Rxra (retinoid X receptor alpha) - Rat Genome Database

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Gene: Rxra (retinoid X receptor alpha) Rattus norvegicus
Analyze
Symbol: Rxra
Name: retinoid X receptor alpha
RGD ID: 3610
Description: Enables nuclear retinoic acid receptor binding activity; nuclear thyroid hormone receptor binding activity; and protein domain specific binding activity. Contributes to double-stranded DNA binding activity. Involved in several processes, including cellular response to insulin stimulus; response to vitamin A; and response to vitamin D. Located in axon. Biomarker of alcoholic cardiomyopathy and prostate carcinoma in situ. Human ortholog(s) of this gene implicated in pancreatic cancer. Orthologous to human RXRA (retinoid X receptor alpha); PARTICIPATES IN retinoic acid signaling pathway; bile acid transport pathway; eicosanoid signaling pathway via peroxisome proliferator-activated receptor gamma; INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: nuclear receptor subfamily 2 group B member 1; retinoic acid receptor RXR-alpha
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8331,387,892 - 31,474,415 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl331,388,223 - 31,474,417 (+)EnsemblGRCr8
mRatBN7.2310,989,832 - 11,076,366 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl310,989,832 - 11,073,712 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx314,057,333 - 14,141,119 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0322,642,768 - 22,726,554 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0320,896,722 - 20,980,500 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.036,272,560 - 6,295,354 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl36,211,789 - 6,295,908 (+)Ensemblrn6Rnor6.0
Rnor_5.0311,631,209 - 11,653,959 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.436,605,782 - 6,689,224 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera35,843,675 - 5,866,536 (+)NCBICelera
RGSC_v3.136,606,054 - 6,690,078 (+)NCBI
Cytogenetic Map3p12NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(-)-anisomycin  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(1->4)-beta-D-glucan  (ISO)
(4Z,7Z,10Z,13Z,16Z)-docosa-4,7,10,13,16-pentaenoic acid  (ISO)
(R,R,R)-alpha-tocopherol  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (ISO)
13-cis-retinal  (ISO)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17beta-estradiol  (EXP,ISO)
2,2-(2-Chlorophenyl-4'-chlorophenyl)-1,1-dichloroethene  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-[(2,4-dichlorophenyl)methyl]-4-(2,4,4-trimethylpentan-2-yl)phenol  (EXP)
2-bromohexadecanoic acid  (ISO)
2-hydroxyphytanic acid  (ISO)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,3',5,5'-tetraiodothyroacetic acid  (ISO)
3-[3-(tert-butylsulfanyl)-1-(4-chlorobenzyl)-5-(propan-2-yl)-1H-indol-2-yl]-2,2-dimethylpropanoic acid  (ISO)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-\{[(5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphthalen-2-yl)carbonyl]amino\}benzoic acid  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-nonylphenol  (ISO)
5-(2-chloroethyl)-4-methylthiazole  (ISO)
6-(4-chlorophenyl)imidazo[2,1-b][1,3]thiazole-5-carbaldehyde O-(3,4-dichlorobenzyl)oxime  (ISO)
6-propyl-2-thiouracil  (EXP)
9-cis-retinal  (ISO)
9-cis-retinoic acid  (EXP,ISO)
acetamide  (EXP)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
alfacalcidol  (ISO)
all-cis-docosa-7,10,13,16-tetraenoic acid  (ISO)
all-trans-4-oxoretinoic acid  (ISO)
all-trans-acitretin  (ISO)
all-trans-retinoic acid  (EXP,ISO)
all-trans-retinol  (EXP,ISO)
allyl isothiocyanate  (ISO)
alpha-linolenic acid  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
aphidicolin  (ISO)
arachidonic acid  (ISO)
aristolochic acid A  (ISO)
arotinoid acid  (ISO)
arsenous acid  (ISO)
Azoxymethane  (ISO)
