Stat1 (signal transducer and activator of transcription 1) - Rat Genome Database

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Gene: Stat1 (signal transducer and activator of transcription 1) Rattus norvegicus
Analyze
Symbol: Stat1
Name: signal transducer and activator of transcription 1
RGD ID: 3771
Description: Exhibits CCR5 chemokine receptor binding activity; protein phosphatase 2A binding activity; and sequence-specific DNA binding activity. Involved in several processes, including positive regulation of nitric-oxide synthase biosynthetic process; positive regulation of smooth muscle cell proliferation; and receptor signaling pathway via JAK-STAT. Localizes to several cellular components, including axon; dendrite; and nucleus. Used to study pulmonary fibrosis. Human ortholog(s) of this gene implicated in breast carcinoma; immunodeficiency 31A; immunodeficiency 31B; immunodeficiency 31C; and prostate adenocarcinoma. Orthologous to human STAT1 (signal transducer and activator of transcription 1); PARTICIPATES IN Jak-Stat signaling pathway; epidermal growth factor/neuregulin signaling pathway; erythropoietin signaling pathway; INTERACTS WITH (+)-schisandrin B; (R)-mevalonic acid; 15-deoxy-Delta(12,14)-prostaglandin J2.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: DD6G4-4; signal transducer and activator of transcription 1-alpha/beta
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2949,419,561 - 49,459,969 (-)NCBI
Rnor_6.0 Ensembl954,287,541 - 54,484,533 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0954,287,540 - 54,327,958 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0953,998,204 - 54,038,463 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4946,455,635 - 46,497,560 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1946,458,584 - 46,495,612 (-)NCBI
Celera947,082,882 - 47,123,002 (-)NCBICelera
Cytogenetic Map9q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-alpha-viniferin  (ISO)
(+)-catechin  (ISO)
(+)-schisandrin B  (EXP)
(+)-taxifolin  (ISO)
(-)-Arctigenin  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(R)-lipoic acid  (ISO)
(R)-mevalonic acid  (EXP,ISO)
(S)-colchicine  (ISO)
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
1,4-benzoquinone  (ISO)
1-(5-isoquinolinesulfonyl)-2-methylpiperazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (ISO)
15-deoxy-Delta(12,14)-prostaglandin J2  (EXP,ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dichloroindophenol  (ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
2-butan-2-yl-4-[4-[4-[4-[[2-(2,4-dichlorophenyl)-2-(1,2,4-triazol-1-ylmethyl)-1,3-dioxolan-4-yl]methoxy]phenyl]-1-piperazinyl]phenyl]-1,2,4-triazol-3-one  (ISO)
2-nitrofluorene  (EXP)
2-trans,6-trans,10-trans-geranylgeranyl diphosphate  (ISO)
22-Hydroxycholesterol  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3,3',5-triiodo-L-thyronine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (EXP,ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
4-\{[(5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphthalen-2-yl)carbonyl]amino\}benzoic acid  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-tert-Octylphenol  (EXP)
5,6,7-trimethoxyflavone  (ISO)
5-(2-methylpiperazine-1-sulfonyl)isoquinoline  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
6alpha-methylprednisolone  (ISO)
9-cis-retinoic acid  (ISO)
acetamide  (EXP)
aconitine  (EXP)
acrolein  (ISO)
actinomycin D  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucosamine  (ISO)
aldehydo-D-glucose  (EXP)
all-trans-retinoic acid  (ISO)
allopurinol  (ISO)
alpha-pinene  (ISO)
amantadine  (ISO)
aminoguanidine  (ISO)
ammonium chloride  (EXP)
amorolfine  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antigen  (ISO)
antirheumatic drug  (ISO)
apocynin  (EXP,ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
azathioprine  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
beta-D-glucosamine  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
buspirone  (EXP)
