Hnf4a (hepatocyte nuclear factor 4, alpha) - Rat Genome Database

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Gene: Hnf4a (hepatocyte nuclear factor 4, alpha) Rattus norvegicus
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Symbol: Hnf4a
Name: hepatocyte nuclear factor 4, alpha
RGD ID: 2810
Description: Enables several functions, including DNA-binding transcription activator activity, RNA polymerase II-specific; anion binding activity; and long-chain fatty acyl-CoA hydrolase activity. Involved in several processes, including hepatocyte differentiation; negative regulation of protein import into nucleus; and positive regulation of biosynthetic process. Located in nucleus. Biomarker of hepatocellular carcinoma and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in Fanconi renotubular syndrome 4; familial combined hyperlipidemia; hypoglycemia; maturity-onset diabetes of the young type 1; and type 2 diabetes mellitus. Orthologous to human HNF4A (hepatocyte nuclear factor 4 alpha); PARTICIPATES IN forkhead class A signaling pathway; hypoxia inducible factor pathway; maturity-onset diabetes of the young pathway; INTERACTS WITH 17beta-estradiol; 2,2',4,4',5,5'-hexachlorobiphenyl; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: alpha transcription factor 4; hepatic nuclear factor 4; hepatic nuclear factor 4 (alpha transcription factor 4); hepatic nuclear factor 4, alpha; hepatocyte nuclear factor 4 alpha 3; hepatocyte nuclear factor 4 alpha 9; hepatocyte nuclear factor 4-alpha; HNF-4-alpha; Hnf4; Hnf4alpha; HNF4alpha10; HNF4alpha11; HNF4alpha12; nuclear receptor subfamily 2 group A member 1; TCF-14; Tcf4; transcription factor 14; transcription factor HNF-4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Candidate Gene For: Niddm39 Eau4
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83172,606,220 - 172,667,758 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3172,606,220 - 172,667,758 (+)EnsemblGRCr8
mRatBN7.23152,186,787 - 152,248,320 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3152,186,787 - 152,248,320 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3155,994,276 - 156,055,801 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03164,493,207 - 164,554,741 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03162,237,152 - 162,298,687 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03159,902,441 - 159,965,003 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3159,902,441 - 159,965,003 (+)Ensemblrn6Rnor6.0
Rnor_5.03166,093,091 - 166,155,667 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43154,459,863 - 154,482,825 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3150,839,856 - 150,901,426 (+)NCBICelera
RGSC_v3.13154,365,898 - 154,388,861 (+)NCBI
RH 3.4 Map31376.5RGD
Cytogenetic Map3q42NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
3',5'-cyclic AMP  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3,4,4,5,5,6,6,7,7,8,8,9,9,10,10,10-heptadecafluoro-1-decanol  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-azacytidine  (ISO)
5-fluorouracil  (ISO)
6-(4-chlorophenyl)imidazo[2,1-b][1,3]thiazole-5-carbaldehyde O-(3,4-dichlorobenzyl)oxime  (ISO)
9-cis-retinoic acid  (EXP)
acrylamide  (EXP,ISO)
aflatoxin B1  (ISO)
AICA ribonucleotide  (ISO)
aldehydo-D-glucose  (ISO)
Alisol B  (ISO)
all-trans-retinoic acid  (EXP,ISO)
allyl isothiocyanate  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
androstane  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
Aroclor 1254  (EXP)
atorvastatin calcium  (EXP)
Azoxymethane  (ISO)
baicalin  (ISO)
benzene  (EXP)
benzo[a]pyrene  (ISO)
berberine  (EXP,ISO)
beta-lapachone  (ISO)
beta-naphthoflavone  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bosentan  (ISO)
bromobenzene  (EXP)
buta-1,3-diene  (ISO)
butanal  (ISO)
C60 fullerene  (EXP)
cadmium dichloride  (ISO)
calcitriol  (ISO)
calcium atom  (EXP)
calcium(0)  (EXP)
cerulenin  (ISO)
CGP 52608  (ISO)
cholesterol  (EXP)
cholic acid  (EXP)
choline  (EXP,ISO)
chrysin  (ISO)
clofibrate  (ISO)
clothianidin  (ISO)
cobalt dichloride  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
cyclosporin A  (ISO)
cylindrospermopsin  (ISO)
D-glucose  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (EXP,ISO)
dextran sulfate  (ISO)
diallyl trisulfide  (ISO)
diclofenac  (EXP)
dicrotophos  (ISO)
dimethyl sulfoxide  (ISO)
DPDPE  (ISO)
emodin  (EXP,ISO)
epoxiconazole  (ISO)
estriol  (ISO)
ethanol  (ISO)
flutamide  (EXP)
folic acid  (ISO)
fonofos  (ISO)
fructose  (EXP,ISO)
fulvestrant  (ISO)
furan  (EXP)
gamma-hexachlorocyclohexane  (EXP)
glucose  (ISO)
glutathione  (EXP)
GW 4064  (ISO)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
