Hspb1 (heat shock protein family B (small) member 1) - Rat Genome Database

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Gene: Hspb1 (heat shock protein family B (small) member 1) Rattus norvegicus
Analyze
Symbol: Hspb1
Name: heat shock protein family B (small) member 1
RGD ID: 61306
Description: Enables ubiquitin binding activity. Involved in several processes, including cellular response to butyrate; cellular response to interleukin-11; and response to ischemia. Located in several cellular components, including myofibril; perikaryon; and postsynaptic density membrane. Part of proteasome complex. Biomarker of Alzheimer's disease and transient cerebral ischemia. Human ortholog(s) of this gene implicated in Charcot-Marie-Tooth disease axonal type 2F; distal hereditary motor neuropathy type 2B; pancreatic cancer; and sarcoma. Orthologous to human HSPB1 (heat shock protein family B (small) member 1); PARTICIPATES IN Entamoebiasis pathway; mitogen activated protein kinase signaling pathway; vascular endothelial growth factor signaling pathway; INTERACTS WITH (+)-pilocarpine; (+)-schisandrin B; 1,3,5-trinitro-1,3,5-triazinane.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: heat shock 27 kDa protein; heat shock 27 kDa protein 1; heat shock 27kDa protein 1; heat shock protein 1; heat shock protein B1; heat shock protein beta-1; HSP 27; Hsp25; Hsp27
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Is Marker For: QTLs:   Btemp2  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21220,794,014 - 20,795,675 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1220,794,028 - 20,795,743 (-)Ensembl
Rnor_6.01223,839,390 - 23,841,051 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1223,839,399 - 23,841,049 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01225,837,102 - 25,838,663 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41221,911,223 - 21,912,784 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11221,898,486 - 21,900,048 (-)NCBI
Celera1222,557,404 - 22,559,067 (-)NCBICelera
Cytogenetic Map12q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-lariciresinol  (ISO)
(+)-pilocarpine  (EXP)
(+)-schisandrin B  (EXP,ISO)
(-)-lariciresinol  (ISO)
(2,4,5-trichlorophenoxy)acetic acid  (ISO)
(S)-amphetamine  (ISO)
1,1-dichloroethene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3,5-trinitro-1,3,5-triazinane  (EXP)
1-chloro-2,4-dinitrobenzene  (ISO)
1-Hydroxypyrene  (ISO)
1-naphthyl isothiocyanate  (EXP)
1-octadec-9-enoylglycero-3-phosphate  (EXP)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
1H-pyrazole  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dinitrotoluene  (EXP)
2-amino-14,16-dimethyloctadecan-3-ol  (ISO)
2-amino-4,6-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
2-nitrofluorene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3'-diindolylmethane  (ISO)
3,3'-Thiobispropanoic acid  (ISO)
3-Hydroxybenzo[a]pyrene  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (EXP)
4-amino-2,6-dinitrotoluene  (EXP)
4-hydroxyphenyl retinamide  (ISO)
4-nitroquinoline N-oxide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
5-formyltetrahydrofolic acid  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acetylsalicylic acid  (EXP)
acrylamide  (EXP,ISO)
afimoxifene  (ISO)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucose  (EXP,ISO)
aldrin  (ISO)
all-trans-retinoic acid  (ISO)
alpha-hexachlorocyclohexane  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
amphibole asbestos  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antimycin A  (ISO)
