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RARA retinoic acid receptor, alpha [ Homo sapiens (human) ]

Gene ID: 5914, updated on 26-Aug-2014
Official Symbol
RARAprovided by HGNC
Official Full Name
retinoic acid receptor, alphaprovided by HGNC
Primary source
HGNC:9864
See related
Ensembl:ENSG00000131759; HPRD:06769; MIM:180240
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
RAR; NR1B1
Summary
This gene represents a nuclear retinoic acid receptor. The encoded protein, retinoic acid receptor alpha, regulates transcription in a ligand-dependent manner. This gene has been implicated in regulation of development, differentiation, apoptosis, granulopoeisis, and transcription of clock genes. Translocations between this locus and several other loci have been associated with acute promyelocytic leukemia. Alternatively spliced transcript variants have been found for this locus.[provided by RefSeq, Sep 2010]
See RARA in Epigenomics, MapViewer
Location:
17q21
Exon count:
15
Annotation release Status Assembly Chr Location
106 current GRCh38 (GCF_000001405.26) 17 NC_000017.11 (40309171..40357643)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (38465423..38513895)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene WAS/WASL interacting protein family, member 2 Neighboring gene RNA, Ro-associated Y4 pseudogene 8 Neighboring gene cell division cycle 6 Neighboring gene RARA antisense RNA 1 Neighboring gene peptidylprolyl isomerase A (cyclophilin A) pseudogene Neighboring gene gap junction protein, delta 3, 31.9kDa

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Protein interactions

Protein Gene Interaction Pubs
Nef nef HIV-1 Nef induces loss of F-actin assembly and inhibits retinoid receptor-mediated transcription PubMed

Go to the HIV-1, Human Protein Interaction Database

  • Acute myeloid leukemia, organism-specific biosystem (from KEGG)
    Acute myeloid leukemia, organism-specific biosystemAcute myeloid leukemia (AML) is a disease that is characterized by uncontrolled proliferation of clonal neoplastic cells and accumulation in the bone marrow of blasts with an impaired differentiation...
  • Acute myeloid leukemia, conserved biosystem (from KEGG)
    Acute myeloid leukemia, conserved biosystemAcute myeloid leukemia (AML) is a disease that is characterized by uncontrolled proliferation of clonal neoplastic cells and accumulation in the bone marrow of blasts with an impaired differentiation...
  • Adipogenesis, organism-specific biosystem (from WikiPathways)
    Adipogenesis, organism-specific biosystemThe different classess of factors involved in adipogenesis are shown. Adipogenesis is the process by which fat cells differentiate from predadipocytes to adipocytes (fat cells). Adipose tissue, compo...
  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Generic Transcription Pathway, organism-specific biosystem (from REACTOME)
    Generic Transcription Pathway, organism-specific biosystemOVERVIEW OF TRANSCRIPTION REGULATION: Detailed studies of gene transcription regulation in a wide variety of eukaryotic systems has revealed the general principles and mechanisms by which cell- or t...
  • IL-3 Signaling Pathway, organism-specific biosystem (from WikiPathways)
    IL-3 Signaling Pathway, organism-specific biosystemInterleukin-3 belongs to a family of cytokines, which includes IL-5 and GM-CSF. It signals through a receptor complex comprising of an IL-3 specific IL-3 receptor alpha subunit (IL3RA) and a common b...
  • Integrated Pancreatic Cancer Pathway, organism-specific biosystem (from WikiPathways)
    Integrated Pancreatic Cancer Pathway, organism-specific biosystemAn integrated pathway model which displays the protein-protein interactions (PPIs) among the relevant proteins for pancreatic cancer. This pathway is a collection of different mechanistic protein pat...
  • Nuclear Receptor transcription pathway, organism-specific biosystem (from REACTOME)
    Nuclear Receptor transcription pathway, organism-specific biosystemA classic example of bifunctional transcription factors is the family of Nuclear Receptor (NR) proteins. These are DNA-binding transcription factors that bind certain hormones, vitamins, and other s...
  • Nuclear Receptors, organism-specific biosystem (from WikiPathways)
    Nuclear Receptors, organism-specific biosystemNuclear receptors are a class of proteins found within the interior of cells that are responsible for sensing the presence of steroid and thyroid hormones and certain other molecules. In response, th...
  • Nuclear receptors in lipid metabolism and toxicity, organism-specific biosystem (from WikiPathways)
    Nuclear receptors in lipid metabolism and toxicity, organism-specific biosystemNuclear receptors are transcription factors that are activated upon binding to its ligands. Initially, they had been classified as classic endocrine nuclear hormone receptors and orphan receptors. Ho...
  • Pathways in cancer, organism-specific biosystem (from KEGG)
    Pathways in cancer, organism-specific biosystem
    Pathways in cancer
  • Retinoic acid receptors-mediated signaling, organism-specific biosystem (from Pathway Interaction Database)
    Retinoic acid receptors-mediated signaling, organism-specific biosystem
    Retinoic acid receptors-mediated signaling
  • Transcriptional misregulation in cancer, organism-specific biosystem (from KEGG)
    Transcriptional misregulation in cancer, organism-specific biosystem
    Transcriptional misregulation in cancer
  • Transcriptional misregulation in cancer, conserved biosystem (from KEGG)
    Transcriptional misregulation in cancer, conserved biosystem
    Transcriptional misregulation in cancer
  • Vitamin A and Carotenoid Metabolism, organism-specific biosystem (from WikiPathways)
    Vitamin A and Carotenoid Metabolism, organism-specific biosystemThis pathway is about carotenoid and vitamin A metabolism. The initial version was created by the NuGO focusteam on Carotenoid metabolism. It was used to test a text mining workflow which added some ...
  • Vitamin A and carotenoid metabolism, organism-specific biosystem (from WikiPathways)
    Vitamin A and carotenoid metabolism, organism-specific biosystemThis pathway is about carotenoid and vitamin A metabolism. The initial version was created by the NuGO focusteam on Carotenoid metabolism. It was used to test a text mining workflow which added some ...
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
chromatin DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
drug binding IEA
Inferred from Electronic Annotation
more info
 