inulin  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (EXP,ISO)
lead nitrate  (ISO)
lipopolysaccharide  (EXP,ISO)
lithocholic acid  (EXP,ISO)
metformin  (EXP,ISO)
methapyrilene  (EXP,ISO)
methidathion  (ISO)
methimazole  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
microcystin-LR  (ISO)
mifepristone  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N1'-[2-[[5-[(dimethylamino)methyl]-2-furanyl]methylthio]ethyl]-N1-methyl-2-nitroethene-1,1-diamine  (EXP)
nitrofen  (EXP)
Nonylphenol  (ISO)
obeticholic acid  (EXP,ISO)
ochratoxin A  (EXP,ISO)
okadaic acid  (ISO)
oleic acid  (EXP,ISO)
ozone  (EXP)
palmitoyl-CoA  (ISO)
paracetamol  (EXP,ISO)
parathion  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanesulfonamide  (ISO)
perfluorooctanoic acid  (ISO)
Pf-06840003  (ISO)
phenobarbital  (EXP)
pirinixic acid  (EXP,ISO)
potassium bromate  (ISO)
potassium dichromate  (ISO)
prednisone  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP,ISO)
proanthocyanidin  (EXP)
procymidone  (EXP)
progesterone  (ISO)
propanal  (ISO)
quercitrin  (ISO)
raloxifene  (ISO)
ranitidine  (EXP)
resveratrol  (EXP)
rifampicin  (ISO)
rimonabant  (ISO)
rosuvastatin calcium  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
Sophocarpine  (EXP)
streptozocin  (ISO)
sulindac  (EXP)
tamoxifen  (ISO)
taurocholic acid  (ISO)
terbufos  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
tetracycline  (EXP,ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
Tributyltin oxide  (ISO)
trichlorfon  (ISO)
trichloroethene  (EXP)
triclosan  (ISO)
triptonide  (ISO)
troglitazone  (EXP)
uranium atom  (EXP)
urethane  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
zearalenone  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
acyl-CoA metabolic process  (IDA)
blood coagulation  (IEA,ISO)
cell differentiation  (IBA,IMP)
cell-cell junction organization  (IDA)
cellular response to hypoxia  (IEP)
cholesterol homeostasis  (IEA,ISO)
establishment of tissue polarity  (IDA)
gene expression  (ISO)
glucose homeostasis  (IEA,ISO)
hepatocyte differentiation  (IEP)
intracellular receptor signaling pathway  (IEA)
lipid homeostasis  (IEA,ISO)
lipid metabolic process  (ISO)
negative regulation of cell growth  (IEA,ISO)
negative regulation of cell migration  (IDA)
negative regulation of cell population proliferation  (IDA,IEA,ISO)
negative regulation of DNA-templated transcription  (IEA,ISO,ISS)
negative regulation of mitotic cell cycle  (IDA)
negative regulation of protein import into nucleus  (IDA)
negative regulation of protein tyrosine kinase activity  (IDA)
nuclear receptor-mediated steroid hormone signaling pathway  (IEA)
phospholipid homeostasis  (IEA,ISO)
positive regulation of DNA-templated transcription  (IEA,ISO)
positive regulation of fatty acid biosynthetic process  (IMP)
positive regulation of gene expression  (IGI,IMP)
positive regulation of gluconeogenesis  (IDA,IMP)
positive regulation of transcription by RNA polymerase II  (IBA,IDA,IEA,IMP,ISO)
regulation of circadian rhythm  (IEA,ISO,ISS)
regulation of DNA-templated transcription  (IEA,ISO)
regulation of gastrulation  (ISO)
regulation of insulin secretion  (IEA,ISO)
regulation of lipid metabolic process  (IEA,ISO)
regulation of microvillus assembly  (IMP)
regulation of ornithine metabolic process  (IEA,ISO)
regulation of transcription by RNA polymerase II  (IEA,ISO)
response to cAMP  (IEP)
response to dexamethasone  (IEP)
response to glucose  (IDA,IEA,ISO)
response to lipopolysaccharide  (IEP)
response to nutrient levels  (IEP)
response to trichostatin A  (IDA)
response to xenobiotic stimulus  (IEP)
rhythmic process  (IEA)
sex differentiation  (ISO)
signal transduction involved in regulation of gene expression  (ISO)
triglyceride homeostasis  (IEA,ISO)
xenobiotic metabolic process  (ISO)

Cellular Component
cytoplasm  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IDA,IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Hepatocyte nuclear factor-4alpha contributes to carbohydrate-induced transcriptional activation of hepatic fatty acid synthase. Adamson AW, etal., Biochem J. 2006 Oct 15;399(2):285-95.
2. Functional characterization of hepatocyte nuclear factor-4 alpha dimerization interface mutants. Aggelidou E, etal., FEBS J. 2006 May;273(9):1948-58.
3. Population-specific risk of type 2 diabetes conferred by HNF4A P2 promoter variants: a lesson for replication studies. Barroso I, etal., Diabetes. 2008 Nov;57(11):3161-5. Epub 2008 Aug 26.
4. Phenobarbital regulates nuclear expression of HNF-4alpha in mouse and rat hepatocytes independent of CAR and PXR. Bell AW and Michalopoulos GK, Hepatology. 2006 Jul;44(1):186-94.
