RARA (retinoic acid receptor alpha) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: RARA (retinoic acid receptor alpha) Homo sapiens
Analyze
Symbol: RARA
Name: retinoic acid receptor alpha
RGD ID: 733999
HGNC Page HGNC
Description: Exhibits several functions, including DNA binding activity; nuclear receptor activity; and protein kinase B binding activity. Involved in several processes, including cellular response to estrogen stimulus; regulation of gene expression; and regulation of leukocyte differentiation. Localizes to several cellular components, including actin cytoskeleton; chromatin; and nuclear lumen. Implicated in acute promyelocytic leukemia. Biomarker of mood disorder.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: NR1B1; nuclear receptor subfamily 1 group B member 1; nucleophosmin-retinoic acid receptor alpha fusion protein NPM-RAR long form; PML-DDX5-RARA fusion; RAR; RAR-alpha; retinoic acid nuclear receptor alpha variant 1; retinoic acid nuclear receptor alpha variant 2; Retinoic acid receptor, alpha polypeptide
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1740,309,180 - 40,357,643 (+)EnsemblGRCh38hg38GRCh38
GRCh381740,309,180 - 40,357,643 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371738,465,432 - 38,513,895 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361735,718,972 - 35,767,420 (+)NCBINCBI36hg18NCBI36
Build 341735,740,895 - 35,767,420NCBI
Celera1735,125,565 - 35,174,038 (+)NCBI
Cytogenetic Map17q21.2NCBI
HuRef1734,258,584 - 34,307,018 (+)NCBIHuRef
CHM1_11738,700,731 - 38,749,203 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (EXP)
1-(5-isoquinolinesulfonyl)-2-methylpiperazine  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-(tert-butylimino)-5-phenyl-3-(propan-2-yl)-1,3,5-thiadiazinan-4-one  (EXP)
2-bromohexadecanoic acid  (EXP)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (EXP)
3-methyladenine  (EXP)
4'-epidoxorubicin  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-diisothiocyano-trans-stilbene-2,2'-disulfonic acid  (EXP)
4-\{[(5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphthalen-2-yl)carbonyl]amino\}benzoic acid  (EXP)
4-aminopyridine  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (EXP)
5-(2-methylpiperazine-1-sulfonyl)isoquinoline  (EXP)
5-aza-2'-deoxycytidine  (EXP)
6-propyl-2-thiouracil  (ISO)
8'-apo-beta,psi-caroten-8'-al  (EXP)
9-cis-retinoic acid  (EXP,ISO)
adefovir pivoxil  (EXP)
afimoxifene  (EXP)
aflatoxin B1  (EXP)
alendronic acid  (ISO)
all-trans-4-hydroxyretinoic acid  (EXP)
all-trans-4-oxoretinoic acid  (EXP)
all-trans-4-oxoretinol  (EXP)
all-trans-retinoic acid  (EXP,ISO)
all-trans-retinol  (EXP,ISO)
all-trans-retinyl palmitate  (ISO)
allethrin  (EXP)
ammonium chloride  (ISO)
amphetamine  (ISO)
androgen antagonist  (ISO)
Antimony trioxide  (EXP)
antirheumatic drug  (EXP)
arotinoid acid  (EXP)
arsenite(3-)  (EXP)
arsenous acid  (EXP,ISO)
benzo[a]pyrene  (EXP,ISO)
beta-carotene  (EXP)
bicuculline  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (EXP)
bisphenol F  (EXP)
buprofezin  (EXP)
cadmium atom  (EXP)
calciol  (EXP,ISO)
camptothecin  (EXP)
carnosic acid  (EXP)
chloroacetaldehyde  (EXP)
chlorogenic acid  (EXP)
chlorpromazine  (ISO)
choline  (ISO)
cidofovir anhydrous  (EXP)
cisplatin  (EXP,ISO)
clodronic acid  (EXP)
cobalt dichloride  (EXP)
copper atom  (EXP)
copper(0)  (EXP)
coumaphos  (EXP)
curcumin  (EXP)
cyclophosphamide  (ISO)
cyclosporin A  (EXP,ISO)
D-gluconic acid  (ISO)
DAPT  (EXP)
deoxycholic acid  (ISO)
dexamethasone  (EXP)
diarsenic trioxide  (EXP,ISO)
diazinon  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (EXP)
dieldrin  (ISO)
dioxygen  (EXP)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (EXP)
doxorubicin  (EXP)
endosulfan  (ISO)
enilconazole  (EXP)
ethanol  (EXP)
fenofibrate  (EXP,ISO)
folic acid  (ISO)
fonofos  (EXP)
formaldehyde  (EXP)
furan  (ISO)
gamma-hexachlorocyclohexane  (EXP)
gentamycin  (ISO)
griseofulvin  (ISO)
hydroxyurea  (ISO)
ibuprofen  (EXP)
Indeno[1,2,3-cd]pyrene  (EXP)
indometacin  (EXP)
isotretinoin  (EXP,ISO)
kojic acid  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
limonene  (ISO)
lipopolysaccharide  (EXP,ISO)
melatonin  (EXP)
mercury atom  (ISO)
mercury(0)  (ISO)
methoxychlor  (ISO)
mitoxantrone  (EXP)
N-(6-acetamidohexyl)acetamide  (EXP)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (EXP)
N-methyl-4-phenylpyridinium  (EXP)
N-methyl-N-nitrosourea  (ISO)
N-nitrosodiethylamine  (ISO)
nickel dichloride  (ISO)
nitrofen  (ISO)
Nor-9-carboxy-delta9-THC  (EXP)
ochratoxin A  (ISO)
okadaic acid  (ISO)
Osajin  (EXP)
parathion  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenethyl caffeate  (EXP)
phenytoin  (ISO)
phorbol 13-acetate 12-myristate  (EXP)
phosalone  (EXP)
picene  (EXP)
Pomiferin  (EXP)
prochloraz  (EXP)
propiconazole  (EXP)
puerarin  (EXP)
quinoxyfen  (EXP)
raloxifene  (ISO)
resveratrol  (EXP)
Ro 41-5253  (EXP,ISO)
silver atom  (EXP)
silver(0)  (EXP)
sodium arsenite  (EXP)
sodium cholate  (ISO)
sodium dodecyl sulfate  (ISO)
sunitinib  (EXP)
tamibarotene  (EXP,ISO)
tamoxifen  (ISO)
terbufos  (EXP)
testosterone  (ISO)
tetrachloromethane  (ISO)
tetraphene  (ISO)