enzyme binding IPI
Inferred from Physical Interaction
more info
PubMed 
mRNA 5'-UTR binding IEA
Inferred from Electronic Annotation
more info
 
phosphatidylinositol 3-kinase regulator activity IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein domain specific binding IPI
Inferred from Physical Interaction
more info
 
protein heterodimerization activity IDA
Inferred from Direct Assay
more info
PubMed 
protein kinase A binding IDA
Inferred from Direct Assay
more info
 
protein kinase B binding IPI
Inferred from Physical Interaction
more info
PubMed 
receptor binding IDA
Inferred from Direct Assay
more info
PubMed 
retinoic acid binding IDA
Inferred from Direct Assay
more info
PubMed 
retinoic acid receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
retinoic acid-responsive element binding IDA
Inferred from Direct Assay
more info
PubMed 
sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 
sequence-specific DNA binding transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
steroid hormone receptor activity IEA
Inferred from Electronic Annotation
more info
 
transcription coactivator activity IDA
Inferred from Direct Assay
more info
 
transcription coactivator activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
transcription corepressor activity IDA
Inferred from Direct Assay
more info
 
transcription factor binding IPI
Inferred from Physical Interaction
more info
PubMed 
translation repressor activity, nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
Sertoli cell fate commitment IEA
Inferred from Electronic Annotation
more info
 
apoptotic cell clearance IMP
Inferred from Mutant Phenotype
more info
PubMed 
cellular response to estrogen stimulus IDA
Inferred from Direct Assay
more info
 
cellular response to lipopolysaccharide IEA
Inferred from Electronic Annotation
more info
 
cellular response to retinoic acid IDA
Inferred from Direct Assay
more info
PubMed 
chondroblast differentiation IEA
Inferred from Electronic Annotation
more info
 
female pregnancy IEA
Inferred from Electronic Annotation
more info
 
gene expression TAS
Traceable Author Statement
more info
 
germ cell development IEA
Inferred from Electronic Annotation
more info
 
growth plate cartilage development IEA
Inferred from Electronic Annotation
more info
 
intracellular estrogen receptor signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
liver development IEA
Inferred from Electronic Annotation
more info
 
multicellular organism growth IEA
Inferred from Electronic Annotation
more info
 
negative regulation of cartilage development IEA
Inferred from Electronic Annotation
more info
 
negative regulation of cell proliferation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of granulocyte differentiation IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of interferon-gamma production IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of transcription from RNA polymerase II promoter IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
 
negative regulation of translational initiation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of tumor necrosis factor production IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of ERK1 and ERK2 cascade IEA
Inferred from Electronic Annotation
more info
 