5. HNF4alpha and HNF1alpha dysfunction as a molecular rational for cyclosporine induced posttransplantation diabetes mellitus. Borlak J and Niehof M, PLoS One. 2009;4(3):e4662. doi: 10.1371/journal.pone.0004662. Epub 2009 Mar 2.
6. Hepatocyte nuclear factor (HNF)-4alpha triggers formation of functional tight junctions and establishment of polarized epithelial morphology in F9 embryonal carcinoma cells. Chiba H, etal., Exp Cell Res. 2003 Jun 10;286(2):288-97.
7. Activation of p21CIP1/WAF1 gene expression and inhibition of cell proliferation by overexpression of hepatocyte nuclear factor-4alpha. Chiba H, etal., Exp Cell Res. 2005 Jan 1;302(1):11-21.
8. The nuclear receptor hepatocyte nuclear factor 4alpha acts as a morphogen to induce the formation of microvilli. Chiba H, etal., J Cell Biol. 2006 Dec 18;175(6):971-80.
9. Fasting induces basolateral uptake transporters of the SLC family in the liver via HNF4alpha and PGC1alpha. Dietrich CG, etal., Am J Physiol Gastrointest Liver Physiol. 2007 Sep;293(3):G585-90. Epub 2007 Jul 19.
10. Cytosine methylation dysregulation in neonates following intrauterine growth restriction. Einstein F, etal., PLoS One. 2010 Jan 26;5(1):e8887. doi: 10.1371/journal.pone.0008887.
11. Diazoxide-responsive hyperinsulinemic hypoglycemia caused by HNF4A gene mutations. Flanagan SE, etal., Eur J Endocrinol. 2010 May;162(5):987-92. doi: 10.1530/EJE-09-0861. Epub 2010 Feb 17.
12. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
13. Transcriptional regulation of the glucose-6-phosphatase gene by cAMP/vasoactive intestinal peptide in the intestine. Role of HNF4alpha, CREM, HNF1alpha, and C/EBPalpha. Gautier-Stein A, etal., J Biol Chem. 2006 Oct 20;281(42):31268-78. Epub 2006 Aug 7.
14. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
15. Hepatocyte nuclear factor-4alpha mediates redox sensitivity of inducible nitric-oxide synthase gene transcription. Guo H, etal., J Biol Chem 2002 Feb 15;277(7):5054-60.
16. A novel isoform of rat hepatocyte nuclear factor 4 (HNF-4). Hata S, etal., Biochim Biophys Acta 1992 Jun 15;1131(2):211-3.
17. Thioesterase activity and acyl-CoA/fatty acid cross-talk of hepatocyte nuclear factor-4{alpha}. Hertz R, etal., J Biol Chem. 2005 Jul 1;280(26):24451-61. Epub 2005 May 3.
18. Common variants in maturity-onset diabetes of the young genes and future risk of type 2 diabetes. Holmkvist J, etal., Diabetes. 2008 Jun;57(6):1738-44. Epub 2008 Mar 10.
19. [Expression of hepatocyte-enriched transcriptional factors during the differentiation of bone marrow mesenchymal stem cell-derived hepatocytes]. Jin Y, etal., Zhongguo Yi Xue Ke Xue Yuan Xue Bao. 2009 Jun;31(3):330-4.
20. Persistent hyperinsulinemic hypoglycemia and maturity-onset diabetes of the young due to heterozygous HNF4A mutations. Kapoor RR, etal., Diabetes. 2008 Jun;57(6):1659-63. Epub 2008 Feb 11.
21. Hepatocyte nuclear factor-4alpha and -1 small interfering RNA inhibits hepatocyte differentiation induced by extracellular matrix. Kimata T, etal., Hepatol Res. 2006 May;35(1):3-9. Epub 2006 Mar 24.
22. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
23. The coactivator PGC-1 is involved in the regulation of the liver carnitine palmitoyltransferase I gene expression by cAMP in combination with HNF4 alpha and cAMP-response element-binding protein (CREB). Louet JF, etal., J Biol Chem 2002 Oct 11;277(41):37991-8000.
24. Polyamines modulate the interaction between nuclear receptors and vitamin D receptor-interacting protein 205. Maeda Y, etal., Mol Endocrinol. 2002 Jul;16(7):1502-10. doi: 10.1210/mend.16.7.0883.
25. Association of stearoyl-CoA desaturase 1 activity with familial combined hyperlipidemia. Mar-Heyming R, etal., Arterioscler Thromb Vasc Biol. 2008 Jun;28(6):1193-9. doi: 10.1161/ATVBAHA.107.160150. Epub 2008 Mar 13.
26. Liver-type fatty acid binding protein interacts with hepatocyte nuclear factor 4alpha. McIntosh AL, etal., FEBS Lett. 2013 Nov 29;587(23):3787-91. doi: 10.1016/j.febslet.2013.09.043. Epub 2013 Oct 15.
27. High frequency of T130I mutation of HNF4A gene in Mexican patients with early-onset type 2 diabetes. Menjivar M, etal., Clin Genet. 2008 Feb;73(2):185-7. Epub 2007 Nov 19.
28. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
29. Analysis of gene expression profile induced by hepatocyte nuclear factor 4alpha in hepatoma cells using an oligonucleotide microarray. Naiki T, etal., J Biol Chem 2002 Apr 19;277(16):14011-9. Epub 2002 Feb 7.
30. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
31. DAX-1 acts as a novel corepressor of orphan nuclear receptor HNF4alpha and negatively regulates gluconeogenic enzyme gene expression. Nedumaran B, etal., J Biol Chem. 2009 Oct 2;284(40):27511-23. doi: 10.1074/jbc.M109.034660. Epub 2009 Aug 3.
32. Expression of CYP3A23/1, CYP3A2, PXR, CAR and HNF4alpha in large-for-gestational-age neonatal rats. Ni S, etal., Pharmazie. 2009 Apr;64(4):252-7.
33. HNF4 alpha and the Ca-channel TRPC1 are novel disease candidate genes in diabetic nephropathy. Niehof M and Borlak J, Diabetes. 2008 Apr;57(4):1069-77. Epub 2008 Jan 9.
34. Hepatocyte nuclear factor 4 alpha suppresses the development of hepatocellular carcinoma. Ning BF, etal., Cancer Res. 2010 Oct 1;70(19):7640-51. doi: 10.1158/0008-5472.CAN-10-0824. Epub 2010 Sep 28.
35. Prenatal programming of hepatocyte nuclear factor 4alpha in the rat: A key mechanism in the 'foetal origins of hyperglycaemia'? Nyirenda MJ, etal., Diabetologia. 2006 Jun;49(6):1412-20. Epub 2006 Mar 29.
36. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
37. Hepatocyte nuclear factor (HNF)-4alpha induces expression of endothelial Fas ligand (FasL) to prevent cancer cell transmigration: a novel defense mechanism of endothelium against cancer metastasis. Osanai M, etal., Jpn J Cancer Res. 2002 May;93(5):532-41.
38. HNF4alpha contributes to glucose formation in aged rat hepatocytes. Park EY, etal., Exp Gerontol. 2013 Dec;48(12):1518-25. doi: 10.1016/j.exger.2013.10.011. Epub 2013 Oct 29.
39. Signalling cross-talk between hepatocyte nuclear factor 4alpha and growth-hormone-activated STAT5b. Park SH, etal., Biochem J. 2006 Jul 1;397(1):159-68.
40. Macrosomia and hyperinsulinaemic hypoglycaemia in patients with heterozygous mutations in the HNF4A gene. Pearson ER, etal., PLoS Med. 2007 Apr;4(4):e118.
41. Ligand specificity and conformational dependence of the hepatic nuclear factor-4alpha (HNF-4alpha ). Petrescu AD, etal., J Biol Chem 2002 Jul 5;277(27):23988-99.
42. Physical and functional interaction of Acyl-CoA-binding protein with hepatocyte nuclear factor-4 alpha. Petrescu AD, etal., J Biol Chem. 2003 Dec 19;278(51):51813-24. Epub 2003 Oct 6.
43. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
44. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
45. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
46. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
47. Proteomics profiling of nuclear proteins for kidney fibroblasts suggests hypoxia, meiosis, and cancer may meet in the nucleus. Shakib K, etal., Proteomics. 2005 Jul;5(11):2819-38.
48. Liver-enriched transcription factor HNF-4 is a novel member of the steroid hormone receptor superfamily. Sladek FM, etal., Genes Dev 1990 Dec;4(12B):2353-65.
49. Localization of 54 rat genes, and definition of new synteny groups conserved in the human and the rat. Szpirer C, etal., Mamm Genome 2000 Sep;11(9):729-35
50. Developmentally regulated N-terminal variants of the nuclear receptor hepatocyte nuclear factor 4alpha mediate multiple interactions through coactivator and corepressor-histone deacetylase complexes. Torres-Padilla ME, etal., J Biol Chem. 2002 Nov 22;277(47):44677-87. doi: 10.1074/jbc.M207545200. Epub 2002 Aug 29.
51. Lipopolysaccharide results in a marked decrease in hepatocyte nuclear factor 4 alpha in rat liver. Wang B, etal., Hepatology. 2001 Nov;34(5):979-89.
52. Integrated microarray analysis provided novel insights to the pathogenesis of glaucoma. Wang J, etal., Mol Med Rep. 2017 Dec;16(6):8735-8746. doi: 10.3892/mmr.2017.7711. Epub 2017 Oct 4.
53. Hepatocyte nuclear factor-4alpha interacts with other hepatocyte nuclear factors in regulating transthyretin gene expression. Wang Z and Burke PA, FEBS J. 2010 Oct;277(19):4066-75. doi: 10.1111/j.1742-4658.2010.07802.x. Epub 2010 Aug 23.
54. Common hepatic nuclear factor-4alpha variants are associated with high serum lipid levels and the metabolic syndrome. Weissglas-Volkov D, etal., Diabetes. 2006 Jul;55(7):1970-7.
55. Down-regulation of hepatic HNF4alpha gene expression during hyperinsulinemia via SREBPs. Xie X, etal., Mol Endocrinol. 2009 Apr;23(4):434-43. doi: 10.1210/me.2007-0531. Epub 2009 Jan 29.