thiophenes  (EXP)
toluene  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (EXP)
troglitazone  (EXP)
valproic acid  (EXP,ISO)
vanadyl sulfate  (EXP)
vinclozolin  (ISO)
vorinostat  (EXP)
zinc atom  (EXP)
zinc(0)  (EXP)
zoledronic acid  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
apoptotic cell clearance  (IMP)
bone development  (ISO)
cell differentiation  (IBA)
cellular response to estrogen stimulus  (IDA)
cellular response to lipopolysaccharide  (IEA)
chondroblast differentiation  (IEA,ISO)
embryonic camera-type eye development  (IEA,ISO)
face development  (IEA,ISO)
female pregnancy  (IEA,ISO)
germ cell development  (IEA)
glandular epithelial cell development  (IEA,ISO)
granulocyte differentiation  (TAS)
growth plate cartilage development  (IEA,ISO)
hippocampus development  (IEA,ISO)
hormone-mediated signaling pathway  (IBA)
limb development  (IEA,ISO)
liver development  (IEA,ISO)
male gonad development  (ISO)
multicellular organism growth  (IEA,ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of cartilage development  (IEA,ISO)
negative regulation of cell differentiation  (ISO)
negative regulation of cell population proliferation  (IEA,ISO)
negative regulation of gene expression  (ISO)
negative regulation of granulocyte differentiation  (IDA)
negative regulation of interferon-gamma production  (IDA)
negative regulation of transcription by RNA polymerase II  (IBA,ISO)
negative regulation of transcription, DNA-templated  (IDA,ISO)
negative regulation of translation  (IEA,ISO)
negative regulation of translational initiation  (ISO)
negative regulation of tumor necrosis factor production  (IDA)
neural tube closure  (IEA,ISO)
outflow tract septum morphogenesis  (ISO)
positive regulation of binding  (IMP)
positive regulation of cell cycle  (IMP)
positive regulation of cell population proliferation  (IMP,ISO)
positive regulation of ERK1 and ERK2 cascade  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of interleukin-13 production  (IDA)
positive regulation of interleukin-4 production  (IDA)
positive regulation of interleukin-5 production  (IDA)
positive regulation of neuron differentiation  (IEA,ISO)
positive regulation of phosphatidylinositol 3-kinase signaling  (ISO)
positive regulation of protein kinase B signaling  (ISO)
positive regulation of T-helper 2 cell differentiation  (IDA)
positive regulation of transcription by RNA polymerase II  (IBA,IDA,IMP,ISO)
positive regulation of transcription, DNA-templated  (IDA,IMP)
prostate gland development  (IEA,ISO)
protein phosphorylation  (IMP)
regulation of apoptotic process  (IEA,ISO)
regulation of granulocyte differentiation  (ISO)
regulation of myelination  (IEA,ISO)
regulation of synaptic plasticity  (IEA,ISO)
regulation of transcription, DNA-templated  (IEA,ISO)
response to cytokine  (IEA,ISO)
response to estradiol  (IEA,ISO)
response to ethanol  (IEA,ISO)
response to retinoic acid  (IMP,ISO)
response to vitamin A  (IEA,ISO)
retinoic acid receptor signaling pathway  (IBA,IDA,IEA,IMP)
Sertoli cell fate commitment  (IEA)
signal transduction  (IDA)
spermatogenesis  (ISO)
trachea cartilage development  (IEA,ISO)
transcription initiation from RNA polymerase II promoter  (TAS)
ureteric bud development  (IEA,ISO)
ventricular cardiac muscle cell differentiation  (IEA,ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:1310351   PMID:1311253   PMID:1314167   PMID:1347744   PMID:1652369   PMID:2170850   PMID:2175878   PMID:2218500   PMID:2825025   PMID:2825036   PMID:2899875   PMID:7566114  
PMID:7566127   PMID:7705655   PMID:8051161   PMID:8244378   PMID:8302850   PMID:8562957   PMID:8598193   PMID:8603043   PMID:8616895   PMID:8650544   PMID:8887632   PMID:9005841  
PMID:9115274   PMID:9121466   PMID:9192892   PMID:9238002   PMID:9256429   PMID:9267036   PMID:9288109   PMID:9346901   PMID:9380707   PMID:9415406   PMID:9430642   PMID:9445475  
PMID:9486655   PMID:9491782   PMID:9531570   PMID:9582446   PMID:9628876   PMID:9632709   PMID:9642262   PMID:9653119   PMID:9717844   PMID:9773978   PMID:9795230   PMID:9920895  
PMID:10022764   PMID:10082574   PMID:10207062   PMID:10336495   PMID:10337631   PMID:10361124   PMID:10428834   PMID:10454579   PMID:10480874   PMID:10531331   PMID:10567404   PMID:10610177  
PMID:10611353   PMID:10617585   PMID:10698945   PMID:10760302   PMID:10786636   PMID:10823961   PMID:10860982   PMID:10866662   PMID:10872826   PMID:10882070   PMID:10882117   PMID:10938104  
PMID:11014615   PMID:11050004   PMID:11106752   PMID:11158331   PMID:11274148   PMID:11279242   PMID:11331609   PMID:11353774   PMID:11358960   PMID:11382777   PMID:11439184   PMID:11574675  
PMID:11641790   PMID:11812818   PMID:11891284   PMID:11929748   PMID:11971969   PMID:11980644   PMID:12000751   PMID:12009305   PMID:12039952   PMID:12048211   PMID:12052862   PMID:12060771  
PMID:12080444   PMID:12101409   PMID:12138096   PMID:12193472   PMID:12213824   PMID:12235159   PMID:12393611   PMID:12399530   PMID:12403842   PMID:12420222   PMID:12468549   PMID:12477932  
PMID:12482873   PMID:12503607   PMID:12505266   PMID:12549917   PMID:12612084   PMID:12665583   PMID:12691149   PMID:12805378   PMID:12810556   PMID:12835288   PMID:12874288   PMID:12935927  