beauvericin  (ISO)
benzene  (EXP)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-carotene  (ISO)
beta-lapachone  (ISO)
betulinic acid  (ISO)
Betulonic acid  (ISO)
bexarotene  (ISO)
bezafibrate  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium dichloride  (ISO)
caesium atom  (EXP)
caffeine  (ISO)
calciol  (ISO)
calcitriol  (ISO)
Calphostin C  (ISO)
capsaicin  (ISO)
carnosic acid  (ISO)
cerivastatin  (ISO)
chloroacetaldehyde  (ISO)
chlorogenic acid  (ISO)
cholesterol  (ISO)
choline  (EXP,ISO)
cisplatin  (ISO)
clofibrate  (ISO)
clofibric acid  (EXP)
Clofop  (ISO)
conjugated linoleic acid  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
Cryptotanshinone  (ISO)
Cuprizon  (EXP)
curcumin  (ISO)
cyclosporin A  (ISO)
DDE  (EXP,ISO)
decabromodiphenyl ether  (ISO)
dexamethasone  (EXP,ISO)
dextran sulfate  (ISO)
Di-n-hexyl phthalate  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP,ISO)
dibutylstannane  (ISO)
dicrotophos  (ISO)
dieldrin  (EXP,ISO)
diethyl phthalate  (ISO)
diethylstilbestrol  (EXP)
diheptyl phthalate  (ISO)
Diisodecyl phthalate  (ISO)
diisononyl phthalate  (ISO)
Dimethyl phthalate  (ISO)
dimethyl sulfoxide  (ISO)
dimethylarsinous acid  (ISO)
diosgenin  (ISO)
dioxygen  (ISO)
dipentyl phthalate  (ISO)
dipropyl phthalate  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
enniatin  (ISO)
epoxiconazole  (EXP)
equilin  (ISO)
ethanol  (EXP,ISO)
etodolac  (ISO)
etoposide  (ISO)
farnesol  (ISO)
fenofibrate  (EXP,ISO)
fentin chloride  (EXP,ISO)
fentin hydroxide  (ISO)
fenvalerate  (ISO)
fipronil  (ISO)
flurbiprofen  (ISO)
flutamide  (EXP)
fluvastatin  (ISO)
folic acid  (ISO)
fructose  (ISO)
gamma-hexachlorocyclohexane  (EXP)
genistein  (ISO)
gentamycin  (EXP)
geranylgeraniol  (ISO)
glutathione  (ISO)
glycidol  (EXP)
griseofulvin  (ISO)
GW 1929  (ISO)
hydrogen peroxide  (ISO)
ibuprofen  (ISO)
indometacin  (EXP,ISO)
inulin  (ISO)
isotretinoin  (EXP,ISO)
ketoconazole  (EXP)
L-methionine  (EXP,ISO)
leptomycin B  (ISO)
levofloxacin  (EXP)
linoleic acid  (ISO)
linuron  (EXP)
lipopolysaccharide  (ISO)
lithocholic acid  (EXP,ISO)
menadione  (ISO)
menaquinone  (ISO)
metformin  (EXP)
methapyrilene  (EXP)
methimazole  (EXP)
methoprene  (EXP,ISO)
methoxychlor  (EXP)
methyltestosterone  (ISO)
mevalonic acid  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N,N-dimethylformamide  (ISO)
N-acetyl-L-cysteine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
nitrofen  (EXP)
obeticholic acid  (ISO)
okadaic acid  (ISO)
oleic acid  (ISO)
orotic acid  (EXP)
Osajin  (ISO)
ozone  (ISO)
Panaxytriol  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP,ISO)
penconazole  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (EXP,ISO)
phorbol 13-acetate 12-myristate  (ISO)
phthalic acid  (ISO)
pioglitazone  (ISO)
pirinixic acid  (EXP,ISO)
pitavastatin  (ISO)
pitavastatin(1-)  (ISO)
PK-11195  (ISO)
poly(propylene imine) macromolecule  (ISO)
pravastatin  (EXP)
pregnenolone 16alpha-carbonitrile  (EXP,ISO)
prochloraz  (EXP)
procymidone  (EXP)
progesterone  (ISO)
prostaglandin J2  (EXP)
rac-lactic acid  (ISO)
regorafenib  (ISO)
resveratrol  (ISO)
retinyl acetate  (ISO)
rifampicin  (EXP,ISO)
Ro 41-5253  (ISO)
Rosavin  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
selenium atom  (ISO)
senecionine  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sincalide  (EXP)
sodium arsenite  (ISO)
Soman  (EXP)
Sorbitan monooleate  (ISO)
sucrose  (EXP)
Sudan III  (ISO)
sulindac  (EXP)
tamibarotene  (ISO)
teniposide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
thyroxine  (ISO)
tiratricol  (ISO)
titanium dioxide  (ISO)
tomelukast  (ISO)
tributylstannane  (EXP,ISO)
trichloroethene  (ISO)
triphenyl phosphate  (ISO)
triphenylphosphane oxide  (ISO)
triphenylstannane  (ISO)
troglitazone  (ISO)
uranium atom  (EXP)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin D  (ISO)