56. Mutations in the hepatocyte nuclear factor-4alpha gene in maturity-onset diabetes of the young (MODY1) Yamagata K, etal., Nature. 1996 Dec 5;384(6608):458-60.
57. On the mechanism of bile acid inhibition of rat sterol 12alpha-hydroxylase gene (CYP8B1) transcription: roles of alpha-fetoprotein transcription factor and hepatocyte nuclear factor 4alpha. Yang Y, etal., Biochim Biophys Acta 2002 Jun 13;1583(1):63-73.
Additional References at PubMed
PMID:7615825   PMID:7958910   PMID:8306889   PMID:9053305   PMID:9234678   PMID:9408084   PMID:9420335   PMID:9421506   PMID:9795230   PMID:10330009   PMID:10551874   PMID:10859308  
PMID:11158324   PMID:11950391   PMID:12193589   PMID:12220494   PMID:12650919   PMID:12911579   PMID:12915406   PMID:14563941   PMID:15014077   PMID:15253383   PMID:15574752   PMID:15581617  
PMID:15741159   PMID:15761495   PMID:15767668   PMID:16087161   PMID:16488887   PMID:16498401   PMID:16527247   PMID:16537911   PMID:16639723   PMID:16912278   PMID:17021047   PMID:17412818  
PMID:17603092   PMID:17636037   PMID:17827783   PMID:17932483   PMID:18163890   PMID:18462699   PMID:18561282   PMID:18563319   PMID:18972406   PMID:19353766   PMID:19387659   PMID:19389810  
PMID:19406844   PMID:19575803   PMID:19699314   PMID:19924231   PMID:20938723   PMID:21385945   PMID:22521344   PMID:22589549   PMID:22780989   PMID:23126616   PMID:24157454   PMID:24234421  
PMID:24752868   PMID:28536011   PMID:28807057   PMID:28870599   PMID:29330688   PMID:30530698   PMID:30555544   PMID:30597922   PMID:31637472   PMID:32365562   PMID:33260590   PMID:34196449  
PMID:35879917   PMID:36988559   PMID:37338793   PMID:37528786   PMID:37993018  


Genomics

Comparative Map Data
Hnf4a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83172,606,220 - 172,667,758 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3172,606,220 - 172,667,758 (+)EnsemblGRCr8
mRatBN7.23152,186,787 - 152,248,320 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3152,186,787 - 152,248,320 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3155,994,276 - 156,055,801 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03164,493,207 - 164,554,741 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03162,237,152 - 162,298,687 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03159,902,441 - 159,965,003 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3159,902,441 - 159,965,003 (+)Ensemblrn6Rnor6.0
Rnor_5.03166,093,091 - 166,155,667 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43154,459,863 - 154,482,825 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3150,839,856 - 150,901,426 (+)NCBICelera
RGSC_v3.13154,365,898 - 154,388,861 (+)NCBI
RH 3.4 Map31376.5RGD
Cytogenetic Map3q42NCBI
HNF4A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382044,355,699 - 44,434,596 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2044,355,699 - 44,432,845 (+)Ensemblhg38GRCh38
GRCh372042,984,339 - 43,063,236 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362042,417,855 - 42,493,444 (+)NCBIBuild 36Build 36hg18NCBI36
Build 342042,463,337 - 42,486,690NCBI
Celera2039,693,092 - 39,768,681 (+)NCBICelera
Cytogenetic Map20q13.12NCBI
HuRef2039,720,990 - 39,802,805 (+)NCBIHuRef
CHM1_12042,886,684 - 42,964,390 (+)NCBICHM1_1
T2T-CHM13v2.02046,090,439 - 46,170,188 (+)NCBIT2T-CHM13v2.0
Hnf4a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392163,348,731 - 163,414,827 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2163,348,728 - 163,414,830 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm382163,506,811 - 163,572,907 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2163,506,808 - 163,572,910 (+)Ensemblmm10GRCm38
MGSCv372163,372,924 - 163,398,643 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv362163,238,629 - 163,264,348 (+)NCBIMGSCv36mm8
Celera2169,490,574 - 169,516,277 (+)NCBICelera
Cytogenetic Map2H3NCBI
cM Map284.32NCBI
Hnf4a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544512,924,662 - 12,984,281 (-)Ensembl
ChiLan1.0NW_00495544512,925,248 - 12,962,501 (-)NCBIChiLan1.0ChiLan1.0
HNF4A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22150,086,788 - 50,166,233 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12050,079,892 - 50,159,336 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02040,684,450 - 40,763,824 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12041,823,939 - 41,856,536 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2041,779,034 - 41,856,536 (+)EnsemblpanPan2panpan1.1