arecoline  (ISO)
argipressin  (EXP)
aristolochic acid  (ISO)
arsenite(3-)  (EXP,ISO)
arsenous acid  (ISO)
ATP  (ISO)
atrazine  (ISO)
Aurin  (ISO)
azetidinecarboxylic acid  (ISO)
azoxystrobin  (ISO)
benomyl  (EXP)
benzo[a]pyrene  (ISO)
bexarotene  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bleomycin A2  (EXP)
bortezomib  (EXP,ISO)
bucladesine  (EXP,ISO)
bufalin  (ISO)
butan-1-ol  (ISO)
butyric acid  (EXP)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (EXP,ISO)
capsaicin  (EXP)
captan  (ISO)
carbon nanotube  (ISO)
carboplatin  (EXP)
chlorogenic acid  (ISO)
chlorohydrocarbon  (EXP)
chloropicrin  (ISO)
chloroprene  (ISO)
chromium atom  (EXP)
cisplatin  (EXP,ISO)
clofibrate  (EXP,ISO)
cobalt dichloride  (ISO)
cocaine  (EXP)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
corticosterone  (EXP)
CU-O LINKAGE  (ISO)
cumene hydroperoxide  (ISO)
Cuprizon  (EXP)
curcumin  (EXP)
cyclophosphamide  (EXP)
D-glucose  (EXP,ISO)
DDE  (EXP)
deguelin  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibutyl phthalate  (EXP)
dichloroacetic acid  (ISO)
diclofenac  (ISO)
Dienochlor  (ISO)
diethylstilbestrol  (EXP)
dihydroxyacetone  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (EXP,ISO)
disulfiram  (ISO)
doxorubicin  (EXP,ISO)
elemental selenium  (ISO)
endosulfan  (EXP,ISO)
erastin  (EXP)
ethanol  (EXP,ISO)
fenofibrate  (EXP,ISO)
filipin III  (ISO)
finasteride  (EXP)
flutamide  (EXP)
folpet  (ISO)
formaldehyde  (EXP)
fulvestrant  (ISO)
furan  (EXP,ISO)
genistein  (ISO)
glucose  (EXP,ISO)
glutathione  (EXP)
gold atom  (ISO)
gold(0)  (ISO)
graphite  (EXP)
hyaluronic acid  (EXP)
hydrogen peroxide  (EXP,ISO)
ICI-164384  (ISO)
imidacloprid  (ISO)
indometacin  (EXP)
iron atom  (EXP)
iron(0)  (EXP)
isobutanol  (ISO)
isoprenaline  (EXP)
ivermectin  (ISO)
kojic acid  (EXP)
L-ascorbic acid  (EXP,ISO)
lead diacetate  (EXP)
lead(II) chloride  (ISO)
leflunomide  (EXP)
linalool  (EXP)
lipopolysaccharide  (ISO)
lithocholic acid  (ISO)
LY294002  (ISO)
menadione  (ISO)
mercury dichloride  (EXP)
metacetamol  (ISO)
methamphetamine  (EXP,ISO)
methapyrilene  (EXP)
methimazole  (EXP)
methotrexate  (ISO)
methoxyacetic acid  (EXP)
methyl beta-cyclodextrin  (ISO)
methylglyoxal  (ISO)
methylmercury chloride  (EXP)
microcystin-LR  (EXP,ISO)
Monobutylphthalate  (EXP,ISO)
monocrotaline  (ISO)
monosodium L-glutamate  (EXP)
morphine  (EXP)
motexafin gadolinium  (ISO)
N-acetyl-L-cysteine  (EXP)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-methylformamide  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
naphthalene  (ISO)
nefazodone  (EXP)
neodymium atom  (ISO)
nickel atom  (EXP)
nicotinic acid  (EXP)
nimesulide  (EXP)
Nonylphenol  (EXP)
O-acetyl-L-carnitine  (EXP)
ochratoxin A  (ISO)
okadaic acid  (ISO)
Osajin  (ISO)
oxaliplatin  (EXP)
oxidopamine  (EXP)
ozone  (EXP,ISO)
paracetamol  (ISO)
paraquat  (EXP,ISO)
pentobarbital  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP,ISO)
permethrin  (ISO)
phenethyl caffeate  (EXP)
phenethyl isothiocyanate  (EXP,ISO)
phenobarbital  (EXP)
phenytoin  (ISO)
PhIP  (EXP)
phlorizin  (ISO)
phorbol 13-acetate 12-myristate  (EXP,ISO)
piperonyl butoxide  (EXP)
pirinixic acid  (EXP,ISO)
Pomiferin  (ISO)
potassium dichromate  (ISO)
potassium hydroxide  (ISO)
progesterone  (EXP)
propiconazole  (ISO)
puerarin  (ISO)
pyrimidifen  (ISO)
quercetin  (EXP,ISO)
reactive oxygen species  (ISO)
resveratrol  (EXP,ISO)
rifampicin  (ISO)
Rosavin  (ISO)
rotenone  (EXP,ISO)
SB 203580  (EXP,ISO)
SCH 23390  (EXP)
selenium atom  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (EXP,ISO)
