Stat4 (signal transducer and activator of transcription 4) - Rat Genome Database
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Gene: Stat4 (signal transducer and activator of transcription 4) Rattus norvegicus
Analyze
Symbol: Stat4
Name: signal transducer and activator of transcription 4
RGD ID: 1305747
Description: Exhibits sequence-specific DNA binding activity. Involved in cellular response to cytokine stimulus and cellular response to organic cyclic compound. Localizes to nucleus. Used to study obesity. Biomarker of asthma and chronic obstructive pulmonary disease. Human ortholog(s) of this gene implicated in several diseases, including IgA glomerulonephritis; autoimmune disease (multiple); dermatomyositis; genital herpes; and systemic scleroderma (multiple). Orthologous to human STAT4 (signal transducer and activator of transcription 4); PARTICIPATES IN interleukin-12 signaling pathway; interleukin-23 signaling pathway; interleukin-27 signaling pathway; INTERACTS WITH 7,12-dimethyltetraphene; acetamide; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC367264
Orthologs:
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0954,340,649 - 54,457,753 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl954,287,541 - 54,484,533 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0954,051,154 - 54,167,491 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4946,510,251 - 46,650,076 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1946,511,665 - 46,651,490 (-)NCBI
Celera947,135,713 - 47,243,684 (-)NCBICelera
Cytogenetic Map9q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View