HNF4A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12431,847,864 - 31,908,337 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2431,847,961 - 31,905,916 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2431,489,547 - 31,550,077 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02432,554,576 - 32,615,122 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2432,536,281 - 32,612,159 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12431,817,381 - 31,877,879 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02431,930,338 - 31,991,205 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02432,472,512 - 32,533,044 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Hnf4a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640180,851,597 - 180,905,201 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365302,401,043 - 2,454,466 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365302,401,053 - 2,425,989 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HNF4A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1746,783,777 - 46,847,500 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11746,783,772 - 46,847,505 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21752,232,425 - 52,296,703 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HNF4A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1219,390,870 - 19,466,300 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl219,388,891 - 19,421,664 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605068,060,334 - 68,135,869 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hnf4a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462479010,038,999 - 10,100,649 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462479010,039,344 - 10,065,167 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Hnf4a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v15154,392,343 - 154,428,370 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:110
Count of miRNA genes:93
Interacting mature miRNAs:99
Transcripts:ENSRNOT00000011978
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3141555229186555229Rat
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141555229186555229Rat
1582233Insul10Insulin level QTL 105.40.0015blood insulin amount (VT:0001560)serum insulin level times blood glucose level (CMO:0002040)3133259579178259579Rat
1300113Bp176Blood pressure QTL 1763.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3166376089177728348Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3141555229186555229Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3141555229186555229Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3151075912189428310Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)3129154923182114333Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3141555229186555229Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3141555229186555229Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3161492708189428310Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)351581665184004958Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3166376089189428310Rat
61335Bp20Blood pressure QTL 203arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3161799493176036425Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3133134628178134628Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3161799270187311134Rat
1582213Insul6Insulin level QTL 63.70.0009blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
1598854Memor10Memory QTL 102exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)3166376089189428310Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3152055202189428310Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3142898802187898802Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)379649560177741895Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)3145335553189428310Rat
1582256Insul9Insulin level QTL 94.40.0016blood insulin amount (VT:0001560)absolute change in serum insulin level (CMO:0002038)3155759447189428310Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3139299381184299381Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3141508991177728348Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)3131036586176036586Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3137114333182114333Rat
1582248Insul7Insulin level QTL 73.90.0041blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)3131036586176036586Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3151075912189428310Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3151075912189428310Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3141555229186555229Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3144575244189428310Rat

Markers in Region
D3Rat244  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr83172,649,439 - 172,649,660 (+)Marker Load Pipeline
mRatBN7.23152,229,999 - 152,230,220 (+)MAPPERmRatBN7.2
Rnor_6.03159,944,461 - 159,944,681NCBIRnor6.0
Rnor_5.03166,135,125 - 166,135,345UniSTSRnor5.0
RGSC_v3.43154,467,337 - 154,467,558RGDRGSC3.4
RGSC_v3.43154,467,338 - 154,467,558UniSTSRGSC3.4
Celera3150,883,112 - 150,883,332UniSTS
RGSC_v3.13154,373,373 - 154,373,594RGD
SHRSP x BN Map375.4799UniSTS
SHRSP x BN Map375.4799RGD
Cytogenetic Map3q42-q43UniSTS
RH94783  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23152,245,623 - 152,245,819 (+)MAPPERmRatBN7.2
Rnor_6.03159,962,307 - 159,962,502NCBIRnor6.0
Rnor_5.03166,152,971 - 166,153,166UniSTSRnor5.0
RGSC_v3.43154,482,960 - 154,483,155UniSTSRGSC3.4
Celera3150,898,730 - 150,898,925UniSTS
RH 3.4 Map31376.5UniSTS
Cytogenetic Map3q42-q43UniSTS
PMC316400P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23152,239,640 - 152,239,743 (+)MAPPERmRatBN7.2
Rnor_6.03159,956,027 - 159,956,129NCBIRnor6.0
Rnor_5.03166,146,691 - 166,146,793UniSTSRnor5.0
RGSC_v3.43154,476,977 - 154,477,079UniSTSRGSC3.4
Celera3150,892,747 - 150,892,849UniSTS
Cytogenetic Map3q42-q43UniSTS
UniSTS:465392  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23152,226,700 - 152,226,794 (+)MAPPERmRatBN7.2