sodium dichromate  (EXP)
sodium dodecyl sulfate  (EXP,ISO)
streptozocin  (EXP)
sunitinib  (ISO)
superoxide  (ISO)
tamoxifen  (ISO)
tebufenpyrad  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
thalidomide  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
thiopental  (ISO)
thiostrepton  (ISO)
Tiron  (ISO)
titanium dioxide  (EXP,ISO)
topotecan  (EXP)
trichloroethene  (EXP,ISO)
troglitazone  (ISO)
tungsten  (EXP)
valdecoxib  (EXP)
valproic acid  (EXP,ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
vorinostat  (ISO)
zearalenone  (ISO)
zinc acetate  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (IEP)
anterograde axonal protein transport  (IEA,ISO,ISS)
cellular response to butyrate  (IEP)
cellular response to hydrogen peroxide  (IEP)
cellular response to interleukin-11  (IEP)
cellular response to vascular endothelial growth factor stimulus  (ISO)
chaperone-mediated protein folding  (IEA,ISO,ISS)
female pregnancy  (IEP)
intracellular signal transduction  (IEA,ISO)
negative regulation of apoptotic process  (TAS)
negative regulation of apoptotic signaling pathway  (ISO)
negative regulation of oxidative stress-induced cell death  (IMP)
negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway  (IEA,ISO)
negative regulation of protein kinase activity  (IEA,ISO)
negative regulation of regulatory T cell differentiation  (IMP)
platelet aggregation  (ISO)
positive regulation of angiogenesis  (IEA,ISO)
positive regulation of blood vessel endothelial cell migration  (IEA,ISO)
positive regulation of endothelial cell chemotaxis  (ISO)
positive regulation of endothelial cell chemotaxis by VEGF-activated vascular endothelial growth factor receptor signaling pathway  (IEA,ISO)
positive regulation of interleukin-1 beta production  (IEA,ISO)
positive regulation of neuron projection development  (IGI)
positive regulation of tumor necrosis factor production  (IEA,ISO)
regulation of I-kappaB kinase/NF-kappaB signaling  (IEA,ISO)
regulation of protein phosphorylation  (ISO,ISS)
response to angiotensin  (IEP)
response to ischemia  (IEP)
response to muscle stretch  (IEP)
response to virus  (IEA,ISO)
retina homeostasis  (ISO)

Cellular Component
axon  (IDA)
axon cytoplasm  (IEA)
cardiac myofibril  (IDA)
contractile fiber  (ISO)
cornified envelope  (ISO)
cytoplasm  (IDA,ISO,ISS)
dendrite  (IDA)
I band  (IDA)
M band  (IDA)
nucleus  (IDA,IEA,ISO,ISS)
perikaryon  (IDA)
plasma membrane  (IDA,IEA,ISO)
postsynaptic density membrane  (IDA)
proteasome complex  (IDA)
spindle  (IEA)
synapse  (IDA)
Z disc  (IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Bechtold DA and Brown IR, Neurochem Res 2003 Aug;28(8):1163-73.
2. Benn SC, etal., Neuron 2002 Sep 26;36(1):45-56.
3. Cullingford TE, etal., J Mol Cell Cardiol. 2006 Jan;40(1):157-72. Epub 2005 Dec 1.
4. Eaton P, etal., J Biol Chem 2002 Jun 14;277(24):21189-96.
5. Filipcik P, etal., Biochim Biophys Acta. 2015 Jul;1852(7):1219-29. doi: 10.1016/j.bbadis.2015.03.003. Epub 2015 Mar 12.
6. Fujisawa K, etal., Exp Toxicol Pathol. 2013 Jul;65(5):469-76. doi: 10.1016/j.etp.2012.02.001. Epub 2012 Mar 12.
7. Geum D, etal., J Biol Chem 2002 May 31;277(22):19913-21.
8. GOA data from the GO Consortium
9. Gong Y, etal., Stroke. 2004 Nov;35(11):2571-5. Epub 2004 Oct 7.
10. Griffiths MM, etal., Arthritis Rheum 2000 Jun;43(6):1278-89
11. He Y, etal., Biosci Rep. 2018 Nov 7;38(6). pii: BSR20180895. doi: 10.1042/BSR20180895. Print 2018 Dec 21.
12. Heinrich JC, etal., J Cancer Res Clin Oncol. 2011 Sep;137(9):1349-61. doi: 10.1007/s00432-011-1005-1. Epub 2011 Jul 22.