PMID:12935958   PMID:12943985   PMID:14521715   PMID:14559998   PMID:14581481   PMID:14592536   PMID:14691372   PMID:14702039   PMID:14705796   PMID:14737102   PMID:15171703   PMID:15246741  
PMID:15249124   PMID:15254248   PMID:15255287   PMID:15308690   PMID:15336696   PMID:15337793   PMID:15489334   PMID:15528208   PMID:15601827   PMID:15604093   PMID:15635645   PMID:15670742  
PMID:15674337   PMID:15729358   PMID:15746941   PMID:15808511   PMID:15809060   PMID:15831516   PMID:15839736   PMID:15870697   PMID:15941852   PMID:16085646   PMID:16102021   PMID:16113082  
PMID:16179254   PMID:16189514   PMID:16203797   PMID:16219912   PMID:16224062   PMID:16239915   PMID:16289102   PMID:16311697   PMID:16341674   PMID:16344560   PMID:16368877   PMID:16417524  
PMID:16424870   PMID:16432238   PMID:16449642   PMID:16456540   PMID:16469706   PMID:16480812   PMID:16504291   PMID:16540467   PMID:16606617   PMID:16630218   PMID:16712791   PMID:16713569  
PMID:16728697   PMID:16769902   PMID:16778766   PMID:16797070   PMID:17005281   PMID:17195188   PMID:17244680   PMID:17252005   PMID:17272513   PMID:17272867   PMID:17363140   PMID:17451432  
PMID:17455211   PMID:17456381   PMID:17468032   PMID:17475621   PMID:17538076   PMID:17560333   PMID:17595318   PMID:17611697   PMID:17628022   PMID:17641689   PMID:17656367   PMID:17712046  
PMID:17761950   PMID:17943164   PMID:17960617   PMID:17991421   PMID:17993618   PMID:18000064   PMID:18024792   PMID:18048326   PMID:18073335   PMID:18087039   PMID:18180299   PMID:18212063  
PMID:18270252   PMID:18305945   PMID:18416830   PMID:18443043   PMID:18466769   PMID:18636556   PMID:18660489   PMID:18845237   PMID:18922886   PMID:18978041   PMID:18996102   PMID:19029980  
PMID:19100514   PMID:19106195   PMID:19128831   PMID:19144644   PMID:19144697   PMID:19173001   PMID:19224461   PMID:19274049   PMID:19322209   PMID:19341714   PMID:19345331   PMID:19350571  
PMID:19401466   PMID:19458357   PMID:19465599   PMID:19563758   PMID:19626135   PMID:19628791   PMID:19732752   PMID:19799861   PMID:19828696   PMID:19850744   PMID:19855079   PMID:19863682  
PMID:19884280   PMID:19902255   PMID:19913121   PMID:19917671   PMID:19934264   PMID:19937600   PMID:19965660   PMID:20080953   PMID:20130111   PMID:20133701   PMID:20133705   PMID:20155840  
PMID:20159609   PMID:20159610   PMID:20185965   PMID:20190807   PMID:20211142   PMID:20215566   PMID:20338915   PMID:20346360   PMID:20354914   PMID:20413580   PMID:20543827   PMID:20544846  
PMID:20548336   PMID:20572854   PMID:20574048   PMID:20628086   PMID:20634891   PMID:20693704   PMID:20736163   PMID:20804918   PMID:20807888   PMID:21053424   PMID:21131358   PMID:21150871  
PMID:21187718   PMID:21190992   PMID:21245861   PMID:21254357   PMID:21255834   PMID:21262770   PMID:21272161   PMID:21310922   PMID:21364283   PMID:21383775   PMID:21451111   PMID:21478865  
PMID:21516116   PMID:21613260   PMID:21736617   PMID:21803845   PMID:21873635   PMID:21900206   PMID:21923909   PMID:21934296   PMID:21949683   PMID:21984809   PMID:21988832   PMID:22022577  
PMID:22045737   PMID:22056876   PMID:22135230   PMID:22167334   PMID:22181564   PMID:22182411   PMID:22351778   PMID:22498738   PMID:22539306   PMID:22810586   PMID:22982005   PMID:22982681  
PMID:23064648   PMID:23064710   PMID:23102699   PMID:23208507   PMID:23271512   PMID:23448850   PMID:23474897   PMID:23518351   PMID:23612809   PMID:23770850   PMID:23775127   PMID:23782583  
PMID:23847194   PMID:23868472   PMID:23898169   PMID:23927396   PMID:23969901   PMID:23975195   PMID:24038216   PMID:24050824   PMID:24183235   PMID:24264050   PMID:24394593   PMID:24516348  
PMID:24550385   PMID:24608861   PMID:24711541   PMID:24806185   PMID:24819975   PMID:24821728   PMID:24992177   PMID:25033841   PMID:25036637   PMID:25071154   PMID:25241761   PMID:25275592  
PMID:25300573   PMID:25303530   PMID:25416956   PMID:25550158   PMID:25680531   PMID:25791120   PMID:25910212   PMID:25973309   PMID:26026090   PMID:26041820   PMID:26088929   PMID:26213848  
PMID:26294332   PMID:26469385   PMID:26537301   PMID:26728137   PMID:26743651   PMID:26754533   PMID:26776160   PMID:26818829   PMID:26841866   PMID:26848712   PMID:26871637   PMID:26969398  
PMID:27030546   PMID:27052408   PMID:27107012   PMID:27306217   PMID:27419624   PMID:27486764   PMID:27499693   PMID:27591797   PMID:27626703   PMID:27840989   PMID:27872498   PMID:28035062  
PMID:28129653   PMID:28370539   PMID:28412739   PMID:28416638   PMID:28473536   PMID:28486108   PMID:28514442   PMID:28692043   PMID:28766684   PMID:28838264   PMID:29117863   PMID:29119395  
PMID:29237593   PMID:29378601   PMID:29530751   PMID:29543331   PMID:29892012   PMID:29921692   PMID:30155836   PMID:30237272   PMID:30320491   PMID:30421475   PMID:30532072   PMID:30552662  
PMID:30601638   PMID:30674964   PMID:30695588   PMID:30824184   PMID:31126665   PMID:31190129   PMID:31515488   PMID:31654721   PMID:31700049   PMID:32296183   PMID:32393309   PMID:32475642  
PMID:33120845   PMID:33255664   PMID:33935126  


Genomics

Comparative Map Data