zinc acetate  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
axon regeneration  (IEP)
camera-type eye development  (ISO)
cardiac muscle cell proliferation  (ISO)
cell differentiation  (IBA)
cell maturation  (IEA,ISO)
cellular response to insulin stimulus  (IEP)
cellular response to low-density lipoprotein particle stimulus  (IEA,ISO)
embryo implantation  (ISO)
female pregnancy  (IEP)
gene expression  (ISO)
heart development  (ISO)
hormone-mediated signaling pathway  (IEA,ISO)
in utero embryonic development  (ISO)
liver development  (IEP)
maternal placenta development  (ISO)
midgut development  (IEP)
monocyte differentiation  (IEA,ISO)
mRNA transcription by RNA polymerase II  (IEA,ISO)
negative regulation of cell population proliferation  (IMP)
negative regulation of transcription by RNA polymerase II  (IEA,ISO)
nervous system development  (IBA)
nuclear receptor-mediated steroid hormone signaling pathway  (IEA)
peroxisome proliferator activated receptor signaling pathway  (IEA,ISO)
placenta development  (IEP,ISO)
positive regulation of apoptotic process  (IMP)
positive regulation of DNA-templated transcription  (IEA,ISO)
positive regulation of lipoprotein transport  (IEA,ISO)
positive regulation of thyroid hormone receptor signaling pathway  (IEA,ISO)
positive regulation of transcription by RNA polymerase II  (IBA,ISO)
positive regulation of translational initiation by iron  (ISO)
positive regulation of vitamin D receptor signaling pathway  (IEA,ISO)
regulation of branching involved in prostate gland morphogenesis  (ISO)
regulation of DNA-templated transcription  (IDA,IEA,ISO)
regulation of myelination  (IDA,IEA)
regulation of transcription by RNA polymerase II  (ISO)
response to ethanol  (IEP)
response to glucocorticoid  (IEP,IMP)
response to nutrient  (IEP)
response to retinoic acid  (IEA,IEP,ISO)
response to selenium ion  (IEP)
response to vitamin A  (IEP)
response to vitamin D  (IEP)
retinoic acid receptor signaling pathway  (IBA,IEA,ISO)
secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development  (ISO)
ventricular cardiac muscle cell differentiation  (ISO)
ventricular cardiac muscle tissue morphogenesis  (ISO)

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Expression of retinoid X receptor alpha is decreased in 3'-methyl-4-dimethylaminoazobenzene-induced hepatocellular carcinoma in rats. Ando N, etal., Oncol Rep. 2007 Oct;18(4):879-84.
2. Effect of vitamin A content in cafeteria diet on the expression of nuclear receptors in rat subcutaneous adipose tissue. Bairras C, etal., J Physiol Biochem. 2005 Jun;61(2):353-61.
3. Senescence-associated decline in hepatic peroxisomal enzyme activities corresponds with diminished levels of retinoid X receptor alpha, but not peroxisome proliferator-activated receptor alpha. Chao C, etal., Mech Ageing Dev. 2002 Sep;123(11):1469-76.
4. Retinoid X receptor alpha participation in dexamethasone-induced rat bile acid coenzyme A-amino acid N-acyltransferase expression in septic liver. Chen BC, etal., Shock. 2009 Aug;32(2):164-71.
5. Hydrodynamic-based in vivo transfection of retinoic X receptor-alpha gene can enhance vitamin A-induced attenuation of liver fibrosis in mice. Chen C, etal., Liver Int. 2004 Dec;24(6):679-86.
6. Role of retinoid-X receptor-alpha in the suppression of rat bile acid coenzyme A-amino acid N-acyltransferase in liver during sepsis. Chen YH, etal., Shock. 2007 Jul;28(1):65-70.
7. Retinoid X receptor alpha represses GATA-4-mediated transcription via a retinoid-dependent interaction with the cardiac-enriched repressor FOG-2. Clabby ML, etal., J Biol Chem 2003 Feb 21;278(8):5760-7.
8. Suppression of pancreatic carcinoma growth by activating peroxisome proliferator-activated receptor gamma involves angiogenesis inhibition. Dong YW, etal., World J Gastroenterol. 2009 Jan 28;15(4):441-8.