13. Hirade K, etal., Am J Physiol Heart Circ Physiol 2002 Sep;283(3):H941-8.
14. Hirata K, etal., Glia 2003 Apr 1;42(1):1-11.
15. Huey KA, etal., Muscle Nerve 2004 Jul;30(1):95-101.
16. Imura T, etal., J Neurosci. 1999 Nov 15;19(22):9768-79.
17. Jia Y, etal., J Biol Chem 2001 Oct 26;276(43):39911-8.
18. Joachim SC, etal., Invest Ophthalmol Vis Sci. 2011 Jun 1;52(6):3468-74. doi: 10.1167/iovs.10-5763.
19. Kato K, etal., FASEB J 2002 Sep;16(11):1432-4. Epub 2002 Jul 18.
20. Krueger-Naug AM, etal., Neuroscience 2003;116(1):49-58.
21. Lutsch G, etal., Circulation. 1997 Nov 18;96(10):3466-76.
22. MGD data from the GO Consortium
23. Monastyrskaya EA, etal., Biochemistry (Mosc) 2003 Jul;68(7):816-21.
24. Nakakura-Ohshima K, etal., J Electron Microsc (Tokyo) 2003;52(6):581-91.
25. NCBI rat LocusLink and RefSeq merged data July 26, 2002
26. OMIM Disease Annotation Pipeline
27. Online Mendelian Inheritance in Man, OMIM (TM).
28. Parcellier A, etal., Mol Cell Biol 2003 Aug;23(16):5790-802.
29. Pipeline to import KEGG annotations from KEGG into RGD
30. Ren H, etal., Gastroenterology. 2001 Sep;121(3):631-9.
31. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
32. RGD automated import pipeline for gene-chemical interactions
33. Ropeleski MJ, etal., Gastroenterology. 2003 May;124(5):1358-68.
34. Sanchez-Nino MD, etal., Lab Invest. 2012 Jan;92(1):32-45. doi: 10.1038/labinvest.2011.138. Epub 2011 Sep 19.
35. Sanz O, etal., Glia. 2001 Dec;36(3):259-70.
36. Schmidt T, etal., Histochem Cell Biol. 2012 Sep;138(3):407-18. doi: 10.1007/s00418-012-0964-x. Epub 2012 May 23.
37. Sedlackova L, etal., Scand J Rheumatol. 2011;40(5):354-7. doi: 10.3109/03009742.2011.552522. Epub 2011 Mar 21.
38. Shi GX, etal., Mol Cell Biol. 2008 Aug;28(16):4940-51. Epub 2008 Jun 9.
39. Tachibana T, etal., Neurosci Lett. 2002 Jul 19;327(2):133-7.
40. Tadros SF, etal., PLoS One. 2014 Feb 28;9(2):e90279. doi: 10.1371/journal.pone.0090279. eCollection 2014.
41. Uoshima K, etal., Biochem Biophys Res Commun 1993 Dec 30;197(3):1388-95.
42. Welsh MJ, etal., Biol Reprod 1996 Jul;55(1):141-51.
43. White BG and MacPhee DJ, Am J Physiol Regul Integr Comp Physiol. 2011 Nov;301(5):R1418-26. doi: 10.1152/ajpregu.00272.2011. Epub 2011 Sep 7.