RARA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1740,309,180 - 40,357,643 (+)EnsemblGRCh38hg38GRCh38
GRCh381740,309,180 - 40,357,643 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371738,465,432 - 38,513,895 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361735,718,972 - 35,767,420 (+)NCBINCBI36hg18NCBI36
Build 341735,740,895 - 35,767,420NCBI
Celera1735,125,565 - 35,174,038 (+)NCBI
Cytogenetic Map17q21.2NCBI
HuRef1734,258,584 - 34,307,018 (+)NCBIHuRef
CHM1_11738,700,731 - 38,749,203 (+)NCBICHM1_1
Rara
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391198,818,626 - 98,865,768 (+)NCBIGRCm39mm39
GRCm39 Ensembl1198,818,644 - 98,865,768 (+)Ensembl
GRCm381198,927,800 - 98,974,942 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1198,927,818 - 98,974,942 (+)EnsemblGRCm38mm10GRCm38
MGSCv371198,799,010 - 98,836,256 (+)NCBIGRCm37mm9NCBIm37
MGSCv361198,753,943 - 98,788,760 (+)NCBImm8
Celera11108,602,792 - 108,640,796 (+)NCBICelera
Cytogenetic Map11DNCBI
cM Map1162.76NCBI
Rara
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21083,883,490 - 83,928,932 (+)NCBI
Rnor_6.0 Ensembl1086,860,685 - 86,884,210 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01086,838,819 - 86,884,224 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01086,663,856 - 86,681,847 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41087,740,479 - 87,753,265 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11087,754,841 - 87,767,635 (+)NCBI
Celera1082,656,708 - 82,669,574 (+)NCBICelera
Cytogenetic Map10q31NCBI
Rara
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545114,897,726 - 14,917,134 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545114,876,663 - 14,917,134 (+)NCBIChiLan1.0ChiLan1.0
RARA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11717,156,923 - 17,205,451 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01716,932,485 - 16,980,958 (-)NCBIMhudiblu_PPA_v0panPan3
RARA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1922,254,803 - 22,298,614 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl922,254,806 - 22,289,459 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha921,727,250 - 21,761,701 (-)NCBI
ROS_Cfam_1.0923,046,731 - 23,091,126 (-)NCBI
UMICH_Zoey_3.1921,821,642 - 21,856,078 (-)NCBI
UNSW_CanFamBas_1.0922,080,340 - 22,114,785 (-)NCBI
UU_Cfam_GSD_1.0922,205,221 - 22,239,665 (-)NCBI
Rara
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560221,654,499 - 21,698,923 (-)NCBI
SpeTri2.0NW_00493649015,376,217 - 15,420,638 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RARA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1222,047,442 - 22,085,674 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11222,047,449 - 22,085,759 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21222,356,038 - 22,403,796 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RARA
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11665,817,849 - 65,866,862 (-)NCBI
ChlSab1.1 Ensembl1665,817,757 - 65,866,878 (-)Ensembl
Vero_WHO_p1.0NW_02366607736,718,924 - 36,759,030 (-)NCBI
Rara
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247952,935,432 - 2,975,226 (-)NCBI

Position Markers
L17737  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371738,503,076 - 38,503,226UniSTSGRCh37
Build 361735,756,602 - 35,756,752RGDNCBI36
Celera1735,163,219 - 35,163,369RGD
Cytogenetic Map17q21UniSTS
HuRef1734,296,195 - 34,296,345UniSTS
RH80640  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371738,512,785 - 38,512,999UniSTSGRCh37
Build 361735,766,311 - 35,766,525RGDNCBI36
Celera1735,172,928 - 35,173,142RGD
Cytogenetic Map17q21UniSTS
HuRef1734,305,908 - 34,306,122UniSTS
SHGC-81199  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371738,469,838 - 38,470,142UniSTSGRCh37
Build 361735,723,364 - 35,723,668RGDNCBI36
Celera1735,129,980 - 35,130,284RGD
Cytogenetic Map17q21UniSTS
HuRef1734,262,999 - 34,263,303UniSTS
TNG Radiation Hybrid Map1717918.0UniSTS
D17S1335  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371738,481,441 - 38,481,603UniSTSGRCh37
Build 361735,734,967 - 35,735,129RGDNCBI36
Celera1735,141,584 - 35,141,746RGD
Cytogenetic Map17q21UniSTS
HuRef1734,274,602 - 34,274,764UniSTS
GDB:625834  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371738,473,988 - 38,474,530UniSTSGRCh37
Build 361735,727,514 - 35,728,056RGDNCBI36
Celera1735,134,131 - 35,134,673RGD
Cytogenetic Map17q21UniSTS
HuRef1734,267,149 - 34,267,691UniSTS
SHGC-83476  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371738,490,771 - 38,490,969UniSTSGRCh37
Build 361735,744,297 - 35,744,495RGDNCBI36
Celera1735,150,914 - 35,151,112RGD
Cytogenetic Map17q21UniSTS
HuRef1734,283,890 - 34,284,088UniSTS
TNG Radiation Hybrid Map1717937.0UniSTS
RARA_480  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371738,513,041 - 38,513,906UniSTSGRCh37
Build 361735,766,567 - 35,767,432RGDNCBI36
Celera1735,173,184 - 35,174,049RGD
HuRef1734,306,164 - 34,307,029UniSTS
STS-N54985  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371738,497,216 - 38,497,346UniSTSGRCh37
Build 361735,750,742 - 35,750,872RGDNCBI36
Celera1735,157,359 - 35,157,489RGD
Cytogenetic Map17q21UniSTS
HuRef1734,290,335 - 34,290,465UniSTS