butenafine  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
cannabidiol  (ISO)
Cannabinol  (ISO)
capsaicin  (EXP,ISO)
capsazepine  (ISO)
carbamazepine  (ISO)
CARBENOXOLONE  (ISO)
carbon nanotube  (ISO)
carvedilol  (EXP)
chloroprene  (ISO)
chlorpyrifos  (EXP)
cholesterol  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
coniferyl aldehyde  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
curcumin  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
cytochalasin D  (ISO)
D-glucose  (EXP)
daidzein  (ISO)
DDT  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
diclofenac  (ISO)
diethyl malate  (ISO)
diethyl maleate  (EXP)
diethylstilbestrol  (EXP,ISO)
dimemorfan  (EXP)
dimethylarsinous acid  (ISO)
dinitrogen oxide  (ISO)
diuron  (EXP)
divanadium pentaoxide  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (EXP,ISO)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
eugenol  (ISO)
flavonoids  (ISO)
flutamide  (EXP,ISO)
folic acid  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
genistein  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
glucose  (EXP)
glutathione  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
herbimycin  (EXP)
hesperetin  (ISO)
hexachlorobenzene  (EXP)
hydrazine  (ISO)
hydrogen peroxide  (EXP,ISO)
hydroquinone  (ISO)
ICI D1694  (ISO)
indometacin  (ISO)
Interferon beta-1b  (ISO)
iopamidol  (ISO)
irinotecan  (ISO)
iron(2+) sulfate (anhydrous)  (EXP)
itraconazole  (ISO)
kaempferol  (ISO)
ketoconazole  (EXP,ISO)
L-arginine  (EXP)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lipoic acid  (ISO)
lipopolysaccharide  (EXP,ISO)
Luliconazole  (ISO)
lycorine  (ISO)
Mecamylamine  (ISO)
melatonin  (ISO)
mercury dichloride  (ISO)
metam  (ISO)
methotrexate  (ISO)
methylmercury chloride  (ISO)
Methylthiouracil  (ISO)
N'-Nitrosonornicotine  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-ethyl-N-nitrosourea  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
nickel atom  (ISO)
nickel dichloride  (EXP)
nickel sulfate  (ISO)
nicotine  (ISO)
nitric oxide  (ISO)
nitrofurantoin  (ISO)
o-anisidine  (ISO)
ochratoxin A  (ISO)
oridonin  (ISO)
oroxylin A  (ISO)
ozone  (ISO)
p-tert-Amylphenol  (EXP)
paracetamol  (ISO)
paraquat  (ISO)
pentachlorophenol  (ISO)
PF-956980  (ISO)
phenethyl isothiocyanate  (ISO)
phenobarbital  (EXP,ISO)
phenylarsine oxide  (ISO)
phenylephrine  (EXP)
phenylmercury acetate  (ISO)
PhIP  (EXP)
phosphatidic acid  (ISO)
pipoxolan  (ISO)
pirinixic acid  (ISO)
pitavastatin  (ISO)
pitavastatin(1-)  (ISO)
platycodin D  (ISO)
poly(I:C)  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
pravastatin  (ISO)
protein kinase inhibitor  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
resiniferatoxin  (ISO)
resveratrol  (ISO)
Ro 41-5253  (ISO)
rotenone  (ISO)
Salinomycin  (ISO)
SB 203580  (ISO)
SB 431542  (ISO)
sevoflurane  (EXP)
silicon dioxide  (ISO)
simvastatin  (EXP,ISO)
sodium arsenite  (ISO)
sodium aurothiomalate  (ISO)
Soman  (EXP)
stattic  (ISO)
sulfates  (ISO)
T-2 toxin  (EXP,ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
taurocholic acid  (EXP)
terbinafine  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP,ISO)
tetrahydropalmatine  (ISO)
thioacetamide  (EXP)
thiophenes  (ISO)
titanium dioxide  (ISO)
tofacitinib  (ISO)
Triptolide  (EXP)
triptonide  (ISO)
troglitazone  (ISO)
ursodeoxycholic acid  (ISO)
valsartan  (ISO)
vancomycin  (ISO)
verteporfin  (ISO)
vincaleukoblastine  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
vinyl carbamate  (ISO)
vitamin E  (ISO)
withaferin A  (ISO)
zidovudine  (ISO)
zinc atom  (EXP,ISO)
zinc oxide  (ISO)
zinc protoporphyrin  (ISO)
zinc sulfate  (ISO)
zinc(0)  (EXP,ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of cysteine-type endopeptidase activity involved in apoptotic process  (ISO)
blood circulation  (IMP)
cellular response to insulin stimulus  (IDA)
cellular response to interferon-beta  (ISO)
cellular response to interferon-gamma  (ISO)
cellular response to lipopolysaccharide  (ISO)
cytokine-mediated signaling pathway  (IBA,ISO)