Additional References at PubMed
PMID:8282729   PMID:8774846   PMID:9122205   PMID:10625651   PMID:10751411   PMID:11003656   PMID:11774370   PMID:12385642   PMID:14627610   PMID:15122254   PMID:15528251   PMID:15581903  
PMID:15731106   PMID:15819993   PMID:15896702   PMID:15973165   PMID:16376863   PMID:16469826   PMID:16527988   PMID:16548883   PMID:16554407   PMID:16641100   PMID:16710168   PMID:16782845  
PMID:16862544   PMID:17103249   PMID:17182729   PMID:17379754   PMID:17441507   PMID:17513494   PMID:17606386   PMID:17763949   PMID:17869218   PMID:17873025   PMID:17906111   PMID:17993247  
PMID:18083901   PMID:18263706   PMID:18323692   PMID:18358624   PMID:18440775   PMID:18507158   PMID:18561899   PMID:18596079   PMID:18810710   PMID:18845059   PMID:19047919   PMID:19056867  
PMID:19166925   PMID:19199708   PMID:19247578   PMID:19330846   PMID:19373869   PMID:19464326   PMID:19472539   PMID:19528257   PMID:19530165   PMID:19609652   PMID:19720107   PMID:19781527  
PMID:20089131   PMID:20144690   PMID:20178975   PMID:20687299   PMID:20862803   PMID:20971094   PMID:21075084   PMID:21132399   PMID:21423176   PMID:21468556   PMID:21530534   PMID:21638305  
PMID:21933567   PMID:21975426   PMID:21998265   PMID:22365833   PMID:22505291   PMID:22513040   PMID:22549003   PMID:22647273   PMID:22658674   PMID:22664934   PMID:22800957   PMID:23376485  
PMID:23382103   PMID:23533145   PMID:23546289   PMID:23580065   PMID:23728742   PMID:23740515   PMID:23788701   PMID:23834360   PMID:23874834   PMID:23948568   PMID:23979707   PMID:24086730  
PMID:24103517   PMID:24141048   PMID:24303535   PMID:24469469   PMID:24700193   PMID:24750554   PMID:24914207   PMID:24927932   PMID:25036637   PMID:25277244   PMID:25446099   PMID:25535743  
PMID:25736854   PMID:26028560   PMID:26475352   PMID:26708692   PMID:27301321   PMID:27470130   PMID:28144995   PMID:28425051   PMID:28632846   PMID:29048431   PMID:30256412   PMID:30902393  
PMID:31391542   PMID:31586966   PMID:34337047   PMID:34445330  


Genomics

Candidate Gene Status
Hspb1 is a candidate Gene for QTL Cia12
Comparative Map Data
Hspb1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21220,794,014 - 20,795,675 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1220,794,028 - 20,795,743 (-)Ensembl
Rnor_6.01223,839,390 - 23,841,051 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1223,839,399 - 23,841,049 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01225,837,102 - 25,838,663 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41221,911,223 - 21,912,784 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11221,898,486 - 21,900,048 (-)NCBI
Celera1222,557,404 - 22,559,067 (-)NCBICelera
Cytogenetic Map12q12NCBI
HSPB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl776,302,673 - 76,304,295 (+)EnsemblGRCh38hg38GRCh38
GRCh38776,302,673 - 76,304,292 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37775,931,990 - 75,933,609 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36775,769,859 - 75,771,548 (+)NCBINCBI36hg18NCBI36
Build 34775,576,573 - 75,578,263NCBI
Celera770,800,374 - 70,802,113 (+)NCBI
Cytogenetic Map7q11.23NCBI
HuRef771,018,196 - 71,019,935 (+)NCBIHuRef
CHM1_1775,861,968 - 75,863,707 (+)NCBICHM1_1
CRA_TCAGchr7v2775,264,939 - 75,266,678 (+)NCBI
Hspb1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395135,916,773 - 135,918,417 (+)NCBIGRCm39mm39
GRCm39 Ensembl5135,916,773 - 135,918,417 (+)Ensembl
GRCm385135,887,919 - 135,889,563 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5135,887,919 - 135,889,563 (+)EnsemblGRCm38mm10GRCm38
MGSCv375136,363,789 - 136,365,433 (+)NCBIGRCm37mm9NCBIm37
MGSCv365136,172,686 - 136,174,064 (+)NCBImm8
Celera5132,896,482 - 132,898,126 (+)NCBICelera
Cytogenetic Map5G2NCBI
cM Map575.51NCBI
Hspb1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049558447,790 - 10,004 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049558448,094 - 9,565 (+)NCBIChiLan1.0ChiLan1.0
HSPB1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1782,751,385 - 82,753,109 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl782,751,523 - 82,752,984 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0767,716,021 - 67,717,762 (-)NCBIMhudiblu_PPA_v0panPan3
HSPB1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.167,487,164 - 7,488,576 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl67,487,250 - 7,488,576 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha69,182,749 - 9,184,173 (+)NCBI
ROS_Cfam_1.067,307,626 - 7,309,048 (+)NCBI
UMICH_Zoey_3.167,276,667 - 7,278,079 (+)NCBI
UNSW_CanFamBas_1.067,239,649 - 7,241,061 (+)NCBI
UU_Cfam_GSD_1.067,403,114 - 7,404,545 (+)NCBI
Hspb1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344131,924,637 - 131,926,212 (+)NCBI
SpeTri2.0NW_0049365432,110,351 - 2,111,896 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HSPB1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl310,037,936 - 10,039,915 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1310,038,074 - 10,039,441 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.239,925,991 - 9,927,359 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HSPB1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12810,442,530 - 10,443,804 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2810,442,398 - 10,443,855 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660705,976,665 - 5,978,438 (-)NCBIVero_WHO_p1.0
Hspb1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474014,940,161 - 14,941,561 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
Hsp25  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21220,794,141 - 20,794,468 (+)MAPPERmRatBN7.2
Rnor_6.01223,839,518 - 23,839,844NCBIRnor6.0
Rnor_5.01225,837,200 - 25,837,526UniSTSRnor5.0
RGSC_v3.41221,911,321 - 21,911,647UniSTSRGSC3.4
Celera1222,557,532 - 22,557,860UniSTS
Cytogenetic Map12q12UniSTS
RH129737  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21220,794,083 - 20,794,242 (+)MAPPERmRatBN7.2
Rnor_6.01223,839,460 - 23,839,618NCBIRnor6.0
Rnor_5.01225,837,142 - 25,837,300UniSTSRnor5.0
RGSC_v3.41221,911,263 - 21,911,421UniSTSRGSC3.4
Celera1222,557,474 - 22,557,632UniSTS