GeneMap99-GB4 RH Map17317.39UniSTS
NCBI RH Map17454.0UniSTS
G10521  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371738,513,406 - 38,513,630UniSTSGRCh37
Build 361735,766,932 - 35,767,156RGDNCBI36
Celera1735,173,549 - 35,173,773RGD
Cytogenetic Map17q21UniSTS
HuRef1734,306,529 - 34,306,753UniSTS
GDB:180970  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371738,512,323 - 38,512,777UniSTSGRCh37
Celera1735,172,466 - 35,172,920UniSTS
Cytogenetic Map17q21UniSTS
HuRef1734,305,446 - 34,305,900UniSTS
GDB:376702  
Human AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map17q21UniSTS

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:4063
Count of miRNA genes:840
Interacting mature miRNAs:1014
Transcripts:ENST00000254066, ENST00000394081, ENST00000394086, ENST00000394089, ENST00000420042, ENST00000425707, ENST00000475125, ENST00000577646, ENST00000579727, ENST00000582914
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


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High
Medium 2303 2569 1617 516 1853 391 4196 1768 1752 324 1413 1563 138 1204 2698 1
Low 136 422 109 107 94 74 161 428 1971 95 46 50 35 1 90 5 1
Below cutoff 1 2 10 2 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NG_027701 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_000964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001024809 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001145301 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001145302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005257552 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005257553 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005257554 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011525095 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011525096 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017024920 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC080112 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF283809 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH007261 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ297538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK098172 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK130192 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK292205 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK303868 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK312564 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL522713 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL834159 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC008727 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC071733 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BG394590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BM838347 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BM992549 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY799725 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB105313 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471152 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CR457438 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CS542437 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DA061829 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DA541711 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FJ487576 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HQ692826 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HQ692827 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M61110 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M61111 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  MW557603 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  S50916 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  S57794 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X06538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X06614 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X56058 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X58685 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000254066   ⟹   ENSP00000254066
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1740,309,180 - 40,357,643 (+)Ensembl
RefSeq Acc Id: ENST00000394081   ⟹   ENSP00000377643
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1740,342,363 - 40,356,795 (+)Ensembl
RefSeq Acc Id: ENST00000394086   ⟹   ENSP00000377648
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1740,341,388 - 40,356,795 (+)Ensembl
RefSeq Acc Id: ENST00000394089   ⟹   ENSP00000377649
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1740,318,281 - 40,356,331 (+)Ensembl
RefSeq Acc Id: ENST00000420042
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1740,351,387 - 40,356,213 (+)Ensembl
RefSeq Acc Id: ENST00000425707   ⟹   ENSP00000389993
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1740,318,285 - 40,357,643 (+)Ensembl
RefSeq Acc Id: ENST00000475125   ⟹   ENSP00000462514
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1740,345,241 - 40,354,409 (+)Ensembl
RefSeq Acc Id: ENST00000577646   ⟹   ENSP00000464287
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1740,309,192 - 40,348,336 (+)Ensembl
