Stat5b (signal transducer and activator of transcription 5B) - Rat Genome Database

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Gene: Stat5b (signal transducer and activator of transcription 5B) Rattus norvegicus
Analyze
Symbol: Stat5b
Name: signal transducer and activator of transcription 5B
RGD ID: 3774
Description: Enables DNA binding activity; DNA-binding transcription factor activity; and chromatin binding activity. Involved in several processes, including cellular response to epidermal growth factor stimulus; luteinization; and receptor signaling pathway via JAK-STAT. Located in cytosol and nucleus. Human ortholog(s) of this gene implicated in growth hormone insensitivity syndrome with immune dysregulation 1 and growth hormone insensitivity syndrome with immune dysregulation 2. Orthologous to human STAT5B (signal transducer and activator of transcription 5B); PARTICIPATES IN Jak-Stat signaling pathway; erythropoietin signaling pathway; fibroblast growth factor signaling pathway; INTERACTS WITH 1,2-dimethylhydrazine; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Signal transducer and activator of transcription 5a
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21085,704,841 - 85,775,856 (-)NCBI
Rnor_6.0 Ensembl1088,686,207 - 88,754,829 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01088,686,207 - 88,712,313 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01088,480,377 - 88,506,888 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41089,716,624 - 89,743,134 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11089,730,993 - 89,757,504 (-)NCBI
Celera1084,424,576 - 84,451,052 (-)NCBICelera
RH 3.4 Map10837.39RGD
Cytogenetic Map10q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (EXP,ISO)
1-benzofuran  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-tert-Butoxy-2-propanol  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
17beta-estradiol 3-benzoate  (EXP)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-amino-2-deoxy-D-galactopyranose  (ISO)
2-nitrotoluene  (ISO)
3,3',5-triiodo-L-thyronine  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
4-vinylcyclohexene dioxide  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-naphthoflavone  (ISO)
ammonium chloride  (EXP)
androst-4-ene-3,17-dione  (ISO)
AP20187  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzoates  (ISO)
bezafibrate  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
ciprofibrate  (ISO)
cobalt dichloride  (ISO)
cocaine  (EXP)
coumarin  (ISO)
curcumin  (ISO)
cyclophosphamide  (ISO)
cyproconazole  (ISO)
DDE  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
dichloromethane  (ISO)
diclofenac  (ISO)
diethylstilbestrol  (ISO)
dorsomorphin  (ISO)
entinostat  (ISO)
enzyme inhibitor  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
eugenol  (ISO)
fenofibrate  (ISO)
folic acid  (ISO)
furan  (EXP,ISO)
GW 501516  (ISO)
hexachlorobenzene  (EXP,ISO)
hydrogen peroxide  (ISO)
indometacin  (EXP)
lipopolysaccharide  (ISO)
malathion  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-(1-naphthyl)ethylenediamine  (ISO)
N-ethyl-N-nitrosourea  (ISO)
N-Methylolacrylamide  (ISO)
naphthalene  (ISO)
naphthalene-1,5-diamine  (ISO)
nickel atom  (EXP)
nickel sulfate  (EXP,ISO)
nicotine  (ISO)
nitric oxide  (ISO)
oxazepam  (ISO)
paracetamol  (ISO)
perfluorobutanesulfonic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenanthrolines  (ISO)
phenformin  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
piperine  (ISO)
pirinixic acid  (ISO)
ponatinib  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
propiconazole  (ISO)
quercetin  (ISO)
quizartinib  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
sebacic acid  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
sorafenib  (ISO)
tamibarotene  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
tofacitinib  (EXP,ISO)
toluene 2,4-diisocyanate  (ISO)
triadimefon  (ISO)
Tributyltin oxide  (EXP)
trichloroethene  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
tunicamycin  (ISO)
tyrphostin AG 1478  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
acute-phase response  (IDA)
cellular response to epidermal growth factor stimulus  (IDA)
cellular response to growth factor stimulus  (IEA,ISO,ISS)
cellular response to hormone stimulus  (ISO)
cytokine-mediated signaling pathway  (IBA,IEA,ISO)
defense response  (IBA)
development of secondary female sexual characteristics  (IEA,ISO)
development of secondary male sexual characteristics  (IEA,ISO)
female pregnancy  (IEA,ISO)
growth hormone receptor signaling pathway via JAK-STAT  (IBA,IEA,ISO)
lactation  (IEA,ISO)
lipid storage  (IEA,ISO)
liver development  (IDA)
luteinization  (IDA,IEA,ISO)
mast cell migration  (IEA,ISO)
natural killer cell differentiation  (IEA,ISO)
negative regulation of apoptotic process  (IEA,ISO)
negative regulation of erythrocyte differentiation  (IEA,ISO)
Peyer's patch development  (IEA,ISO)
positive regulation of activated T cell proliferation  (IEA,ISO)
positive regulation of B cell differentiation  (IEA,ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of cellular component movement  (IMP)
positive regulation of erythrocyte differentiation  (IEA,ISO,ISS)
positive regulation of gamma-delta T cell differentiation  (IEA,ISO)
positive regulation of inflammatory response  (IEA,ISO)
positive regulation of interleukin-2 production  (IEA,ISO)
positive regulation of lymphocyte differentiation  (ISO)
positive regulation of mitotic cell cycle  (IEA,ISO)
positive regulation of multicellular organism growth  (IEA,ISO)
positive regulation of natural killer cell differentiation  (IEA,ISO)
positive regulation of natural killer cell mediated cytotoxicity  (IEA,ISO)
positive regulation of natural killer cell proliferation  (IEA,ISO)
positive regulation of smooth muscle cell proliferation  (IMP)
positive regulation of transcription by RNA polymerase II  (IEA,ISO,ISS)
progesterone metabolic process  (IEA,ISO)
receptor signaling pathway via JAK-STAT  (IBA,IDA,IEA,ISO)
regulation of cell adhesion  (ISO)
regulation of cell population proliferation  (IBA)
regulation of epithelial cell differentiation  (IEA,ISO)
regulation of multicellular organism growth  (ISO)
regulation of steroid metabolic process  (IEA,ISO)
regulation of transcription by RNA polymerase II  (IBA,ISO)
regulation of transcription, DNA-templated  (IDA,IEA)
response to estradiol  (IEA,ISO)
response to ethanol  (IEP)
response to hypoxia  (IEP)
response to interleukin-15  (IEA,ISO)
response to interleukin-2  (IEA,ISO)
response to interleukin-4  (IEA,ISO)
response to lipopolysaccharide  (IDA)
response to peptide hormone  (IBA,IDA,IEP)
sex differentiation  (ISO)
T cell differentiation in thymus  (IEA,ISO)
T cell homeostasis  (IEA,ISO)
taurine metabolic process  (IEA,ISO)
transcription by RNA polymerase II  (IDA)

