), WN/N (MCW), BN/SsN (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 M520/N (MCW), ACI/N (MCW), WN/N (MCW), Buf/N (MCW), BN/SsN (MCW), MR/N (MCW), WKY/N (MCW), F344/NRrrc (MCW)
20 4878406 4878407 G T snv M520/N (MCW), ACI/N (MCW)
20 4878508 4878509 T C snv M520/N (MCW), MR/N (MCW), WN/N (MCW), ACI/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 MR/N (MCW), ACI/N (MCW)
20 4879483 4879484 C A snv MR/N (MCW), M520/N (MCW), BN/SsN (MCW), WKY/N (MCW), WN/N (MCW), F344/NRrrc (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/2Mco (UMich), LCR/1Mco (UMich), HCR/1Mco (UMich), LCR/2Mco (UMich)
20 3956715 3956716 C A snv LCR/1Mco (UMich), HCR/1Mco (UMich), FHL/EurMcwi (MCW), FHH/EurMcwi (MCW), LCR/2Mco (UMich)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1593284 AgrOrtholog
Ensembl Genes ENSRNOG00000050647 Ensembl
NCBI Gene 294254 ENTREZGENE
PhenoGen Hspa1a PhenoGen
UniProt P0DMW0 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-10-12 Hspa1a  heat shock protein family A (Hsp70) member 1A  Hspa1a  heat shock protein family A member 1A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-09-09 Hspa1a  heat shock protein family A member 1A  Hspa1a  heat shock protein 1A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-12 Hspa1a  heat shock 70kD protein 1A  Hspa1  heat shock 70kD protein 1  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2008-03-12 Hspa1a  heat shock protein 1A  Hspa1a  heat shock 70kD protein 1A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-04-13   heat shock 70kD protein 1B  Hspa1b  heat shock 70kD protein 1B (mapped)  Name updated 737654 APPROVED
2007-04-11 Hspa1b  heat shock 70kD protein 1B (mapped)  Hspa1b_mapped  heat shock 70kD protein 1B (mapped)  Data Merged 737654 APPROVED
2006-11-20 Hspa1b  heat shock 70kD protein 1B (mapped)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Hspa1b_mapped  heat shock 70kD protein 1B (mapped)      Symbol and Name updated 1556543 APPROVED
2002-11-06 Hspa1b  heat shock 70kD protein 1B    Heat shock protein 70-2  Name updated 625702 APPROVED
2002-06-10 Hspa1b  Heat shock protein 70-2      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_process involved in counteracting urea-mediated effects on protein function in the renal papilla 1300068