Cellular Component
cytosol  (IBA)
nucleus  (IBA,IDA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Aiba Y, etal., J Hum Genet. 2015 Sep;60(9):525-31. doi: 10.1038/jhg.2015.59. Epub 2015 Jun 18.
2. Alonso-Perez E, etal., PLoS One. 2012;7(9):e45356. doi: 10.1371/journal.pone.0045356. Epub 2012 Sep 26.
3. Aprahamian T, etal., J Immunol. 2006 Sep 1;177(5):3028-34.
4. Avouac J, etal., Arthritis Rheum. 2011 Mar;63(3):800-9. doi: 10.1002/art.30171.
5. Banerjee K, etal., J Interferon Cytokine Res. 2007 Jan;27(1):65-75.
6. Bowes J, etal., Ann Rheum Dis. 2012 Aug;71(8):1350-4. doi: 10.1136/annrheumdis-2011-200802. Epub 2012 Feb 10.
7. Chakrabarti SK, etal., Am J Physiol Endocrinol Metab. 2011 Jan;300(1):E175-87. Epub 2010 Oct 26.
8. Chowdhary VR, etal., J Immunol. 2012 Aug 15;189(4):2054-62. doi: 10.4049/jimmunol.1201097. Epub 2012 Jul 13.
9. Dieude P, etal., Arthritis Rheum. 2009 Aug;60(8):2472-9. doi: 10.1002/art.24688.
10. Eskiizmir G, etal., Am J Otolaryngol. 2014 Mar-Apr;35(2):130-6. doi: 10.1016/j.amjoto.2013.10.005. Epub 2013 Oct 30.
11. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
12. Gestermann N, etal., Genes Immun. 2010 Jul;11(5):432-8. doi: 10.1038/gene.2010.29. Epub 2010 Jun 10.
13. GOA data from the GO Consortium
14. Gourh P, etal., Arthritis Rheum. 2009 Dec;60(12):3794-806. doi: 10.1002/art.24958.
15. Hahn WH, etal., Cytokine. 2010 Apr;50(1):69-74. doi: 10.1016/j.cyto.2009.12.004. Epub 2010 Jan 4.
16. Holz A, etal., J Immunol. 1999 Nov 15;163(10):5374-82.
17. Hou S, etal., Arthritis Rheum. 2012 Dec;64(12):4104-13. doi: 10.1002/art.37708.
18. Hu K, etal., Hum Immunol. 2010 Jul;71(7):723-6. doi: 10.1016/j.humimm.2010.04.007. Epub 2010 May 14.
19. Jee Y, etal., J Neuroimmunol. 2001 Mar 1;114(1-2):40-7.
20. Joshita S, etal., Dis Markers. 2014;2014:727393. doi: 10.1155/2014/727393. Epub 2014 Feb 4.
21. Kawasaki A, etal., Arthritis Res Ther. 2008;10(5):R113. doi: 10.1186/ar2516. Epub 2008 Sep 19.
22. Kisseleva T, etal., Gene 2002 Feb 20;285(1-2):1-24.
23. Korman BD, etal., Genes Immun. 2008 Apr;9(3):267-70. doi: 10.1038/gene.2008.1. Epub 2008 Feb 14.
24. Kremer M, etal., Hepatology. 2006 Jul;44(1):216-27. doi: 10.1002/hep.21221.
25. Land KJ, etal., Endocrinology. 2006 Jan;147(1):111-9. Epub 2005 Sep 29.
26. Li CC, etal., Zhonghua Er Ke Za Zhi. 2007 Oct;45(10):727-31.
27. Li X, etal., Oncotarget. 2017 Apr 27;8(37):60933-60940. doi: 10.18632/oncotarget.17458. eCollection 2017 Sep 22.
28. Lu Y, etal., Immunol Res. 2015 Jun;62(2):146-52. doi: 10.1007/s12026-015-8645-1.
29. 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.
30. Matsukawa A, etal., J Exp Med. 2001 Mar 19;193(6):679-88.
31. Menke J, etal., Kidney Int. 2011 Feb;79(4):452-63. Epub 2010 Oct 27.
32. MGD data from the GO Consortium
33. Murray PJ J Immunol. 2007 Mar 1;178(5):2623-9.
34. Nebozhyn M, etal., Blood. 2006 Apr 15;107(8):3189-96. Epub 2006 Jan 10.
35. Oghumu S, etal., Eur J Immunol. 2014 Feb;44(2):450-9. doi: 10.1002/eji.201343477. Epub 2013 Nov 15.
36. OMIM Disease Annotation Pipeline
37. Palomino-Morales RJ, etal., J Rheumatol. 2010 May;37(5):1016-9. doi: 10.3899/jrheum.091007. Epub 2010 Apr 1.
38. Pei H, etal., Am J Physiol Endocrinol Metab. 2006 Jan;290(1):E92-E102. Epub 2005 Aug 23.
39. Piotrowski P, etal., Mol Biol Rep. 2012 Sep;39(9):8861-6. doi: 10.1007/s11033-012-1752-3. Epub 2012 Jun 24.
40. Pipeline to import KEGG annotations from KEGG into RGD
41. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
42. RGD automated data pipeline
43. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
44. RGD automated import pipeline for gene-chemical interactions
45. RGD comprehensive gene curation
46. Robinson K, etal., J Am Coll Surg. 2006 May;202(5):788-96.
47. Ronis MJ, etal., Exp Biol Med (Maywood). 2008 Mar;233(3):344-55. doi: 10.3181/0707-RM-203.
48. Rueda B, etal., Hum Mol Genet. 2009 Jun 1;18(11):2071-7. doi: 10.1093/hmg/ddp119. Epub 2009 Mar 13.
49. Sanchez E, etal., Ann Rheum Dis. 2011 Jun 30.
50. Sharma S, etal., Pediatr Allergy Immunol. 2012 Jun;23(4):315-23. doi: 10.1111/j.1399-3038.2011.01243.x. Epub 2011 Dec 23.
51. Stamm LM, etal., Eur J Immunol. 1999 Aug;29(8):2524-9.
52. Sugiura T, etal., Ann Rheum Dis. 2012 Oct;71(10):1646-50. doi: 10.1136/annrheumdis-2011-200839. Epub 2012 Mar 8.
53. Sugiura T, etal., PLoS One. 2014 Mar 14;9(3):e90019. doi: 10.1371/journal.pone.0090019. eCollection 2014.
54. Svensson A, etal., J Virol. 2012 Sep;86(17):9409-15. doi: 10.1128/JVI.00947-12. Epub 2012 Jun 20.
55. Taylor KE, etal., PLoS Genet. 2008 May 30;4(5):e1000084. doi: 10.1371/journal.pgen.1000084.
56. Vuong MT, etal., PLoS One. 2010 May 10;5(5):e10559. doi: 10.1371/journal.pone.0010559.
57. Wang C and Li Z, Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi. 2013 Dec;29(12):1233-6.
58. Wang Y, etal., Am J Pathol. 2014 Jun;184(6):1785-94. doi: 10.1016/j.ajpath.2014.02.023. Epub 2014 Apr 13.
59. Yang H, etal., Transpl Immunol. 2011 May;24(4):216-9. doi: 10.1016/j.trim.2011.01.001. Epub 2011 Jan 13.
60. Yi L, etal., Int J Immunopathol Pharmacol. 2013 Apr-Jun;26(2):473-8.
61. You Q, etal., Biochem Pharmacol. 2013 Sep 15;86(6):836-43. doi: 10.1016/j.bcp.2013.07.006. Epub 2013 Jul 19.
62. Zervou MI, etal., Hum Immunol. 2009 Sep;70(9):738-41. doi: 10.1016/j.humimm.2009.05.008. Epub 2009 Jun 17.
63. Zheng L and Zhou H, Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi. 2017 Apr;33(4):521-525.
Additional References at PubMed
PMID:11489994   PMID:11894097   PMID:12213961   PMID:12372421   PMID:12477932   PMID:18591661   PMID:19666510   PMID:20399120   PMID:20861313   PMID:22851706   PMID:23772023   PMID:30848408  