Cellular Component
cytoplasm  (IEA,ISO,ISS)
cytosol  (IDA,TAS)
nucleus  (IDA,IEA,ISO)

References

References - curated
1. Badger TM, etal., Endocrinology. 2003 Sep;144(9):3969-76.
2. Cao H, etal., Circ Res. 2006 Apr 14;98(7):913-22. Epub 2006 Mar 9.
3. Chen Y, etal., Am J Physiol Endocrinol Metab. 2007 Feb 27;.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. Gebert CA, etal., Mol Endocrinol. 1997 Apr;11(4):400-14.
6. Gerland K, etal., Mol Cell Endocrinol. 2000 Oct 25;168(1-2):1-9.
7. GOA data from the GO Consortium
8. Grigorov I, etal., Mol Biol Rep 2001;28(4):217-22.
9. Jackerott M, etal., Diabetes. 2006 Oct;55(10):2705-12.
10. Ji S, etal., J Biol Chem. 1999 May 7;274(19):13434-42.
11. Kazansky AV, etal., Cancer Res. 2003 Dec 15;63(24):8757-62.
12. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
13. MGD data from the GO Consortium
14. Mihailovic M, etal., Acta Biochim Pol. 2007;54(2):331-40. Epub 2007 Jun 12.
15. Murray PJ J Immunol. 2007 Mar 1;178(5):2623-9.
16. NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. OMIM Disease Annotation Pipeline
18. Park SH and Waxman DJ, J Biol Chem 2001 Nov 16;276(46):43031-9.
19. Peng SC, etal., Nucleic Acids Res. 2010 Nov;38(21):7446-57. doi: 10.1093/nar/gkq634. Epub 2010 Jul 17.
20. Pipeline to import KEGG annotations from KEGG into RGD
21. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
22. RGD automated data pipeline
23. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
24. RGD automated import pipeline for gene-chemical interactions
25. Rhodes J, etal., Exp Hematol. 2000 Mar;28(3):305-10.
26. Ripperger JA, etal., J Biol Chem 1995 Dec 15;270(50):29998-30006.
27. Russell DL and Richards JS, Mol Endocrinol. 1999 Dec;13(12):2049-64.
28. Sun SL, etal., Clin Exp Pharmacol Physiol. 2007 Nov;34(11):1097-101.
29. Szpirer C, etal., Mamm Genome 1998 Sep;9(9):721-34
30. Timsit YE and Riddick DS, Endocrinology 2002 Sep;143(9):3284-94.
31. Venge P, etal., Lancet 1977 Aug 20;2(8034):373-5.
32. Volgin DV and Kubin L, Auton Neurosci. 2006 Jun 30;126-127:93-9. Epub 2006 May 26.
33. Youngren JF Cell Mol Life Sci. 2007 Apr;64(7-8):873-91.
Additional References at PubMed
PMID:8923468   PMID:9341127   PMID:9630227   PMID:9841920   PMID:10072077   PMID:10485657   PMID:10652277   PMID:10979977   PMID:11706048   PMID:12147240   PMID:12552091   PMID:12634107  
PMID:12682066   PMID:12767047   PMID:14532269   PMID:14761873   PMID:15062567   PMID:15142985   PMID:15253383   PMID:15294943   PMID:15471942   PMID:16303763   PMID:16339156   PMID:16857756  
PMID:17008382   PMID:17332060   PMID:17412818   PMID:18648510   PMID:19666510   PMID:20378540   PMID:20702587   PMID:21106534   PMID:21592969   PMID:22801370   PMID:23064763   PMID:23071812  
PMID:23185594   PMID:24068671  