9. Role of MAP kinases in the 1,25-dihydroxyvitamin D3-induced transactivation of the rat cytochrome P450C24 (CYP24) promoter. Specific functions for ERK1/ERK2 and ERK5. Dwivedi PP, etal., J Biol Chem 2002 Aug 16;277(33):29643-53.
10. 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.
11. Interaction of the peroxisome-proliferator-activated receptor and retinoid X receptor. Gearing KL, etal., Proc Natl Acad Sci U S A 1993 Feb 15;90(4):1440-4.
12. International Union of Pharmacology. LXIII. Retinoid X receptors. Germain P, etal., Pharmacol Rev. 2006 Dec;58(4):760-72.
13. Peroxisome proliferator-activated receptor-gamma and retinoid X receptor-alpha expression in pancreatic ductal adenocarcinoma: association with clinicopathological parameters, tumor proliferative capacity, and patients' survival. Giaginis C, etal., Med Sci Monit. 2009 May;15(5):BR148-56.
14. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
15. Hyperlipidic diets induce early alterations of the vitamin A signalling pathway in rat colonic mucosa. Groubet R, etal., Endocr Regul. 2003 Sep;37(3):137-44.
16. Efficacy of new retinoids in the prevention of mammary cancers and correlations with short-term biomarkers. Grubbs CJ, etal., Carcinogenesis. 2006 Jun;27(6):1232-9. Epub 2005 Dec 12.
17. Placental expression of peroxisome proliferator-activated receptors in rat pregnancy and the effect of increased glucocorticoid exposure. Hewitt DP, etal., Biol Reprod. 2006 Jan;74(1):23-8. Epub 2005 Aug 31.
18. [Peroxisome proliferator-activated receptor alpha and retinoid X receptor alpha expressions and intervention in alcoholic cardiomyopathy rats] Jing L, etal., Zhonghua Xin Xue Guan Bing Za Zhi. 2009 Apr;37(4):324-9.
19. Identification and characterization of a tissue-specific coactivator, GT198, that interacts with the DNA-binding domains of nuclear receptors. Ko L, etal., Mol Cell Biol 2002 Jan;22(1):357-69.
20. Retinoic acid regulates myelin formation in the peripheral nervous system. Latasa MJ, etal., Glia. 2010 Sep;58(12):1451-64.
21. Mechanistic principles in NR box-dependent interaction between nuclear hormone receptors and the coactivator TIF2. Leers J, etal., Mol Cell Biol 1998 Oct;18(10):6001-13.
22. Interleukin-1beta -mediated Suppression of RXR:RAR Transactivation of the Ntcp Promoter Is JNK-dependent. Li D, etal., J Biol Chem 2002 Aug 30;277(35):31416-22.
23. Modification of RXRalpha expression according to the duration of a cafeteria diet. Margareto J, etal., J Physiol Biochem 2001 Dec;57(4):347-8.
24. Vitamin A regulation of gene expression: molecular mechanism of a prototype gene. McGrane MM J Nutr Biochem. 2007 Aug;18(8):497-508. Epub 2007 Feb 22.
25. Functional role of RXRs and PPARgamma in mature adipocytes. Metzger D, etal., Prostaglandins Leukot Essent Fatty Acids. 2005 Jul;73(1):51-8.
26. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
27. Disturbance of retinol transportation causes nitrofen-induced hypoplastic lung. Nakazawa N, etal., J Pediatr Surg. 2007 Feb;42(2):345-9.
28. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
29. Postnatal changes in gene expression of retinal dehydrogenase and retinoid receptors in liver of rats. Ogura Y, etal., Life Sci. 2004 Feb 6;74(12):1519-28.
30. Developmental changes of the expression of the genes regulated by retinoic acid in the small intestine of rats. Ogura Y, etal., Life Sci. 2005 Oct 14;77(22):2804-13.
31. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
32. GOA pipeline RGD automated data pipeline
33. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
34. Cross-species global and subset gene expression profiling identifies genes involved in prostate cancer response to selenium. Schlicht M, etal., BMC Genomics. 2004 Aug 20;5(1):58.
35. Concomitant pancreatic activation of Kras(G12D) and Tgfa results in cystic papillary neoplasms reminiscent of human IPMN. Siveke JT, etal., Cancer Cell. 2007 Sep;12(3):266-79.
36. Ubiquitous receptor: a receptor that modulates gene activation by retinoic acid and thyroid hormone receptors. Song C, etal., Proc Natl Acad Sci U S A 1994 Nov 8;91(23):10809-13.