RefSeq Acc Id: ENST00000579727
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1740,342,399 - 40,349,818 (+)Ensembl
RefSeq Acc Id: ENST00000582914
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1740,322,991 - 40,331,168 (+)Ensembl
RefSeq Acc Id: NM_000964   ⟹   NP_000955
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,309,180 - 40,357,643 (+)NCBI
GRCh371738,465,423 - 38,513,895 (+)ENTREZGENE
Build 361735,718,972 - 35,767,420 (+)NCBI Archive
HuRef1734,258,584 - 34,307,018 (+)ENTREZGENE
CHM1_11738,700,731 - 38,749,203 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001024809   ⟹   NP_001019980
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,342,166 - 40,357,643 (+)NCBI
GRCh371738,465,423 - 38,513,895 (+)ENTREZGENE
Build 361735,751,868 - 35,767,420 (+)NCBI Archive
HuRef1734,258,584 - 34,307,018 (+)ENTREZGENE
CHM1_11738,733,579 - 38,749,203 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001145301   ⟹   NP_001138773
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,318,245 - 40,357,643 (+)NCBI
GRCh371738,465,423 - 38,513,895 (+)ENTREZGENE
HuRef1734,258,584 - 34,307,018 (+)ENTREZGENE
CHM1_11738,709,781 - 38,749,203 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001145302   ⟹   NP_001138774
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,318,245 - 40,357,643 (+)NCBI
GRCh371738,465,423 - 38,513,895 (+)ENTREZGENE
HuRef1734,258,584 - 34,307,018 (+)ENTREZGENE
CHM1_11738,709,781 - 38,749,203 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005257552   ⟹   XP_005257609
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,340,148 - 40,357,643 (+)NCBI
GRCh371738,465,423 - 38,513,895 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005257553   ⟹   XP_005257610
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,330,592 - 40,357,643 (+)NCBI
GRCh371738,465,423 - 38,513,895 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005257554   ⟹   XP_005257611
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,322,991 - 40,357,643 (+)NCBI
GRCh371738,465,423 - 38,513,895 (+)NCBI
Sequence:
RefSeq Acc Id: XM_011525095   ⟹   XP_011523397
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,309,198 - 40,357,643 (+)NCBI
Sequence:
RefSeq Acc Id: XM_011525096   ⟹   XP_011523398
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,340,049 - 40,357,643 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017024920   ⟹   XP_016880409
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,348,084 - 40,357,643 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_000955 (Get FASTA)   NCBI Sequence Viewer  
  NP_001019980 (Get FASTA)   NCBI Sequence Viewer  
  NP_001138773 (Get FASTA)   NCBI Sequence Viewer  
  NP_001138774 (Get FASTA)   NCBI Sequence Viewer  
  XP_005257609 (Get FASTA)   NCBI Sequence Viewer  
  XP_005257610 (Get FASTA)   NCBI Sequence Viewer  
  XP_005257611 (Get FASTA)   NCBI Sequence Viewer  
  XP_011523397 (Get FASTA)   NCBI Sequence Viewer  
  XP_011523398 (Get FASTA)   NCBI Sequence Viewer  
  XP_016880409 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB19602 (Get FASTA)   NCBI Sequence Viewer  
  AAD13888 (Get FASTA)   NCBI Sequence Viewer  
  AAF87249 (Get FASTA)   NCBI Sequence Viewer  
  AAH08727 (Get FASTA)   NCBI Sequence Viewer  
  AAH71733 (Get FASTA)   NCBI Sequence Viewer  
  ACK86665 (Get FASTA)   NCBI Sequence Viewer  
  ADZ17337 (Get FASTA)   NCBI Sequence Viewer  
  ADZ17338 (Get FASTA)   NCBI Sequence Viewer  
  BAF84894 (Get FASTA)   NCBI Sequence Viewer  
  BAG35459 (Get FASTA)   NCBI Sequence Viewer  
  BAG53585 (Get FASTA)   NCBI Sequence Viewer  
  BAG64806 (Get FASTA)   NCBI Sequence Viewer  
  CAA29787 (Get FASTA)   NCBI Sequence Viewer  
  CAA29829 (Get FASTA)   NCBI Sequence Viewer  
  CAA39533 (Get FASTA)   NCBI Sequence Viewer  
  CAA41532 (Get FASTA)   NCBI Sequence Viewer  
  CAG33719 (Get FASTA)   NCBI Sequence Viewer  
  CAH56277 (Get FASTA)   NCBI Sequence Viewer  
  CAM91168 (Get FASTA)   NCBI Sequence Viewer  
  EAW60652 (Get FASTA)   NCBI Sequence Viewer  
  EAW60653 (Get FASTA)   NCBI Sequence Viewer  
  EAW60654 (Get FASTA)   NCBI Sequence Viewer  
  EAW60655 (Get FASTA)   NCBI Sequence Viewer  
  EAW60656 (Get FASTA)   NCBI Sequence Viewer  
  EAW60657 (Get FASTA)   NCBI Sequence Viewer  
  EAW60658 (Get FASTA)   NCBI Sequence Viewer  
  P10276 (Get FASTA)   NCBI Sequence Viewer  
  QTY32077 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_000955   ⟸   NM_000964
- Peptide Label: isoform 1
- UniProtKB: P10276 (UniProtKB/Swiss-Prot),   Q6I9R7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001138773   ⟸   NM_001145301
- Peptide Label: isoform 1
- UniProtKB: P10276 (UniProtKB/Swiss-Prot),   A8K840 (UniProtKB/TrEMBL),   Q6I9R7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001138774   ⟸   NM_001145302
- Peptide Label: isoform 4
- UniProtKB: P10276 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001019980   ⟸   NM_001024809
- Peptide Label: isoform 2
- UniProtKB: P10276 (UniProtKB/Swiss-Prot),   F1D8N9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005257611   ⟸   XM_005257554
- Peptide Label: isoform X1