Genomics

Candidate Gene Status
Stat5b is a candidate Gene for QTL Eau3
Stat5b is a candidate Gene for QTL Pia10
Stat5b is a candidate Gene for QTL Ciaa2
Comparative Map Data
Stat5b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21085,704,841 - 85,775,856 (-)NCBI
Rnor_6.0 Ensembl1088,686,207 - 88,754,829 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01088,686,207 - 88,712,313 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01088,480,377 - 88,506,888 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41089,716,624 - 89,743,134 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11089,730,993 - 89,757,504 (-)NCBI
Celera1084,424,576 - 84,451,052 (-)NCBICelera
RH 3.4 Map10837.39RGD
Cytogenetic Map10q31NCBI
STAT5B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1742,199,177 - 42,276,707 (-)EnsemblGRCh38hg38GRCh38
GRCh381742,199,177 - 42,288,437 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371740,351,195 - 40,428,409 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361737,604,721 - 37,681,950 (-)NCBINCBI36hg18NCBI36
Build 341737,604,721 - 37,681,950NCBI
Celera1737,005,458 - 37,083,308 (-)NCBI
Cytogenetic Map17q21.2NCBI
HuRef1736,116,230 - 36,193,344 (-)NCBIHuRef
CHM1_11740,586,923 - 40,664,134 (-)NCBICHM1_1
Stat5b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911100,671,557 - 100,741,407 (-)NCBIGRCm39mm39
GRCm39 Ensembl11100,671,557 - 100,741,550 (-)Ensembl
GRCm3811100,780,731 - 100,859,004 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11100,780,731 - 100,850,724 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711100,642,045 - 100,711,899 (-)NCBIGRCm37mm9NCBIm37
MGSCv3611100,596,821 - 100,638,618 (-)NCBImm8
MGSCv3611101,557,264 - 101,599,060 (-)NCBImm8
Cytogenetic Map11DNCBI
cM Map1163.63NCBI
Stat5b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495545116,253,645 - 16,295,337 (-)NCBIChiLan1.0ChiLan1.0
LOC100989105
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11715,306,412 - 15,338,973 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1715,306,418 - 15,336,463 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01715,040,303 - 15,116,682 (+)NCBIMhudiblu_PPA_v0panPan3
STAT5B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1920,647,712 - 20,718,453 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl920,691,483 - 20,716,485 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha920,109,403 - 20,179,537 (+)NCBI
ROS_Cfam_1.0921,367,403 - 21,437,279 (+)NCBI
UMICH_Zoey_3.1920,152,431 - 20,222,600 (+)NCBI
UNSW_CanFamBas_1.0920,419,706 - 20,489,689 (+)NCBI
UU_Cfam_GSD_1.0920,522,505 - 20,592,735 (+)NCBI
LOC101954516
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560220,031,387 - 20,054,040 (+)NCBI
SpeTri2.0NW_00493649017,022,268 - 17,043,751 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
STAT5B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1220,508,403 - 20,574,288 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11220,498,103 - 20,574,365 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21220,634,155 - 20,864,515 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103243413
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11663,997,486 - 64,070,392 (+)NCBI
ChlSab1.1 Ensembl1663,997,441 - 64,070,445 (+)Ensembl
Vero_WHO_p1.0NW_02366607734,795,632 - 34,884,310 (+)NCBI