defense response  (IBA)
defense response to virus  (ISO)
endothelial cell migration  (ISO)
interferon-gamma-mediated signaling pathway  (ISO)
interleukin-27-mediated signaling pathway  (ISO)
lipopolysaccharide-mediated signaling pathway  (ISO)
macrophage derived foam cell differentiation  (ISO)
negative regulation by virus of viral protein levels in host cell  (ISO)
negative regulation of angiogenesis  (ISO)
negative regulation of endothelial cell proliferation  (ISO)
negative regulation of I-kappaB kinase/NF-kappaB signaling  (ISO)
negative regulation of macrophage fusion  (ISO)
positive regulation of cell population proliferation  (IDA)
positive regulation of defense response to virus by host  (ISO)
positive regulation of erythrocyte differentiation  (ISO)
positive regulation of interferon-alpha production  (ISO)
positive regulation of nitric-oxide synthase biosynthetic process  (IMP)
positive regulation of smooth muscle cell proliferation  (IMP)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of transcription, DNA-templated  (ISO)
receptor signaling pathway via JAK-STAT  (IBA,IMP,ISO,TAS)
regulation of cell population proliferation  (IBA)
regulation of transcription by RNA polymerase II  (IBA,ISO)
renal tubule development  (ISO)
response to bacterium  (ISO)
response to cAMP  (IDA)
response to cytokine  (IDA)
response to drug  (IDA)
response to exogenous dsRNA  (ISO)
response to hydrogen peroxide  (IEP)
response to interferon-beta  (ISO)
response to lipopolysaccharide  (ISO)
response to mechanical stimulus  (IDA)
response to nutrient  (IDA)
response to organic cyclic compound  (IEP)
response to peptide hormone  (IBA,IDA)
response to type I interferon  (ISO)
transcription, DNA-templated  (ISO)
tumor necrosis factor-mediated signaling pathway  (ISO)
type I interferon signaling pathway  (IBA,ISO)

Cellular Component

References

References - curated
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14. GOA data from the GO Consortium
15. Goody RJ, etal., J Neurovirol. 2007 Aug;13(4):373-83.
16. Gorina R, etal., Glia. 2007 Oct;55(13):1313-24.
17. Guaiquil VH, etal., Free Radic Biol Med. 2004 Nov 1;37(9):1419-29.
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24. Lv N, etal., Exp Cell Res. 2009 Jul 15;315(12):2064-71. doi: 10.1016/j.yexcr.2009.04.021. Epub 2009 May 3.
25. Masamune A, etal., World J Gastroenterol. 2005 Jun 14;11(22):3385-91.
26. Mascareno E, etal., Vascul Pharmacol. 2005 Nov;43(5):327-35. Epub 2005 Nov 2.
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28. Meneses-Lorente G, etal., Chem Res Toxicol. 2004 May;17(5):605-12.
29. MGD data from the GO Consortium
30. Mihara M, etal., Clin Sci (Lond). 2012 Feb;122(4):143-59. doi: 10.1042/CS20110340.
31. Murray PJ J Immunol. 2007 Mar 1;178(5):2623-9.
32. Na YJ, etal., J Neurochem. 2007 Oct;103(2):637-49.
33. Nakajima A, etal., Endocrinology 2003 Oct;144(10):4659-68. Epub 2003 Jul 3.
34. NCBI rat LocusLink and RefSeq merged data July 26, 2002
35. Nien WL, etal., Mol Cell Endocrinol. 2007 Jan 15;263(1-2):10-7. Epub 2006 Nov 2.
36. OMIM Disease Annotation Pipeline
37. Park EJ, etal., J Biol Chem 2003 Apr 25;278(17):14747-52. Epub 2003 Feb 12.
38. Pipeline to import KEGG annotations from KEGG into RGD
39. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
40. Poselova TV, etal., Tsitologiia. 1998;40(12):1074-9.
41. RGD automated data pipeline
42. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
43. RGD automated import pipeline for gene-chemical interactions
44. Robinson K, etal., J Am Coll Surg. 2006 May;202(5):788-96.
45. Sabat R, etal., Cytokine Growth Factor Rev. 2010 Oct;21(5):331-44. doi: 10.1016/j.cytogfr.2010.09.002. Epub 2010 Nov 5.
46. Schroeder MD, etal., Mol Cell Endocrinol. 2001 Apr 25;175(1-2):173-83.
47. Shahrara S, etal., Arthritis Rheum. 2003 Dec;48(12):3568-83.
48. Shi YH, etal., Acta Pharmacol Sin. 2007 Dec;28(12):1938-46.
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59. Widschwendter A, etal., Clin Cancer Res. 2002 Oct;8(10):3065-74.