Cytogenetic Map12q12UniSTS
RH136912  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26122,474,775 - 122,474,988 (+)MAPPERmRatBN7.2
Rnor_6.06128,984,736 - 128,984,948NCBIRnor6.0
Rnor_6.06127,212,347 - 127,212,559NCBIRnor6.0
Rnor_5.06138,181,837 - 138,182,049UniSTSRnor5.0
Rnor_5.06136,425,805 - 136,426,017UniSTSRnor5.0
RGSC_v3.46127,609,522 - 127,609,734UniSTSRGSC3.4
Celera6119,956,048 - 119,956,260UniSTS
RH 3.4 Map6841.9UniSTS
Cytogenetic Map6q32UniSTS
Cytogenetic Map12q12UniSTS
Hspb1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21220,794,277 - 20,795,457 (+)MAPPERmRatBN7.2
Rnor_6.01223,839,654 - 23,840,833NCBIRnor6.0
Rnor_5.01225,837,336 - 25,838,515UniSTSRnor5.0
Celera1222,557,668 - 22,558,849UniSTS
Cytogenetic Map12q12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12122591684Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123297788Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12129333307Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12134851688Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)12142110980Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)12142110980Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12142450532Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12144465750Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12144503507Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12144503507Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12117200546172005Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6556449546669029Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449846669029Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12610757946669029Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12719673046669029Rat
2293086Iddm30Insulin dependent diabetes mellitus QTL 303.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)12844949028302290Rat
61331Eau2Experimental allergic uveoretinitis QTL 20.0005uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)12852542328064601Rat
1300157Rf21Renal function QTL 214.4renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)12931821632103380Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)12960327746669029Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121047413746669029Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121047413746669029Rat
1331786Kidm11Kidney mass QTL 113.571kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)121107382524234895Rat
1331755Bp219Blood pressure QTL 2193.041arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121107382528064557Rat
1331761Bp218Blood pressure QTL 2182.973arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121107382545055165Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121235161946669029Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121281238546669029Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121281238546669029Rat
1549902Bp269Blood pressure QTL 269arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121318273646669029Rat
1549912Bp268Blood pressure QTL 268arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)101318273646669029Rat
2302060Pia37Pristane induced arthritis QTL 376.10.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)121319815746669029Rat
61416Pia4Pristane induced arthritis QTL 48.4joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)121363552330827399Rat
61421Cia12Collagen induced arthritis QTL 124.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121363552335682913Rat
61443Btemp2Thermal response to stress QTL 23.30.000094body temperature trait (VT:0005535)core body temperature (CMO:0001036)121502518320794014Rat
631543Bp83Blood pressure QTL 835.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121555082638478808Rat
2293684Bmd26Bone mineral density QTL 264.40.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)121587265332974238Rat
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)121914436246669029Rat
2306789Ean6Experimental allergic neuritis QTL 64.9nervous system integrity trait (VT:0010566)experimental autoimmune neuritis severity score (CMO:0001528)121961087024139202Rat
737822Alc10Alcohol consumption QTL 102.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)121961087040218516Rat
5684888Pia42Pristane induced arthritis QTL 42joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121961087042828880Rat
61324Eae5Experimental allergic encephalomyelitis QTL 514nervous system integrity trait (VT:0010566)percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)121961087046669029Rat
1298081Cia25Collagen induced arthritis QTL 254.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121961088935682913Rat
70213Niddm27Non-insulin dependent diabetes mellitus QTL 273.72blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121983578938193007Rat
631521Pia12Pristane induced arthritis QTL 128.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)122025941723672083Rat
7411643Foco20Food consumption QTL 200.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)122032881946669029Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:107
Count of miRNA genes:85
Interacting mature miRNAs:89
Transcripts:ENSRNOT00000031555
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 12 2 9 2 8 11 6 32 35 11 8
Low 45 39 10 39 68 3 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000031555   ⟹   ENSRNOP00000032902
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1220,794,028 - 20,795,743 (-)Ensembl
Rnor_6.0 Ensembl1223,839,399 - 23,841,049 (-)Ensembl
RefSeq Acc Id: NM_031970   ⟹   NP_114176
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21220,794,014 - 20,795,675 (-)NCBI
Rnor_6.01223,839,390 - 23,841,051 (-)NCBI
Rnor_5.01225,837,102 - 25,838,663 (-)NCBI
RGSC_v3.41221,911,223 - 21,912,784 (-)RGD
Celera1222,557,404 - 22,559,067 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_114176 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA41353 (Get FASTA)   NCBI Sequence Viewer  
  AAB29536 (Get FASTA)   NCBI Sequence Viewer  
  EDM13341 (Get FASTA)   NCBI Sequence Viewer  
  P42930 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_114176   ⟸   NM_031970