Position Markers
RH94818  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21085,707,128 - 85,707,298 (+)MAPPER
Rnor_6.01088,686,350 - 88,686,519NCBIRnor6.0
Rnor_5.01088,480,520 - 88,480,689UniSTSRnor5.0
RGSC_v3.41089,716,767 - 89,716,936UniSTSRGSC3.4
Celera1084,424,719 - 84,424,888UniSTS
RH 3.4 Map10837.39UniSTS
Cytogenetic Map10q32.1UniSTS
RH142912  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21085,728,820 - 85,729,025 (+)MAPPER
Rnor_6.01088,708,017 - 88,708,221NCBIRnor6.0
Rnor_5.01088,502,592 - 88,502,796UniSTSRnor5.0
RGSC_v3.41089,738,838 - 89,739,042UniSTSRGSC3.4
Celera1084,446,756 - 84,446,960UniSTS
RH 3.4 Map10860.6UniSTS
Cytogenetic Map10q32.1UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10642907599492409Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109841807108540162Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101482789492423564Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014827894107857673Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014827894110992275Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)1020170031102897474Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)12152390690312401Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102152390690312401Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102290149793886300Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1023861015112626471Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)1027237530101482600Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1027237530102427718Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)103618592995845311Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1041260363106105607Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1043289657108540162Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104370495588704955Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104659302198939209Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104684834691848346Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104684834691848346Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104684834691848346Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)105063833795638337Rat
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105310471898104718Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1053621375112626471Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1053621375112626471Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105362581598939209Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105363748594807701Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)1055224855100224855Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1055678976112626471Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)1055679084102427604Rat
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1056698730101698730Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1060450007105450007Rat
2312662Slep8Serum leptin concentration QTL 80.05blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1060875260105875260Rat
2312668Scl65Serum cholesterol level QTL 650.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1060875260105875260Rat
2312672Insul15Insulin level QTL 150.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1060875260105875260Rat
2293698Bss43Bone structure and strength QTL 435.330.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1062096293107096293Rat
2306970Anxrr22Anxiety related response QTL 225.95fear/anxiety-related behavior trait (VT:1000241)number of periods of voluntary immobility (CMO:0001045)1064648175101691360Rat
1558643Cm44Cardiac mass QTL 444.80.0000368heart mass (VT:0007028)heart wet weight (CMO:0000069)1064648175102149713Rat
6893336Cm75Cardiac mass QTL 750.10.87heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1064648175102149713Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1065590122110590122Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1065992275110992275Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1065992275110992275Rat
7387312Bw125Body weight QTL 12530.0047retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight (CMO:0000356)1067880046112626471Rat
1581559Eae18Experimental allergic encephalomyelitis QTL 180.00002nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1067988218110992091Rat
1357344Bp249Blood pressure QTL 2490.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1069123603101482600Rat
2317029Aia19Adjuvant induced arthritis QTL 192.98joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1069385595112626471Rat
2317039Aia6Adjuvant induced arthritis QTL 64.31joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)1069385595112626471Rat
10450498Bp384Blood pressure QTL 3840.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1070166960112626471Rat
1642980Bp300Blood pressure QTL 300arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1070800069112626471Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1071692298112626471Rat
2300172Bmd57Bone mineral density QTL 579.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1073008136112626471Rat
2293646Bss25Bone structure and strength QTL 2510.960.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1073008136112626471Rat