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Additional References at PubMed
PMID:1299057   PMID:8605877   PMID:8657134   PMID:8889548   PMID:9630226   PMID:10692450   PMID:10820245   PMID:10848577   PMID:10973496   PMID:12138178   PMID:12538627   PMID:12634107  
PMID:12872135   PMID:12947022   PMID:12957148   PMID:14522949   PMID:14984365   PMID:15485925   PMID:15590660   PMID:15630703   PMID:15659221   PMID:15661922   PMID:15825084   PMID:15956343  
PMID:16027122   PMID:16212889   PMID:16255958   PMID:16306601   PMID:16555329   PMID:16585190   PMID:16616937   PMID:17116388   PMID:17251186   PMID:17275127   PMID:17505916   PMID:17982005  
PMID:18035482   PMID:18348986   PMID:18499741   PMID:18511434   PMID:18514629   PMID:18582404   PMID:18591661   PMID:18721488   PMID:19176616   PMID:19182904   PMID:19426591   PMID:19563079  
PMID:19606498   PMID:19609277   PMID:19615126   PMID:19781632   PMID:19782030   PMID:20117981   PMID:20307504   PMID:20861313   PMID:20980260   PMID:21069420   PMID:21102409   PMID:21268089  
PMID:21396905   PMID:21419645   PMID:21545521   PMID:21606371   PMID:21929289   PMID:22002246   PMID:22302831   PMID:22865856   PMID:23386060   PMID:23451164   PMID:24097101   PMID:24280128  
PMID:24598055   PMID:24882218   PMID:25129435   PMID:25468996   PMID:25986861   PMID:26479788   PMID:26504087   PMID:26617765   PMID:27742579   PMID:27796300   PMID:27940139   PMID:27994058  
PMID:28086195   PMID:28129651   PMID:28283061   PMID:28601953   PMID:28753426   PMID:28782829   PMID:31982878   PMID:32503893  


Genomics

Comparative Map Data
Stat1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2949,419,561 - 49,459,969 (-)NCBI
Rnor_6.0 Ensembl954,287,541 - 54,484,533 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0954,287,540 - 54,327,958 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0953,998,204 - 54,038,463 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4946,455,635 - 46,497,560 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1946,458,584 - 46,495,612 (-)NCBI
Celera947,082,882 - 47,123,002 (-)NCBICelera
Cytogenetic Map9q22NCBI
STAT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2190,964,358 - 191,020,960 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl2190,908,460 - 191,020,960 (-)EnsemblGRCh38hg38GRCh38
GRCh382190,968,989 - 191,014,197 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372191,833,875 - 191,878,897 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362191,542,121 - 191,587,181 (-)NCBINCBI36hg18NCBI36
Build 342191,665,769 - 191,704,442NCBI
Celera2185,428,361 - 185,473,577 (-)NCBI
Cytogenetic Map2q32.2NCBI
HuRef2183,693,413 - 183,738,626 (-)NCBIHuRef
CHM1_12191,839,599 - 191,884,801 (-)NCBICHM1_1
Stat1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39152,158,588 - 52,201,024 (+)NCBIGRCm39mm39
GRCm39 Ensembl152,158,599 - 52,201,024 (+)Ensembl
GRCm38152,119,438 - 52,161,865 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl152,119,440 - 52,161,865 (+)EnsemblGRCm38mm10GRCm38
MGSCv37152,176,282 - 52,218,707 (+)NCBIGRCm37mm9NCBIm37
MGSCv36152,064,002 - 52,105,508 (+)NCBImm8
Celera152,657,880 - 52,700,334 (+)NCBICelera
Cytogenetic Map1C1.1NCBI
cM Map126.81NCBI
Stat1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554038,156,660 - 8,194,762 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554038,156,660 - 8,192,018 (+)NCBIChiLan1.0ChiLan1.0
STAT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B196,186,906 - 196,232,280 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B196,186,906 - 196,232,280 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B78,270,642 - 78,316,074 (-)NCBIMhudiblu_PPA_v0panPan3
STAT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1371,513,438 - 1,549,837 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl371,507,219 - 1,550,178 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha372,461,622 - 2,502,035 (-)NCBI
ROS_Cfam_1.0371,400,933 - 1,441,368 (-)NCBI
UMICH_Zoey_3.1371,410,525 - 1,450,952 (-)NCBI
UNSW_CanFamBas_1.0371,378,532 - 1,418,954 (-)NCBI
UU_Cfam_GSD_1.0371,407,084 - 1,447,502 (-)NCBI
Stat1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303149,602,218 - 149,641,217 (-)NCBI
SpeTri2.0NW_0049365067,196,860 - 7,235,854 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
STAT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1595,593,211 - 95,646,260 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11595,593,201 - 95,646,324 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
STAT1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11076,492,859 - 76,537,689 (-)NCBI
ChlSab1.1 Ensembl1076,492,533 - 76,533,393 (-)Ensembl