37. Gene transcription of the retinoid X receptor alpha (RXRalpha) is regulated by fatty acids and hormones in rat hepatic cells. Steineger HH, etal., J Lipid Res. 1998 Apr;39(4):744-54.
38. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
39. Competition between thyroid hormone receptor-associated protein (TRAP) 220 and transcriptional intermediary factor (TIF) 2 for binding to nuclear receptors. Implications for the recruitment of TRAP and p160 coactivator complexes. Treuter E, etal., J Biol Chem. 1999 Mar 5;274(10):6667-77.
40. Regulation of alpha 2(I) collagen expression in stellate cells by retinoic acid and retinoid X receptors through interactions with their cofactors. Wang L, etal., Arch Biochem Biophys. 2004 Aug 1;428(1):92-8.
41. Heterodimeric interaction between retinoid X receptor alpha and orphan nuclear receptor OR1 reveals dimerization-induced activation as a novel mechanism of nuclear receptor activation. Wiebel FF and Gustafsson JA, Mol Cell Biol. 1997 Jul;17(7):3977-86.
42. Regulation of retinoic acid receptors alpha, beta and retinoid X receptor alpha after sciatic nerve injury. Zhelyaznik N and Mey J, Neuroscience. 2006 Sep 15;141(4):1761-74. Epub 2006 Jun 19.
Additional References at PubMed
PMID:1312497   PMID:7744009   PMID:7760852   PMID:7823919   PMID:7831303   PMID:7990953   PMID:8954108   PMID:9356169   PMID:9376317   PMID:9428411   PMID:9550726   PMID:9892670  
PMID:10195690   PMID:10385625   PMID:11915042   PMID:12015306   PMID:12037571   PMID:12039952   PMID:12183441   PMID:12477932   PMID:12593720   PMID:14622989   PMID:15319426   PMID:15322135  
PMID:15340084   PMID:15601870   PMID:15681609   PMID:15766748   PMID:16428452   PMID:16584836   PMID:17107947   PMID:17195188   PMID:17426122   PMID:17538076   PMID:17641689   PMID:17952069  
PMID:18502116   PMID:18511497   PMID:19043829   PMID:19917671   PMID:20219900   PMID:20945395   PMID:21882190   PMID:22001906   PMID:22230368   PMID:23017197   PMID:23327965   PMID:23499423  
PMID:23723389   PMID:23775127   PMID:26875149   PMID:28267642   PMID:29445990   PMID:32125053   PMID:33628383  


Genomics

Comparative Map Data
Rxra
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8331,387,892 - 31,474,415 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl331,388,223 - 31,474,417 (+)EnsemblGRCr8
mRatBN7.2310,989,832 - 11,076,366 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl310,989,832 - 11,073,712 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx314,057,333 - 14,141,119 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0322,642,768 - 22,726,554 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0320,896,722 - 20,980,500 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.036,272,560 - 6,295,354 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl36,211,789 - 6,295,908 (+)Ensemblrn6Rnor6.0
Rnor_5.0311,631,209 - 11,653,959 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.436,605,782 - 6,689,224 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera35,843,675 - 5,866,536 (+)NCBICelera
RGSC_v3.136,606,054 - 6,690,078 (+)NCBI
Cytogenetic Map3p12NCBI
RXRA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389134,326,455 - 134,440,585 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9134,317,098 - 134,440,585 (+)Ensemblhg38GRCh38
GRCh379137,218,301 - 137,332,431 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369136,358,231 - 136,472,252 (+)NCBIBuild 36Build 36hg18NCBI36
Build 349134,519,421 - 134,558,376NCBI
Celera9107,734,128 - 107,848,213 (+)NCBICelera
Cytogenetic Map9q34.2NCBI
HuRef9106,757,493 - 106,796,351 (+)NCBIHuRef
CHM1_19137,442,044 - 137,480,968 (+)NCBICHM1_1
T2T-CHM13v2.09146,541,633 - 146,657,063 (+)NCBIT2T-CHM13v2.0
Rxra
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39227,566,457 - 27,653,331 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl227,566,452 - 27,652,969 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38227,676,445 - 27,763,319 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl227,676,440 - 27,762,957 (+)Ensemblmm10GRCm38
MGSCv37227,532,721 - 27,618,839 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36227,499,210 - 27,585,328 (+)NCBIMGSCv36mm8
Celera227,439,778 - 27,465,824 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map219.38NCBI
Rxra
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555133,335,897 - 3,386,994 (+)Ensembl
ChiLan1.0NW_0049555133,313,544 - 3,386,544 (+)NCBIChiLan1.0ChiLan1.0