- UniProtKB: P10276 (UniProtKB/Swiss-Prot),   Q6I9R7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005257610   ⟸   XM_005257553
- Peptide Label: isoform X1
- UniProtKB: P10276 (UniProtKB/Swiss-Prot),   Q6I9R7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005257609   ⟸   XM_005257552
- Peptide Label: isoform X4
- UniProtKB: A8MUP8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011523397   ⟸   XM_011525095
- Peptide Label: isoform X1
- UniProtKB: P10276 (UniProtKB/Swiss-Prot),   Q6I9R7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011523398   ⟸   XM_011525096
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_016880409   ⟸   XM_017024920
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSP00000254066   ⟸   ENST00000254066
RefSeq Acc Id: ENSP00000389993   ⟸   ENST00000425707
RefSeq Acc Id: ENSP00000464287   ⟸   ENST00000577646
RefSeq Acc Id: ENSP00000377649   ⟸   ENST00000394089
RefSeq Acc Id: ENSP00000377648   ⟸   ENST00000394086
RefSeq Acc Id: ENSP00000377643   ⟸   ENST00000394081
RefSeq Acc Id: ENSP00000462514   ⟸   ENST00000475125
Protein Domains
NR LBD   Nuclear receptor

Promoters
RGD ID:6794479
Promoter ID:HG_KWN:26048
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:HeLa_S3,   K562,   Lymphoblastoid
Transcripts:OTTHUMT00000257136
Position:
Human AssemblyChrPosition (strand)Source
Build 361735,718,734 - 35,719,234 (+)MPROMDB
RGD ID:6794478
Promoter ID:HG_KWN:26049
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   CD4+TCell_12Hour,   CD4+TCell_2Hour,   HeLa_S3,   K562,   Lymphoblastoid,   NB4
Transcripts:NM_001145301,   NM_001145302
Position:
Human AssemblyChrPosition (strand)Source
Build 361735,727,669 - 35,728,169 (+)MPROMDB
RGD ID:6811298
Promoter ID:HG_ACW:34423
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell_2Hour,   K562,   Lymphoblastoid,   NB4
Transcripts:RARA.KAPR07
Position:
Human AssemblyChrPosition (strand)Source
Build 361735,731,741 - 35,732,297 (+)MPROMDB
RGD ID:6794485
Promoter ID:HG_KWN:26051
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   CD4+TCell_12Hour,   HeLa_S3,   K562,   Lymphoblastoid
Transcripts:ENST00000319149,   ENST00000394086,   NM_001024809
Position:
Human AssemblyChrPosition (strand)Source
Build 361735,750,909 - 35,751,409 (+)MPROMDB
RGD ID:6794484
Promoter ID:HG_KWN:26052
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell_12Hour,   Lymphoblastoid
Transcripts:OTTHUMT00000257140
Position:
Human AssemblyChrPosition (strand)Source
Build 361735,755,034 - 35,755,534 (+)MPROMDB
RGD ID:7234921
Promoter ID:EPDNEW_H23206
Type:initiation region
Name:RARA_2
Description:retinoic acid receptor alpha
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H23208  EPDNEW_H23207  EPDNEW_H23209  
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,309,180 - 40,309,240EPDNEW
RGD ID:7234925
Promoter ID:EPDNEW_H23207
Type:initiation region
Name:RARA_1
Description:retinoic acid receptor alpha
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H23206  EPDNEW_H23208  EPDNEW_H23209  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,318,245 - 40,318,305EPDNEW
RGD ID:7234923
Promoter ID:EPDNEW_H23208
Type:multiple initiation site
Name:RARA_4
Description:retinoic acid receptor alpha
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H23206  EPDNEW_H23207  EPDNEW_H23209  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,318,585 - 40,318,645EPDNEW
RGD ID:7234929
Promoter ID:EPDNEW_H23209
Type:initiation region
Name:RARA_3
Description:retinoic acid receptor alpha
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H23206  EPDNEW_H23208  EPDNEW_H23207  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381740,342,372 - 40,342,432EPDNEW

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 17q21.33-24.2(chr17:36449220-68170214)x3 copy number gain See cases [RCV000050957] Chr17:36449220..68170214 [GRCh38]
Chr17:48563237..65936105 [GRCh37]
Chr17:45918236..63677950 [NCBI36]
Chr17:17q21.33-24.2
pathogenic
GRCh38/hg38 17q23.2-25.3(chr17:36449220-83086677)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052483]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052483]|See cases [RCV000052483] Chr17:36449220..83086677 [GRCh38]
Chr17:58617905..81044553 [GRCh37]
Chr17:55972687..78637842 [NCBI36]
Chr17:17q23.2-25.3
pathogenic
GRCh38/hg38 17q12-21.31(chr17:39199873-45629579)x3 copy number gain See cases [RCV000052479] Chr17:39199873..45629579 [GRCh38]
Chr17:37356126..43706945 [GRCh37]
Chr17:34609652..41062728 [NCBI36]
Chr17:17q12-21.31
pathogenic
NM_000964.4(RARA):c.826C>T (p.Arg276Trp) single nucleotide variant all trans retinoic acid (ATRA) response [RCV000171542]|not provided [RCV001281697] Chr17:40354320 [GRCh38]
Chr17:38510572 [GRCh37]
Chr17:17q21.2
drug response|uncertain significance
NM_000964.4(RARA):c.1226_*1del (p.Leu409_Ter463delinsXaa) deletion all trans retinoic acid (ATRA) response [RCV000171543] Chr17:40356062..40356226 [GRCh38]
Chr17:38512314..38512478 [GRCh37]
Chr17:17q21.2
drug response
GRCh38/hg38 17q23.1-25.1(chr17:36449220-75053130)x3 copy number gain See cases [RCV000137437] Chr17:36449220..75053130 [GRCh38]
Chr17:57595736..73049225 [GRCh37]
Chr17:54950518..70560820 [NCBI36]
Chr17:17q23.1-25.1
pathogenic