Stat1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248545,067,578 - 5,106,052 (+)NCBI

Position Markers
RH129933  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2949,420,416 - 49,420,598 (+)MAPPER
Rnor_6.0954,288,396 - 54,288,577NCBIRnor6.0
Rnor_5.0953,999,060 - 53,999,241UniSTSRnor5.0
RGSC_v3.4946,456,491 - 46,456,672UniSTSRGSC3.4
Celera947,083,738 - 47,083,919UniSTS
Cytogenetic Map9q31-q32UniSTS
RH141148  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2949,419,630 - 49,419,817 (+)MAPPER
Rnor_6.0954,287,610 - 54,287,796NCBIRnor6.0
Rnor_5.0953,998,274 - 53,998,460UniSTSRnor5.0
RGSC_v3.4946,455,705 - 46,455,891UniSTSRGSC3.4
Celera947,082,952 - 47,083,138UniSTS
Cytogenetic Map9q31-q32UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9105522293442944Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)91221677157216771Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)91242546357425463Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)91242546357425463Rat
631680Cm11Cardiac mass QTL 113.10.00089heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)92488509969885099Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92569234292741406Rat
631643Bp120Blood pressure QTL 12030.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)92569237370692373Rat
1598823Memor16Memory QTL 161.9exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)92575432054885226Rat
7207805Bmd88Bone mineral density QTL 884femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)92748603663264281Rat
1300180Bw14Body weight QTL 143.776body mass (VT:0001259)body weight (CMO:0000012)92748603666757620Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)92748615588333183Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)92907507983686404Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)929075079122095297Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)929466970107878528Rat
1641894Alcrsp12Alcohol response QTL 12response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)93238513377385133Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)93764235182642351Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)93764235182642351Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)94126103490024806Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)94126103498606834Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)941261034102531865Rat
6903941Pur31Proteinuria QTL 310.036total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)94657976991579769Rat
11353949Bp393Blood pressure QTL 393arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94657976991579769Rat
61352Bp34Blood pressure QTL 345arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94695242783686153Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94724896594124663Rat
6903937Bp356Blood pressure QTL 3560.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)95268687457216771Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)95417754299177542Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:477
Count of miRNA genes:242
Interacting mature miRNAs:295
Transcripts:ENSRNOT00000019465
Prediction methods:Microtar, Miranda, 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 29 37 21 19 21 8 11 22 31 34 11 8
Low 14 20 20 20 52 4 7
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001034164 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_032612 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AA901120 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC094675 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF034252 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF053767 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF205604 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC062079 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BM386875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CF109416 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473965 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CV075250 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DY564252 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231334 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232551 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000214 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000019465   ⟹   ENSRNOP00000019465
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl954,287,541 - 54,327,958 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000020032   ⟹   ENSRNOP00000020032
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl954,340,652 - 54,457,753 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000080522   ⟹   ENSRNOP00000070183