Rnor_6.03159,941,162 - 159,941,255NCBIRnor6.0
Rnor_5.03166,131,826 - 166,131,919UniSTSRnor5.0
RGSC_v3.43154,464,039 - 154,464,132UniSTSRGSC3.4
Celera3150,879,813 - 150,879,906UniSTS
Cytogenetic Map3q42-q43UniSTS
Hnf4a  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23152,244,260 - 152,245,448 (+)MAPPERmRatBN7.2
Rnor_6.03159,960,944 - 159,962,131NCBIRnor6.0
Rnor_5.03166,151,608 - 166,152,795UniSTSRnor5.0
RGSC_v3.43154,481,597 - 154,482,784UniSTSRGSC3.4
Celera3150,897,367 - 150,898,554UniSTS
Cytogenetic Map3q42-q43UniSTS
Hnf4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23152,226,681 - 152,227,868 (+)MAPPERmRatBN7.2
Rnor_6.03159,941,143 - 159,942,329NCBIRnor6.0
Rnor_5.03166,131,807 - 166,132,993UniSTSRnor5.0
RGSC_v3.43154,464,020 - 154,465,206UniSTSRGSC3.4
Celera3150,879,794 - 150,880,980UniSTS
Cytogenetic Map3q42-q43UniSTS
Hnf4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23152,226,681 - 152,227,868 (+)MAPPERmRatBN7.2
Rnor_6.03159,941,143 - 159,942,329NCBIRnor6.0
Rnor_5.03166,131,807 - 166,132,993UniSTSRnor5.0
RGSC_v3.43154,464,020 - 154,465,206UniSTSRGSC3.4
Celera3150,879,794 - 150,880,980UniSTS
Cytogenetic Map3q42-q43UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 9 26 82 91 89 59 57 59 6 272 108 5 58 81 87 30 3 3

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001270931 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001270933 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_022180 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235515 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235516 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF329936 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK483260 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D10554 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EF193390 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EF193392 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FJ608816 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FJ608817 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FJ608818 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FM042560 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ095211 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209887 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000011978   ⟹   ENSRNOP00000011978
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3172,606,303 - 172,661,094 (+)Ensembl
mRatBN7.2 Ensembl3152,186,870 - 152,241,656 (+)Ensembl
Rnor_6.0 Ensembl3159,902,524 - 159,958,042 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000078703   ⟹   ENSRNOP00000071432
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3172,641,829 - 172,667,753 (+)Ensembl
mRatBN7.2 Ensembl3152,222,399 - 152,248,320 (+)Ensembl
Rnor_6.0 Ensembl3159,936,856 - 159,965,003 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000089893   ⟹   ENSRNOP00000073501
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3172,606,220 - 172,667,758 (+)Ensembl
mRatBN7.2 Ensembl3152,186,787 - 152,248,320 (+)Ensembl
Rnor_6.0 Ensembl3159,902,441 - 159,965,003 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000106406   ⟹   ENSRNOP00000077807
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3172,645,644 - 172,667,758 (+)Ensembl
mRatBN7.2 Ensembl3152,226,204 - 152,248,320 (+)Ensembl
RefSeq Acc Id: NM_001270931   ⟹   NP_001257860
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83172,606,220 - 172,667,758 (+)NCBI
mRatBN7.23152,186,787 - 152,248,320 (+)NCBI
Rnor_6.03159,902,441 - 159,965,003 (+)NCBI
Rnor_5.03166,093,091 - 166,155,667 (+)NCBI
Celera3150,839,856 - 150,901,426 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001270933   ⟹   NP_001257862
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83172,606,220 - 172,667,758 (+)NCBI
mRatBN7.23152,186,787 - 152,248,320 (+)NCBI
Rnor_6.03159,902,441 - 159,965,003 (+)NCBI
Rnor_5.03166,093,091 - 166,155,667 (+)NCBI
Celera3150,839,856 - 150,901,426 (+)NCBI
Sequence:
RefSeq Acc Id: NM_022180   ⟹   NP_071516
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83172,641,836 - 172,667,758 (+)NCBI
mRatBN7.23152,222,399 - 152,248,320 (+)NCBI
Rnor_6.03159,936,856 - 159,965,003 (+)NCBI
Rnor_5.03166,093,091 - 166,155,667 (+)NCBI
RGSC_v3.43154,459,863 - 154,482,825 (+)RGD
Celera3150,875,385 - 150,901,426 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006235516   ⟹   XP_006235578
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83172,641,815 - 172,667,758 (+)NCBI
mRatBN7.23152,222,404 - 152,248,317 (+)NCBI
Rnor_6.03159,936,861 - 159,965,002 (+)NCBI
Rnor_5.03166,093,091 - 166,155,667 (+)NCBI
Sequence:
RefSeq Acc Id: NP_071516   ⟸   NM_022180
- Peptide Label: isoform 1
- UniProtKB: A0A0G2K0G1 (UniProtKB/TrEMBL),   A6JX37 (UniProtKB/TrEMBL),   A6JX36 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001257860   ⟸   NM_001270931
- Peptide Label: isoform 2
- UniProtKB: A0A0G2K5P1 (UniProtKB/TrEMBL),   A6JX36 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001257862   ⟸   NM_001270933
- Peptide Label: isoform 3
- UniProtKB: A6JX36 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235578   ⟸   XM_006235516
- Peptide Label: isoform X1
- UniProtKB: A6JX36 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000011978   ⟸   ENSRNOT00000011978