GRCh37/hg19 17p13.3-q25.3(chr17:526-81041938) copy number gain See cases [RCV000511439] Chr17:526..81041938 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
GRCh37/hg19 17p13.3-q25.3(chr17:526-81041938)x3 copy number gain See cases [RCV000512441] Chr17:526..81041938 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
GRCh37/hg19 17p13.3-q25.3(chr17:12344-81057996)x3 copy number gain not provided [RCV000739325] Chr17:12344..81057996 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
GRCh37/hg19 17p13.3-q25.3(chr17:8547-81060040)x3 copy number gain not provided [RCV000739324] Chr17:8547..81060040 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
GRCh37/hg19 17p13.3-q25.3(chr17:7214-81058310)x3 copy number gain not provided [RCV000739320] Chr17:7214..81058310 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
NM_000964.4(RARA):c.543G>A (p.Thr181=) single nucleotide variant not provided [RCV000898269] Chr17:40351983 [GRCh38]
Chr17:38508235 [GRCh37]
Chr17:17q21.2
likely benign
NM_000964.4(RARA):c.469+9C>T single nucleotide variant not provided [RCV000951141] Chr17:40349934 [GRCh38]
Chr17:38506186 [GRCh37]
Chr17:17q21.2
benign
NM_000964.4(RARA):c.1299C>T (p.Asp433=) single nucleotide variant not provided [RCV000921679] Chr17:40356136 [GRCh38]
Chr17:38512388 [GRCh37]
Chr17:17q21.2
likely benign
NM_000964.4(RARA):c.837C>T (p.Pro279=) single nucleotide variant not provided [RCV000961489] Chr17:40354331 [GRCh38]
Chr17:38510583 [GRCh37]
Chr17:17q21.2
benign
NM_000964.4(RARA):c.72C>T (p.Tyr24=) single nucleotide variant not provided [RCV000888141] Chr17:40331290 [GRCh38]
Chr17:38487542 [GRCh37]
Chr17:17q21.2
likely benign
GRCh37/hg19 17p11.2-q21.2(chr17:21690653-38772647)x3 copy number gain not provided [RCV000846852] Chr17:21690653..38772647 [GRCh37]
Chr17:17p11.2-q21.2
pathogenic
NM_000964.4(RARA):c.1013-6C>T single nucleotide variant not provided [RCV000892114] Chr17:40355257 [GRCh38]
Chr17:38511509 [GRCh37]
Chr17:17q21.2
benign
NM_000964.4(RARA):c.827G>A (p.Arg276Gln) single nucleotide variant Inborn genetic diseases [RCV001266577] Chr17:40354321 [GRCh38]
Chr17:38510573 [GRCh37]
Chr17:17q21.2
likely pathogenic

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:9864 AgrOrtholog
COSMIC RARA COSMIC
Ensembl Genes ENSG00000131759 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSP00000254066 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000377643 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000377648 ENTREZGENE, UniProtKB/TrEMBL
  ENSP00000377649 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000389993 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000462514 UniProtKB/TrEMBL
  ENSP00000464287 UniProtKB/TrEMBL
Ensembl Transcript ENST00000254066 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000394081 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000394086 ENTREZGENE, UniProtKB/TrEMBL
  ENST00000394089 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000425707 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000475125 UniProtKB/TrEMBL
  ENST00000577646 UniProtKB/TrEMBL
Gene3D-CATH 1.10.565.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.30.50.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000131759 GTEx
HGNC ID HGNC:9864 ENTREZGENE
Human Proteome Map RARA Human Proteome Map
InterPro NHR-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucl_hrmn_rcpt_lig-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nuclear_hrmn_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Retinoic_acid_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_hrmn_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_NHR/GATA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:5914 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 5914 ENTREZGENE
OMIM 180240 OMIM
  612376 OMIM
Pfam Hormone_recep UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  zf-C4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA34225 PharmGKB
PRINTS RETNOICACIDR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STRDHORMONER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STROIDFINGER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE NR_LBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NUCLEAR_REC_DBD_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NUCLEAR_REC_DBD_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HOLI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZnF_C4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48508 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A8K840 ENTREZGENE, UniProtKB/TrEMBL
  A8MUP8 ENTREZGENE, UniProtKB/TrEMBL
  F1D8N9 ENTREZGENE, UniProtKB/TrEMBL
  J3KSJ4_HUMAN UniProtKB/TrEMBL
  J3QRM2_HUMAN UniProtKB/TrEMBL
  P10276 ENTREZGENE
  Q15997_HUMAN UniProtKB/TrEMBL
  Q6I9R7 ENTREZGENE, UniProtKB/TrEMBL
  RARA_HUMAN UniProtKB/Swiss-Prot
UniProt Secondary B8Y636 UniProtKB/Swiss-Prot
  P78456 UniProtKB/Swiss-Prot
  Q13440 UniProtKB/Swiss-Prot
  Q13441 UniProtKB/Swiss-Prot
  Q96S41 UniProtKB/Swiss-Prot
  Q9NQS0 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-02 RARA  retinoic acid receptor alpha    retinoic acid receptor, alpha  Symbol and/or name change 5135510 APPROVED