Genomics

Comparative Map Data
Stat4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0954,340,649 - 54,457,753 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl954,287,541 - 54,484,533 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0954,051,154 - 54,167,491 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4946,510,251 - 46,650,076 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1946,511,665 - 46,651,490 (-)NCBI
Celera947,135,713 - 47,243,684 (-)NCBICelera
Cytogenetic Map9q22NCBI
STAT4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2191,029,576 - 191,151,596 (-)EnsemblGRCh38hg38GRCh38
GRCh382191,029,576 - 191,172,684 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372191,894,302 - 192,037,404 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362191,602,551 - 191,724,170 (-)NCBINCBI36hg18NCBI36
Build 342191,719,811 - 191,841,431NCBI
Celera2185,488,908 - 185,610,548 (-)NCBI
Cytogenetic Map2q32.2-q32.3NCBI
HuRef2183,753,956 - 183,875,743 (-)NCBIHuRef
CHM1_12191,900,128 - 192,022,113 (-)NCBICHM1_1
Stat4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39152,026,265 - 52,146,348 (+)NCBI
GRCm38151,987,106 - 52,107,189 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl151,987,148 - 52,107,189 (+)EnsemblGRCm38mm10GRCm38
MGSCv37152,065,088 - 52,164,028 (+)NCBIGRCm37mm9NCBIm37
MGSCv36151,952,789 - 52,051,729 (+)NCBImm8
Celera152,546,764 - 52,645,629 (+)NCBICelera
Cytogenetic Map1C1.1NCBI
cM Map126.67NCBI
Stat4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554038,061,471 - 8,144,276 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554038,061,471 - 8,144,252 (+)NCBIChiLan1.0ChiLan1.0
STAT4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B196,247,617 - 196,394,154 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B196,247,881 - 196,366,011 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B78,331,402 - 78,549,231 (-)NCBI
STAT4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl371,566,585 - 1,829,894 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1371,566,563 - 1,685,378 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Stat4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365067,091,982 - 7,185,938 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
STAT4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1595,653,861 - 95,763,448 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11595,656,206 - 95,764,099 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215106,914,582 - 106,960,243 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Sscrofa10.215107,069,138 - 107,073,997 (-)NCBISscrofa10.2Sscrofa10.2susScr3
STAT4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl1076,553,606 - 76,674,928 (-)Ensembl
ChlSab1.11076,553,626 - 76,708,540 (-)NCBI
Stat4
(Heterocephalus glaber - naked mole-rat)
No map positions available.


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:82
Count of miRNA genes:66
Interacting mature miRNAs:72
Transcripts:ENSRNOT00000020032
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


Sequence


Reference Sequences
RefSeq Acc Id: NM_001012226   ⟹   NP_001012226
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0954,340,649 - 54,457,753 (-)NCBI
Rnor_5.0954,051,154 - 54,167,491 (-)NCBI
RGSC_v3.4946,510,251 - 46,650,076 (-)RGD
Celera947,135,713 - 47,243,684 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001012226 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC12758 (Get FASTA)   NCBI Sequence Viewer  
  AAH81938 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001012226   ⟸   NM_001012226
- UniProtKB: Q66HB2 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
SH2   STAT_int

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)
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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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/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)
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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
LN/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
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
MHS/Gib (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
MNS/Gib (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
MR/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
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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)
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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
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (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)
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
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)
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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)
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:1305747 AgrOrtholog
Ensembl Genes ENSRNOG00000014079 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020032 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070183 UniProtKB/TrEMBL
  ENSRNOP00000070268 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020032 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000080522 UniProtKB/TrEMBL
  ENSRNOT00000083514 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:7115387 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
  STAT4 UniProtKB/TrEMBL
  STAT4_SH2 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:367264 UniProtKB/TrEMBL
MGC_CLONE MGC:93993 IMAGE-MGC_LOAD
NCBI Gene 367264 ENTREZGENE
PANTHER PTHR11801:SF19 UniProtKB/TrEMBL
  STAT UniProtKB/TrEMBL
Pfam SH2 UniProtKB/TrEMBL
  STAT1_TAZ2bind UniProtKB/TrEMBL
  STAT_alpha UniProtKB/TrEMBL
  STAT_bind UniProtKB/TrEMBL
  STAT_int UniProtKB/TrEMBL
PhenoGen Stat4 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
UniGene Rn.137580 ENTREZGENE
UniProt A0A0G2JX93_RAT UniProtKB/TrEMBL
  O70428_RAT UniProtKB/TrEMBL
  Q66HB2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Stat4  signal transducer and activator of transcription 4  Stat4_predicted  signal transducer and activator of transcription 4 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Stat4_predicted  signal transducer and activator of transcription 4 (predicted)      Symbol and Name status set to approved 70820 APPROVED

 



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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.