Ensembl Acc Id: ENSRNOP00000073501   ⟸   ENSRNOT00000089893
Ensembl Acc Id: ENSRNOP00000071432   ⟸   ENSRNOT00000078703
Ensembl Acc Id: ENSRNOP00000077807   ⟸   ENSRNOT00000106406
Protein Domains
NR LBD   Nuclear receptor

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P22449-F1-model_v2 AlphaFold P22449 1-474 view protein structure

Transcriptome

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

Promoters
RGD ID:13692636
Promoter ID:EPDNEW_R3159
Type:multiple initiation site
Name:Hnf4a_2
Description:hepatocyte nuclear factor 4, alpha
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R3160  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03159,902,445 - 159,902,505EPDNEW
RGD ID:13692637
Promoter ID:EPDNEW_R3160
Type:multiple initiation site
Name:Hnf4a_1
Description:hepatocyte nuclear factor 4, alpha
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R3159  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03159,936,847 - 159,936,907EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2810 AgrOrtholog
BioCyc Gene G2FUF-46904 BioCyc
Ensembl Genes ENSRNOG00000008895 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000078703 ENTREZGENE
  ENSRNOT00000089893 ENTREZGENE
Gene3D-CATH 1.10.565.10 UniProtKB/Swiss-Prot
  3.30.50.10 UniProtKB/Swiss-Prot
InterPro HNF4-like_DBD UniProtKB/Swiss-Prot
  HNF4_LBD UniProtKB/Swiss-Prot
  NHR-like_dom_sf UniProtKB/Swiss-Prot
  Nucl_hrmn_rcpt_lig-bd UniProtKB/Swiss-Prot
  Nuclear_hormone_rcpt_NR2 UniProtKB/Swiss-Prot
  Nuclear_hrmn_rcpt UniProtKB/Swiss-Prot
  Znf_hrmn_rcpt UniProtKB/Swiss-Prot
  Znf_NHR/GATA UniProtKB/Swiss-Prot
KEGG Report rno:25735 UniProtKB/Swiss-Prot
NCBI Gene 25735 ENTREZGENE
PANTHER NUCLEAR HORMONE RECEPTOR UniProtKB/Swiss-Prot
Pfam Hormone_recep UniProtKB/Swiss-Prot
  zf-C4 UniProtKB/Swiss-Prot
PhenoGen Hnf4a PhenoGen
PRINTS COUPTNFACTOR UniProtKB/Swiss-Prot
  STRDHORMONER UniProtKB/Swiss-Prot
  STROIDFINGER UniProtKB/Swiss-Prot
PROSITE NR_LBD UniProtKB/Swiss-Prot
  NUCLEAR_REC_DBD_1 UniProtKB/Swiss-Prot
  NUCLEAR_REC_DBD_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000008895 RatGTEx
SMART HOLI UniProtKB/Swiss-Prot
  ZnF_C4 UniProtKB/Swiss-Prot
Superfamily-SCOP Glucocorticoid receptor-like (DNA-binding domain) UniProtKB/Swiss-Prot
  SSF48508 UniProtKB/Swiss-Prot
UniProt A0A0G2K0G1 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K5P1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5Y9R8_RAT UniProtKB/TrEMBL
  A2ICG7_RAT UniProtKB/TrEMBL
  A6JX36 ENTREZGENE, UniProtKB/TrEMBL
  A6JX37 ENTREZGENE, UniProtKB/TrEMBL
  B9VVT2_RAT UniProtKB/TrEMBL
  B9VVT3_RAT UniProtKB/TrEMBL
  G3V750_RAT UniProtKB/TrEMBL
  HNF4A_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q925K8_RAT UniProtKB/TrEMBL
UniProt Secondary A2ICG9 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-24 Hnf4a  hepatocyte nuclear factor 4, alpha  Hnf4a  hepatic nuclear factor 4, alpha  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-15 Hnf4a  hepatic nuclear factor 4, alpha  Hnf4a  hepatocyte nuclear factor 4, alpha  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 Hnf4a  hepatocyte nuclear factor 4, alpha      Symbol and Name status set to approved 1299863 APPROVED
2004-07-29 Hnf4a  hepatocyte nuclear factor 4, alpha  Hnf4  hepatic nuclear factor 4  Data merged from RGD:69050 737654 PROVISIONAL
2003-04-09 Hnf4  hepatic nuclear factor 4    Hepatic nuclear factor 4  Name updated 629478 APPROVED
2002-11-06 Hnf4a  hepatocyte nuclear factor 4, alpha    Hepatic nuclear factor 4 (alpha transcription factor 4)  Name updated 625702 APPROVED
2002-06-10 Hnf4a  Hepatic nuclear factor 4 (alpha transcription factor 4)      Symbol and Name status set to approved 70586 APPROVED
2002-06-10 Hnf4  Hepatic nuclear factor 4      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in liver, small intestine, kidney, colon, pancreas, and testis 70641
gene_expression expressed in liver, small intestine, kidney, colon, pancreas, and testis 625581
gene_function homodimers bind to the iNOS promoter DR1 sequence, direct repeats of the hexamer AGGTCA separated by a single nucleotide 70641
gene_function homodimers bind to the iNOS promoter DR1 sequence, direct repeats of the hexamer AGGTCA separated by a single nucleotide 625581
gene_homology 40% amino acid sequence homology to retinoid X receptor 625581
gene_physical_interaction does not form heterodimers with other nuclear receptor and binds to direct repeat-1 DNA sequences as a homodimer 625581
gene_physical_interaction able to bind fatty and xenobiotic acyl-CoAs which results in conformational change 625581
gene_process mediates redox-sensitive iNOS promoter trans-activation by binding to the transcriptional coactivator PC4 in the presence of oxidative stress and interleukin-1 70641
gene_process mediates redox-sensitive iNOS promoter trans-activation by binding to the transcriptional coactivator PC4 in the presence of oxidative stress and interleukin-1 625581
gene_process promotes transcription 70641
gene_process promotes transcription 625581
gene_process important for development and liver-specific gene expression 70641
gene_process important for development and liver-specific gene expression 625581
gene_product member of the steroid hormone receptor superfamily 70641