2293663Bss33Bone structure and strength QTL 339.340.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1073008136112626471Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1073467158112626471Rat
2306793Ean5Experimental allergic neuritis QTL 54.7nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)107504539197308358Rat
70193Mcs7Mammary carcinoma susceptibility QTL 72.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1075544754112626471Rat
2298548Neuinf7Neuroinflammation QTL 73.4nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1075544754112626471Rat
1358188Ept9Estrogen-induced pituitary tumorigenesis QTL 93.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107598380599492217Rat
2292617Ept18Estrogen-induced pituitary tumorigenesis QTL 183.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107598380599492217Rat
1579919Bp281Blood pressure QTL 2810.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107705574198282519Rat
631537Oia4Oil induced arthritis QTL 4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)107834302790042115Rat
10450495Bp383Blood pressure QTL 3830.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107897027998282519Rat
2292438Bp311Blood pressure QTL 311arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1078970279112626471Rat
1302404Cia27Collagen induced arthritis QTL 272.60.0045joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)1079927661112626471Rat
4889492Pancm2Pancreatic morphology QTL 23.2pancreatic beta cell morphology trait (VT:0005217)ratio of insulin-positive cell area to total area of splenic region of pancreas (CMO:0001814)1080239190112626471Rat
1300107Rf18Renal function QTL 183.41urine output (VT:0003620)timed urine volume (CMO:0000260)1081515116101758478Rat
1358915Stresp7Stress response QTL 73.52blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)108164977590297007Rat
631555Bp134Blood pressure QTL 1340.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)108338982894488181Rat
6893357Bw102Body weight QTL 1020.50.36body mass (VT:0001259)body weight (CMO:0000012)1083389828104994768Rat
2303589Bw87Body weight QTL 872body mass (VT:0001259)body weight (CMO:0000012)1085079943112626471Rat
4889948Bss91Bone structure and strength QTL 914tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)108551382295638337Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)1086566908112626471Rat
2301398Kidm38Kidney mass QTL 380.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)108696256399303173Rat
12880055Am11Aortic mass QTL 110.004aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)108696256399303173Rat
2306792Ean4Experimental allergic neuritis QTL 44nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)108697786197308569Rat
1600367Mcs15Mammary carcinoma susceptibility QTL 154.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1088544136107545372Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:54
Count of miRNA genes:47
Interacting mature miRNAs:53
Transcripts:ENSRNOT00000026354
Prediction methods: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 42 57 41 19 41 8 11 70 35 34 11 8
Low 1 4 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000026354   ⟹   ENSRNOP00000026354
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1088,686,207 - 88,754,829 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000081247   ⟹   ENSRNOP00000070284
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1088,686,208 - 88,712,309 (-)Ensembl
RefSeq Acc Id: NM_022380   ⟹   NP_071775
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21085,706,986 - 85,775,630 (-)NCBI
Rnor_6.01088,686,207 - 88,712,313 (-)NCBI
Rnor_5.01088,480,377 - 88,506,888 (-)NCBI
RGSC_v3.41089,716,624 - 89,743,134 (-)RGD
Celera1084,424,576 - 84,451,052 (-)RGD
Sequence:
RefSeq Acc Id: XM_039085256   ⟹   XP_038941184
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21085,704,841 - 85,747,890 (-)NCBI
RefSeq Acc Id: XM_039085257   ⟹   XP_038941185
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21085,704,841 - 85,747,424 (-)NCBI
RefSeq Acc Id: XM_039085258   ⟹   XP_038941186
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21085,704,841 - 85,775,856 (-)NCBI
RefSeq Acc Id: XM_039085259   ⟹   XP_038941187
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21085,704,841 - 85,747,425 (-)NCBI
RefSeq Acc Id: XM_039085260   ⟹   XP_038941188
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21085,704,841 - 85,747,890 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_071775   ⟸   NM_022380
- UniProtKB: P52632 (UniProtKB/Swiss-Prot),   A0A0G2JSR4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000026354   ⟸   ENSRNOT00000026354
RefSeq Acc Id: ENSRNOP00000070284   ⟸   ENSRNOT00000081247
RefSeq Acc Id: XP_038941186   ⟸   XM_039085258
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038941188   ⟸   XM_039085260
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038941184   ⟸   XM_039085256
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038941187   ⟸   XM_039085259
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038941185   ⟸   XM_039085257
- Peptide Label: isoform X2
Protein Domains
SH2