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl954,292,312 - 54,351,339 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000083514   ⟹   ENSRNOP00000070268
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl954,340,713 - 54,484,533 (-)Ensembl
RefSeq Acc Id: NM_001034164   ⟹   NP_001029336
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2949,425,026 - 49,459,969 (-)NCBI
Rnor_6.0954,293,004 - 54,327,958 (-)NCBI
Rnor_5.0953,998,204 - 54,038,463 (-)NCBI
RGSC_v3.4946,455,635 - 46,497,560 (-)RGD
Celera947,088,347 - 47,123,002 (-)NCBI
Sequence:
RefSeq Acc Id: NM_032612   ⟹   NP_116001
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2949,419,561 - 49,459,969 (-)NCBI
Rnor_6.0954,287,540 - 54,327,958 (-)NCBI
Rnor_5.0953,998,204 - 54,038,463 (-)NCBI
RGSC_v3.4946,455,635 - 46,497,560 (-)RGD
Celera947,082,882 - 47,123,002 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001029336 (Get FASTA)   NCBI Sequence Viewer  
  NP_116001 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC08438 (Get FASTA)   NCBI Sequence Viewer  
  AAF20200 (Get FASTA)   NCBI Sequence Viewer  
  AAH62079 (Get FASTA)   NCBI Sequence Viewer  
  EDL99092 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_116001   ⟸   NM_032612
- Peptide Label: isoform alpha
- UniProtKB: F1M9D6 (UniProtKB/TrEMBL),   Q6P6Q7 (UniProtKB/TrEMBL),   Q9QXK0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001029336   ⟸   NM_001034164
- Peptide Label: isoform beta
- UniProtKB: Q6P6Q7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000070183   ⟸   ENSRNOT00000080522
RefSeq Acc Id: ENSRNOP00000019465   ⟸   ENSRNOT00000019465
RefSeq Acc Id: ENSRNOP00000020032   ⟸   ENSRNOT00000020032
RefSeq Acc Id: ENSRNOP00000070268   ⟸   ENSRNOT00000083514
Protein Domains
SH2

Transcriptome

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

Promoters
RGD ID:13696657
Promoter ID:EPDNEW_R7182
Type:initiation region
Name:Stat1_1
Description:signal transducer and activator of transcription 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R7183  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0954,327,971 - 54,328,031EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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 (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
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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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 (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
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 (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 (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 (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
9 54324404 54324405 C T snv SR/JrHsd (RGD), LEW/Crl (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3771 AgrOrtholog
Ensembl Genes ENSRNOG00000014079 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000019465 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070183 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019465 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000080522 UniProtKB/TrEMBL
Gene3D-CATH 1.10.532.10 UniProtKB/TrEMBL
  1.10.8.1200 UniProtKB/TrEMBL
  2.60.40.630 UniProtKB/TrEMBL
  3.30.505.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5599645 IMAGE-MGC_LOAD
InterPro p53-like_TF_DNA-bd UniProtKB/TrEMBL
  SH2 UniProtKB/TrEMBL
  SH2_dom_sf UniProtKB/TrEMBL
  STAT1_C_sf UniProtKB/TrEMBL
  STAT1_SH2 UniProtKB/TrEMBL
  STAT1_TAZ2-bd_C UniProtKB/TrEMBL
  STAT_N_sf UniProtKB/TrEMBL
  STAT_TF_alpha UniProtKB/TrEMBL
  STAT_TF_coiled-coil UniProtKB/TrEMBL
  STAT_TF_core UniProtKB/TrEMBL
  STAT_TF_DNA-bd UniProtKB/TrEMBL
  STAT_TF_DNA-bd_sub UniProtKB/TrEMBL
  STAT_TF_prot_interaction UniProtKB/TrEMBL
KEGG Report rno:25124 UniProtKB/TrEMBL
MGC_CLONE MGC:72374 IMAGE-MGC_LOAD
NCBI Gene 25124 ENTREZGENE
PANTHER STAT UniProtKB/TrEMBL
Pfam SH2 UniProtKB/TrEMBL
  STAT1_TAZ2bind UniProtKB/TrEMBL
  STAT_alpha UniProtKB/TrEMBL
  STAT_bind UniProtKB/TrEMBL
  STAT_int UniProtKB/TrEMBL
PharmGKB STAT1 RGD
PhenoGen Stat1 PhenoGen
PROSITE SH2 UniProtKB/TrEMBL
SMART STAT_int UniProtKB/TrEMBL
Superfamily-SCOP P53_like_DNA_bnd UniProtKB/TrEMBL
  SSF55550 UniProtKB/TrEMBL
  STAT UniProtKB/TrEMBL
  STAT UniProtKB/TrEMBL
UniProt A0A0G2JX93_RAT UniProtKB/TrEMBL
  F1M9D6 ENTREZGENE, UniProtKB/TrEMBL
  Q6P6Q7 ENTREZGENE, UniProtKB/TrEMBL
  Q9QXK0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Stat1  signal transducer and activator of transcription 1      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function transcription factor that binds to the IFN-stimulated response element (ISRE) and to the GAS element