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Aliases for RARA Gene

Aliases for RARA Gene

  • Retinoic Acid Receptor Alpha 2 3 3 5
  • Nuclear Receptor Subfamily 1 Group B Member 1 3 4
  • RAR-Alpha 3 4
  • NR1B1 3 4
  • Nucleophosmin-Retinoic Acid Receptor Alpha Fusion Protein NPM-RAR Long Form 3
  • Retinoic Acid Nuclear Receptor Alpha Variant 1 3
  • Retinoic Acid Nuclear Receptor Alpha Variant 2 3
  • Retinoic Acid Receptor, Alpha Polypeptide 3
  • Retinoic Acid Receptor, Alpha 2
  • RAR 3

External Ids for RARA Gene

Previous GeneCards Identifiers for RARA Gene

  • GC17P037961
  • GC17P040640
  • GC17P038374
  • GC17P038838
  • GC17P038860
  • GC17P035718
  • GC17P038465
  • GC17P034259

Summaries for RARA Gene

Entrez Gene Summary for RARA Gene

  • 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]

GeneCards Summary for RARA Gene

RARA (Retinoic Acid Receptor Alpha) is a Protein Coding gene. Diseases associated with RARA include Acute Promyelocytic Leukemia and Leukemia. Among its related pathways are Gene Expression and Adipogenesis. Gene Ontology (GO) annotations related to this gene include DNA binding transcription factor activity and protein heterodimerization activity. An important paralog of this gene is RARB.

UniProtKB/Swiss-Prot for RARA Gene

  • Receptor for retinoic acid. Retinoic acid receptors bind as heterodimers to their target response elements in response to their ligands, all-trans or 9-cis retinoic acid, and regulate gene expression in various biological processes. The RXR/RAR heterodimers bind to the retinoic acid response elements (RARE) composed of tandem 5-AGGTCA-3 sites known as DR1-DR5. In the absence of ligand, the RXR-RAR heterodimers associate with a multiprotein complex containing transcription corepressors that induce histone acetylation, chromatin condensation and transcriptional suppression. On ligand binding, the corepressors dissociate from the receptors and associate with the coactivators leading to transcriptional activation. RARA plays an essential role in the regulation of retinoic acid-induced germ cell development during spermatogenesis. Has a role in the survival of early spermatocytes at the beginning prophase of meiosis. In Sertoli cells, may promote the survival and development of early meiotic prophase spermatocytes. In concert with RARG, required for skeletal growth, matrix homeostasis and growth plate function (By similarity).

Tocris Summary for RARA Gene

  • Retinoic acid receptors (RARs) are nuclear hormone receptors of the NR1B class, which function as heterodimers with retinoid X receptors (RXRs). There are three distinct RAR subtypes: RARalpha, present in most tissue types; and RARbeta and RARgamma, with more selective expression.

Gene Wiki entry for RARA Gene

Additional gene information for RARA Gene

No data available for CIViC summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RARA Gene

Genomics for RARA Gene

GeneHancer (GH) Regulatory Elements for RARA Gene

Promoters and enhancers for RARA Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17J040306 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 701.1 +8.4 8354 22.8 CLOCK ZFP64 FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 SP3 RARA MED1 CDK12 SMARCE1 SNORD124 MED24 MSL1 TMEM99 STARD3 CDC6
GH17J040337 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 677.5 +36.0 35980 15.1 PKNOX1 FOXA2 MLX ARID4B SIN3A DMAP1 YY1 POLR2B E2F8 FOS RARA MSL1 RAPGEFL1 ENSG00000266208 RARA-AS1 WIPF2 CASC3 ENSG00000278918
GH17J040102 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 37.2 -199.7 -199705 13.3 CLOCK MLX ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF213 E2F8 ZNF143 NR1D1 CDK12 MED1 MSL1 SMARCE1 RARA RPL19 MED24 SNORD124 STARD3
GH17J040088 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 24 -213.8 -213824 14.4 CLOCK MLX ZFP64 FEZF1 DMAP1 YBX1 IRF4 YY1 SLC30A9 ZNF213 NR1D1 CDK12 MED1 SMARCE1 MSL1 RARA RPL19 MED24 GSDMA CCR7
GH17J040285 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 24.3 -21.5 -21547 3.4 HDGF PKNOX1 SMAD1 FOXA2 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 CDC6 CDK12 RARA MSL1 MED1 SMARCE1 FBXL20 ENSG00000266208 WIPF2 PIR47746
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RARA on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RARA gene promoter:
  • STAT1
  • p53
  • C/EBPalpha
  • Sp1

Genomic Locations for RARA Gene

Genomic Locations for RARA Gene
chr17:40,309,171-40,357,643
(GRCh38/hg38)
Size:
48,473 bases
Orientation:
Plus strand
chr17:38,465,423-38,513,895
(GRCh37/hg19)
Size:
48,473 bases
Orientation:
Plus strand

Genomic View for RARA Gene

Genes around RARA on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RARA Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RARA Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RARA Gene

Proteins for RARA Gene

  • Protein details for RARA Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P10276-RARA_HUMAN
    Recommended name:
    Retinoic acid receptor alpha
    Protein Accession:
    P10276
    Secondary Accessions:
    • B8Y636
    • P78456
    • Q13440
    • Q13441
    • Q96S41
    • Q9NQS0