positive regulation of T-helper 2 cell differentiation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of binding IMP
Inferred from Mutant Phenotype
more info
 
positive regulation of cell cycle IMP
Inferred from Mutant Phenotype
more info
 
positive regulation of cell proliferation IMP
Inferred from Mutant Phenotype
more info
 
positive regulation of interleukin-13 production IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of interleukin-4 production IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of interleukin-5 production IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of neuron differentiation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of phosphatidylinositol 3-kinase signaling IEA
Inferred from Electronic Annotation
more info
 
positive regulation of protein kinase B signaling IEA
Inferred from Electronic Annotation
more info
 
positive regulation of transcription from RNA polymerase II promoter IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription from RNA polymerase II promoter IMP
Inferred from Mutant Phenotype
more info
 
positive regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription, DNA-templated IMP
Inferred from Mutant Phenotype
more info
PubMed 
prostate gland development IEA
Inferred from Electronic Annotation
more info
 
protein phosphorylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of apoptotic process IEA
Inferred from Electronic Annotation
more info
 
regulation of myelination IEA
Inferred from Electronic Annotation
more info
 
regulation of phosphatidylinositol 3-kinase activity IEA
Inferred from Electronic Annotation
more info
 
regulation of synaptic plasticity IEA
Inferred from Electronic Annotation
more info
 
response to cytokine IEA
Inferred from Electronic Annotation
more info
 
response to estradiol IDA
Inferred from Direct Assay
more info
PubMed 
response to ethanol IEA
Inferred from Electronic Annotation
more info
 
response to retinoic acid IMP
Inferred from Mutant Phenotype
more info
PubMed 
response to vitamin A IEA
Inferred from Electronic Annotation
more info
 
retinoic acid receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
signal transduction IDA
Inferred from Direct Assay
more info
PubMed 
spermatogenesis IEA
Inferred from Electronic Annotation
more info
 
steroid hormone mediated signaling pathway IEA
Inferred from Electronic Annotation
more info
 
transcription initiation from RNA polymerase II promoter TAS
Traceable Author Statement
more info
 
ureteric bud development IEA
Inferred from Electronic Annotation
more info
 
ventricular cardiac muscle cell differentiation IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cell surface IC
Inferred by Curator
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
dendrite IEA
Inferred from Electronic Annotation
more info
 
neuronal cell body IEA
Inferred from Electronic Annotation
more info
 
nuclear chromatin IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 
Preferred Names
retinoic acid receptor alpha
Names
retinoic acid receptor alpha
RAR-alpha
retinoic acid receptor, alpha polypeptide
nuclear receptor subfamily 1 group B member 1
retinoic acid nuclear receptor alpha variant 1
retinoic acid nuclear receptor alpha variant 2
nucleophosmin-retinoic acid receptor alpha fusion protein NPM-RAR long form

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_027701.1 

    Range
    5001..53473
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_000964.3NP_000955.1  retinoic acid receptor alpha isoform 1

    See proteins identical to NP_000955.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest protein (isoform 1). Variants 1 and 3 encode the same isoform (1).
    Source sequence(s)
    BC008727, BM992549, DA061829, X06614
    Consensus CDS
    CCDS11366.1
    UniProtKB/Swiss-Prot
    P10276
    UniProtKB/TrEMBL
    Q6I9R7
    Conserved Domains (3) summary
    cd06937
    Location:186416
    Blast Score: 1246
    NR_LBD_RAR; The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily
    cd06964
    Location:82166
    Blast Score: 490
    NR_DBD_RAR; DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers
    pfam11936
    Location:1968
    Blast Score: 82
    DUF3454; Domain of unknown function (DUF3454)
  2. NM_001024809.3NP_001019980.1  retinoic acid receptor alpha isoform 2

    See proteins identical to NP_001019980.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) reflects the use of an alternate promoter and has a distinct 5' exon, compared to transcript variant 1. Translation is predicted to initiate from this alternate exon, and the resulting protein (isoform 2) has a shorter and a distinct N-terminus compared to isoform 1.
    Source sequence(s)
    AC080112, BC071733, BM838347, BM992549, CB105313
    Consensus CDS
    CCDS42317.1
    UniProtKB/TrEMBL
    F1D8N9
    UniProtKB/Swiss-Prot
    P10276
    Conserved Domains (2) summary
    cd06937
    Location:181411
    Blast Score: 1250
    NR_LBD_RAR; The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily
    cd06964
    Location:77161
    Blast Score: 486
    NR_DBD_RAR; DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers
  3. NM_001145301.2NP_001138773.1  retinoic acid receptor alpha isoform 1