Transcriptome

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


Strain Variation

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3774 AgrOrtholog
Ensembl Genes ENSRNOG00000019075 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000026354 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070284 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000026354 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000081247 UniProtKB/TrEMBL
Gene3D-CATH 1.10.532.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.60.40.630 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.30.505.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro p53-like_TF_DNA-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH2_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAT5a/5b UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAT5b_SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAT_N_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAT_TF_alpha UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAT_TF_coiled-coil UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAT_TF_DNA-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAT_TF_DNA-bd_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAT_TF_prot_interaction UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25126 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 25126 ENTREZGENE
PANTHER PTHR11801 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11801:SF47 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAT_alpha UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAT_bind UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAT_int UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Stat5b PhenoGen
PROSITE SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAT_int UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47655 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF48092 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF49417 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF55550 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JSR4 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2JXI4_RAT UniProtKB/TrEMBL
  P52632 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2003-04-09 Stat5b  signal transducer and activator of transcription 5B    signal transducer and activator of transcription 5b  Name updated 629478 APPROVED
2002-06-10 Stat5b  signal transducer and activator of transcription 5b      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_drugs independent of the effects of 3-methylcholanthrene in growth hormone induced chain of reactions on CYP2C11 gene expression 628356
gene_function binds to the GAS element and activates prl-induced transcription 70587
gene_homology aa sequence shows 26.7% identity with rat Stat3, 87.7% with sheep Stat5a, 92.5% with mouse Stat5a, and 98.7% with mouse Stat5b 729990
gene_process involved in signal transduction and activation of transcription 70587
gene_process may be a key intracellular mediator in the GH-pulse induced masculinization of liver CYP expression 628356
gene_regulation HNF3beta inhibits Stat5b activation at the level of Stat5b tyrosine phosphorylation; Stat5b inhibits HNF3beta by an unknown mechanism; neither inhibition is dependent on DNA binding 70587
gene_regulation growth hormone activation of Stat5b inhibits the transcription factor HNF3beta resulting in downregulation of Cyp2c11 70587
gene_regulation induced in hepatic nucleus by growth hormone 628356
gene_regulation exposure of H4 hepatoma cells to growth hormone (GH) results in a reversible time-, concentration- and growth hormone receptor concentration-dependent increase in tyrosine phosphorylation of STAT5 625493
gene_regulation translocated to the nucleus in most subpopulations of hypothalamic dopaminergic neurons following ovine prolactin activation of prolactin receptors 632713