RXRA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2114,937,570 - 5,052,654 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan194,939,903 - 5,054,985 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09105,424,046 - 105,539,241 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19134,082,865 - 134,144,704 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9134,082,865 - 134,144,704 (+)EnsemblpanPan2panpan1.1
RXRA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1950,525,195 - 50,575,720 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl950,484,567 - 50,573,119 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha949,766,609 - 49,860,130 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0951,360,100 - 51,453,773 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl951,359,634 - 51,453,363 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1950,120,766 - 50,214,385 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0950,464,001 - 50,557,538 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0950,541,613 - 50,635,257 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Rxra
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947200,612,017 - 200,639,947 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366692,738,448 - 2,763,070 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366692,735,111 - 2,763,060 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RXRA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1273,705,505 - 273,797,620 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11273,698,842 - 273,797,622 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
RXRA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1123,704,129 - 3,814,707 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl123,699,923 - 3,814,678 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660581,284,770 - 1,401,711 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rxra
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247602,380,708 - 2,456,928 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247602,379,809 - 2,455,749 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Rxra
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v158,911,230 - 8,937,236 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Rxra
532 total Variants
miRNA Target Status (No longer updated)

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir27arno-miR-27a-3pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI19185571
Mir27brno-miR-27b-3pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI19185571

Predicted Target Of
Summary Value
Count of predictions:62
Count of miRNA genes:48
Interacting mature miRNAs:57
Transcripts:ENSRNOT00000012892
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)32267715050766390Rat
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)32905627547904329Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
10450811Scl73Serum cholesterol level QTL 734.70.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
2292615Ept17Estrogen-induced pituitary tumorigenesis QTL 176.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3655634751556347Rat
10450808Scl72Serum cholesterol level QTL 724.40.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
10450806Scl71Serum cholesterol level QTL 715.80.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)32862533967641995Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)3612543751125437Rat
8693641Alc30Alcohol consumption QTL 3020.739drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)33083238444921701Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3136721849Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31141509147Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3655634751556347Rat
1558657Cm43Cardiac mass QTL 436.63e-08heart mass (VT:0007028)heart wet weight (CMO:0000069)32267715050766390Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)31527234860272348Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)32905627547904329Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35675975141509147Rat
1358185Ept6Estrogen-induced pituitary tumorigenesis QTL 66.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3655634751556347Rat

Markers in Region
D3Arb4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2311,051,600 - 11,051,742 (+)MAPPERmRatBN7.2
Rnor_6.036,273,816 - 6,273,957NCBIRnor6.0
Rnor_5.0311,632,465 - 11,632,606UniSTSRnor5.0
RGSC_v3.436,667,553 - 6,667,695RGDRGSC3.4
RGSC_v3.436,667,554 - 6,667,695UniSTSRGSC3.4
Celera35,844,931 - 5,845,072UniSTS
RGSC_v3.136,667,853 - 6,667,995RGD