    See proteins identical to NP_001138773.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) reflects the use of an alternate promoter and contains a different 5' UTR segment, compared to variant 1. Variants 1 and 3 encode the same isoform (1).
    Source sequence(s)
    AK292205, BG394590, BM992549, X06614
    Consensus CDS
    CCDS11366.1
    UniProtKB/TrEMBL
    A8K840
    UniProtKB/Swiss-Prot
    P10276
    UniProtKB/TrEMBL
    Q6I9R7
    Conserved Domains (3) summary
    cd06937
    Location:186416
    Blast Score: 1246
    NR_LBD_RAR; The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily
    cd06964
    Location:82166
    Blast Score: 490
    NR_DBD_RAR; DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers
    pfam11936
    Location:1968
    Blast Score: 82
    DUF3454; Domain of unknown function (DUF3454)
  4. NM_001145302.2NP_001138774.1  retinoic acid receptor alpha isoform 4

    See proteins identical to NP_001138774.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) reflects the use of an alternate promoter and contains a different 5' UTR segment. This variant also lacks two in-frame coding exons, compared to variant 1. The resulting protein (isoform 4) is shorter compared to isoform 1.
    Source sequence(s)
    AC080112, BG394590, BM992549, FJ487576
    Consensus CDS
    CCDS45671.1
    UniProtKB/Swiss-Prot
    P10276
    Related
    ENSP00000389993, OTTHUMP00000262026, ENST00000425707, OTTHUMT00000447443
    Conserved Domains (1) summary
    cd06937
    Location:89319
    Blast Score: 1224
    NR_LBD_RAR; The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 106

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38 Primary Assembly

Genomic

  1. NC_000017.11 

    Range
    40309171..40357643
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005257554.1XP_005257611.1  

    See proteins identical to XP_005257611.1

    UniProtKB/Swiss-Prot
    P10276
    UniProtKB/TrEMBL
    Q6I9R7
    Conserved Domains (3) summary
    cd06937
    Location:186416
    Blast Score: 1246
    NR_LBD_RAR; The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily
    cd06964
    Location:82166
    Blast Score: 490
    NR_DBD_RAR; DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers
    pfam11936
    Location:1968
    Blast Score: 82
    DUF3454; Domain of unknown function (DUF3454)
  2. XM_005257555.1XP_005257612.1  

    See proteins identical to XP_005257612.1

    UniProtKB/Swiss-Prot
    P10276
    UniProtKB/TrEMBL
    Q6I9R7
    Conserved Domains (3) summary
    cd06937
    Location:186416
    Blast Score: 1246
    NR_LBD_RAR; The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily
    cd06964
    Location:82166
    Blast Score: 490
    NR_DBD_RAR; DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers
    pfam11936
    Location:1968
    Blast Score: 82
    DUF3454; Domain of unknown function (DUF3454)
  3. XM_005257553.1XP_005257610.1  

    See proteins identical to XP_005257610.1

    UniProtKB/Swiss-Prot
    P10276
    UniProtKB/TrEMBL
    Q6I9R7
    Conserved Domains (3) summary
    cd06937
    Location:186416
    Blast Score: 1246
    NR_LBD_RAR; The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily
    cd06964
    Location:82166
    Blast Score: 490
    NR_DBD_RAR; DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers
    pfam11936
    Location:1968
    Blast Score: 82
    DUF3454; Domain of unknown function (DUF3454)
  4. XM_005257552.2XP_005257609.1  

    See proteins identical to XP_005257609.1

    UniProtKB/TrEMBL
    A8MUP8
    Conserved Domains (2) summary
    cd06937
    Location:202432
    Blast Score: 1260
    NR_LBD_RAR; The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily
    cd06964
    Location:98182
    Blast Score: 475
    NR_DBD_RAR; DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers

Alternate HuRef

Genomic

  1. AC_000149.1 

    Range
    34258584..34307018
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate CHM1_1.1

Genomic

  1. NC_018928.2 

    Range
    38700731..38749203
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001033603.1: Suppressed sequence

    Description
    NM_001033603.1: This RefSeq was permanently suppressed because the 3'UTR is not supported and the transcript is a nonsense-mediated mRNA decay (NMD) candidate.