- UniProtKB: G3V913 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000032902   ⟸   ENSRNOT00000031555
Protein Domains
sHSP

Transcriptome

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

Promoters
RGD ID:13698546
Promoter ID:EPDNEW_R9069
Type:multiple initiation site
Name:Hspb1_1
Description:heat shock protein family B member 1
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_6.01223,840,979 - 23,841,039EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/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
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)
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-Lx/CubMcwi (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
BN/NHsdMcwi (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
BN/NHsdMcwi (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
BN/SsN (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
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 (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
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)
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
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)
Visual CSV TAB Printer
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)
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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/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
F344/NCrl (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: 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)
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
F344/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
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)
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)
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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)
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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
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)
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
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)
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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
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)
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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
LEXF3/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
LEXF4/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
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)
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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: 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)
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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: 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)
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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
M520/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
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)
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
SHR/OlalpcvMcwi (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
SHRSP/A3NCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (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
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)
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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)
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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (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
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 (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (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
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61306 AgrOrtholog
Ensembl Genes ENSRNOG00000023546 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000032902 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000031555 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.790 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro A-crystallin/Hsp20_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ACD_HspB1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Alpha-crystallin/HSP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HSP20-like_chaperone UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24471 UniProtKB/TrEMBL
NCBI Gene 24471 ENTREZGENE
PANTHER PTHR45640 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam HSP20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Hspb1 PhenoGen
PRINTS ACRYSTALLIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE SHSP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49764 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt G3V913 ENTREZGENE, UniProtKB/TrEMBL
  HSPB1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q63922 UniProtKB/Swiss-Prot
  Q9QWA8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-02 Hspb1  heat shock protein family B (small) member 1  Hspb1  heat shock protein B1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-01-23 Hspb1  heat shock protein B1  Hspb1  heat shock protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-15 Hspb1  heat shock protein 1  Hspb1  heat shock 27kDa protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2003-04-09 Hspb1  heat shock 27kDa protein 1      Name updated 629478 APPROVED
2003-03-12 Hspb1  heat shock 27kDa protein 1  Hsp27  Heat shock 27 kDa protein  Data Merged 628472 PROVISIONAL
2003-03-12   heat shock 27kDa protein 1  Hspb1    Name updated to reflect Human and Mouse nomenclature 61478 PROVISIONAL
2002-06-10 Hsp27  Heat shock 27 kDa protein      Symbol and Name status set to approved 70586 APPROVED
2002-06-10 Hspb1        Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease human homolog mutations are associated with various neuropathies and some forms of Charcot-Marie-Tooth disease 704405
gene_physical_interaction human homolog interacts with alpha-B-crystallin 704404
gene_process human homolog may suppress polyglutamine-mediated cell death 704404