Cytogenetic Map3p12UniSTS
AU047320  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8331,425,430 - 31,425,670 (+)Marker Load Pipeline
mRatBN7.2311,027,373 - 11,027,613 (+)MAPPERmRatBN7.2
Rnor_6.036,249,348 - 6,249,587NCBIRnor6.0
Rnor_5.0311,608,169 - 11,608,408UniSTSRnor5.0
RGSC_v3.436,643,237 - 6,643,476UniSTSRGSC3.4
Celera35,820,736 - 5,820,975UniSTS
Cytogenetic Map3p12UniSTS


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 12 67 161 91 90 59 92 59 6 356 192 11 140 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000012892   ⟹   ENSRNOP00000012892
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl331,431,901 - 31,474,413 (+)Ensembl
mRatBN7.2 Ensembl310,989,832 - 11,073,712 (+)Ensembl
Rnor_6.0 Ensembl36,211,789 - 6,295,908 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000099288   ⟹   ENSRNOP00000087257
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl331,435,387 - 31,474,417 (+)Ensembl
mRatBN7.2 Ensembl311,037,450 - 11,073,712 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000100573   ⟹   ENSRNOP00000091257
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl331,388,223 - 31,474,417 (+)Ensembl
mRatBN7.2 Ensembl310,990,065 - 11,073,712 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000107435   ⟹   ENSRNOP00000087600
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl331,447,563 - 31,474,417 (+)Ensembl
mRatBN7.2 Ensembl311,049,509 - 11,073,712 (+)Ensembl
RefSeq Acc Id: NM_012805   ⟹   NP_036937
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8331,387,892 - 31,471,765 (+)NCBI
mRatBN7.2310,989,832 - 11,073,712 (+)NCBI
Rnor_6.036,272,560 - 6,295,354 (+)NCBI
Rnor_5.0311,631,209 - 11,653,959 (+)NCBI
RGSC_v3.436,605,782 - 6,689,224 (+)RGD
Celera35,843,675 - 5,866,536 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039104342   ⟹   XP_038960270
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8331,388,108 - 31,474,415 (+)NCBI
mRatBN7.2310,990,047 - 11,076,366 (+)NCBI
RefSeq Acc Id: XM_063283140   ⟹   XP_063139210
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8331,431,825 - 31,474,415 (+)NCBI
RefSeq Acc Id: NP_036937   ⟸   NM_012805
- UniProtKB: Q0VJ96 (UniProtKB/TrEMBL),   F6T454 (UniProtKB/TrEMBL),   A0A8I6GFA6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000012892   ⟸   ENSRNOT00000012892
RefSeq Acc Id: XP_038960270   ⟸   XM_039104342
- Peptide Label: isoform X2
- UniProtKB: A0A8I6AQ23 (UniProtKB/TrEMBL),   A0A8I6GFA6 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000087600   ⟸   ENSRNOT00000107435
Ensembl Acc Id: ENSRNOP00000087257   ⟸   ENSRNOT00000099288
Ensembl Acc Id: ENSRNOP00000091257   ⟸   ENSRNOT00000100573
RefSeq Acc Id: XP_063139210   ⟸   XM_063283140
- Peptide Label: isoform X1
- UniProtKB: A0A8I6GFA6 (UniProtKB/TrEMBL)
Protein Domains
NR LBD   Nuclear receptor

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q05343-F1-model_v2 AlphaFold Q05343 1-467 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3610 AgrOrtholog
BioCyc Gene G2FUF-50288 BioCyc
Ensembl Genes ENSRNOG00000009446 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000012892 ENTREZGENE
  ENSRNOT00000100573 ENTREZGENE
Gene3D-CATH 1.10.565.10 UniProtKB/Swiss-Prot
  3.30.50.10 UniProtKB/Swiss-Prot
InterPro NHR-like_dom_sf UniProtKB/Swiss-Prot
  Nuc_recep-AF1 UniProtKB/Swiss-Prot
  Nucl_hrmn_rcpt_lig-bd UniProtKB/Swiss-Prot
  Nuclear_hormone_rcpt_NR2 UniProtKB/Swiss-Prot
  Nuclear_hrmn_rcpt UniProtKB/Swiss-Prot
  Retinoid-X_rcpt/HNF4 UniProtKB/Swiss-Prot
  Znf_hrmn_rcpt UniProtKB/Swiss-Prot
  Znf_NHR/GATA UniProtKB/Swiss-Prot
NCBI Gene 25271 ENTREZGENE
PANTHER NUCLEAR HORMONE RECEPTOR UniProtKB/Swiss-Prot
Pfam Hormone_recep UniProtKB/Swiss-Prot
  Nuc_recep-AF1 UniProtKB/Swiss-Prot
  zf-C4 UniProtKB/Swiss-Prot
PhenoGen Rxra PhenoGen
PRINTS RETINOIDXR 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 ENSRNOG00000009446 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
TIGR TC217090
UniProt A0A8I6A846_RAT UniProtKB/TrEMBL
  A0A8I6AQ23 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GFA6 ENTREZGENE, UniProtKB/TrEMBL
  A6JTL8_RAT UniProtKB/TrEMBL
  F6T454 ENTREZGENE, UniProtKB/TrEMBL
  Q05343 ENTREZGENE
  Q0JVR3_RAT UniProtKB/TrEMBL
  Q0VJ96 ENTREZGENE, UniProtKB/TrEMBL
  RXRA_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Rxra  Retinoid X receptor alpha      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_process facilitates binding of the peroxisome-proliferator-activated receptor to the acyl-CoA oxidase gene PPAR response element 729726