    Protein attributes for RARA Gene

    Size:
    462 amino acids
    Molecular mass:
    50771 Da
    Quaternary structure:
    • Heterodimer; with RXRA. Binds DNA preferentially as a heterodimer. Interacts with CDK7 (By similarity). Interacts with coactivators NCOA3 and NCOA6. Interacts with NCOA7; the interaction requires ligand-binding. Interacts (via the ligand-binding domain) with PRAME; the interaction is ligand (retinoic acid)-dependent. Interacts with AKT1; the interaction phosphorylates RARA and represses transactivation. Interacts with PRKAR1A; the interaction negatively regulates RARA transcriptional activity. Interacts with NCOR1 and NCOR2. Interacts with PRMT2. Interacts with LRIF1. Interacts with ASXL1 and NCOA1. Interacts with ACTN4.
    SequenceCaution:
    • Sequence=AAB00112.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAB00113.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAB62809.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for RARA Gene

    Alternative splice isoforms for RARA Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RARA Gene

Post-translational modifications for RARA Gene

  • Phosphorylated on serine and threonine residues. Phosphorylation does not change during cell cycle. Phosphorylation on Ser-77 is crucial for transcriptional activity (By similarity). Phosphorylation by AKT1 is required for the repressor activity but has no effect on DNA binding, protein stability nor subcellular localization. Phosphorylated by PKA in vitro. This phosphorylation on Ser-219 and Ser-369 is critical for ligand binding, nuclear localization and transcriptional activity in response to FSH signaling.
  • Sumoylated with SUMO2, mainly on Lys-399 which is also required for SENP6 binding. On all-trans retinoic acid (ATRA) binding, a confromational change may occur that allows sumoylation on two additional site, Lys-166 and Lys-171. Probably desumoylated by SENP6. Sumoylation levels determine nuclear localization and regulate ATRA-mediated transcriptional activity.
  • Trimethylation enhances heterodimerization with RXRA and positively modulates the transcriptional activation.
  • Ubiquitinated.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for RARA Gene

Domains & Families for RARA Gene

Gene Families for RARA Gene

HGNC:
IUPHAR :
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Disease related genes
  • FDA approved drug targets
  • Nuclear receptors
  • Plasma proteins
  • Predicted intracellular proteins
  • Transcription factors

Graphical View of Domain Structure for InterPro Entry

P10276

UniProtKB/Swiss-Prot:

RARA_HUMAN :
  • Composed of three domains: a modulating N-terminal domain, a DNA-binding domain and a C-terminal ligand-binding domain.
  • Belongs to the nuclear hormone receptor family. NR1 subfamily.
Domain:
  • Composed of three domains: a modulating N-terminal domain, a DNA-binding domain and a C-terminal ligand-binding domain.
Family:
  • Belongs to the nuclear hormone receptor family. NR1 subfamily.
genes like me logo Genes that share domains with RARA: view

Function for RARA Gene

Molecular function for RARA Gene

UniProtKB/Swiss-Prot Function:
Receptor for retinoic acid. Retinoic acid receptors bind as heterodimers to their target response elements in response to their ligands, all-trans or 9-cis retinoic acid, and regulate gene expression in various biological processes. The RXR/RAR heterodimers bind to the retinoic acid response elements (RARE) composed of tandem 5-AGGTCA-3 sites known as DR1-DR5. In the absence of ligand, the RXR-RAR heterodimers associate with a multiprotein complex containing transcription corepressors that induce histone acetylation, chromatin condensation and transcriptional suppression. On ligand binding, the corepressors dissociate from the receptors and associate with the coactivators leading to transcriptional activation. RARA plays an essential role in the regulation of retinoic acid-induced germ cell development during spermatogenesis. Has a role in the survival of early spermatocytes at the beginning prophase of meiosis. In Sertoli cells, may promote the survival and development of early meiotic prophase spermatocytes. In concert with RARG, required for skeletal growth, matrix homeostasis and growth plate function (By similarity).
GENATLAS Biochemistry:
retinoic acid receptor binding and activated by both all-trans (T-RA) and its 9-cis isomer (9-cis-RA) retinoic acids,alpha subunit,steroid/thyroid hormone receptor superfamily

Phenotypes From GWAS Catalog for RARA Gene

Gene Ontology (GO) - Molecular Function for RARA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000900 translation repressor activity, mRNA regulatory element binding IEA --
GO:0000976 transcription regulatory region sequence-specific DNA binding IBA --
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding IBA,IEA --
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding NAS 19274049
GO:0001012 RNA polymerase II regulatory region DNA binding IEA --
genes like me logo Genes that share ontologies with RARA: view
genes like me logo Genes that share phenotypes with RARA: view

Human Phenotype Ontology for RARA Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for RARA Gene

MGI Knock Outs for RARA:

Animal Model Products

Clone Products

  • Addgene plasmids for RARA

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for RARA Gene

Localization for RARA Gene

Subcellular locations from UniProtKB/Swiss-Prot for RARA Gene

Nucleus. Cytoplasm. Note=Nuclear localization depends on ligand binding, phosphorylation and sumoylation. Transloaction to the nucleus in the absence of ligand is dependent on activation of PKC and the downstream MAPK phosphorylation.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RARA gene
Compartment Confidence
cytoskeleton 5
nucleus 5
cytosol 5
plasma membrane 2
extracellular 1
mitochondrion 1
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (3)
  • Nucleus (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RARA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000790 nuclear chromatin IDA 17363140
GO:0005634 nucleus IDA,IEA 18845237
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IDA,IEA 19850744
GO:0005829 cytosol IDA --
genes like me logo Genes that share ontologies with RARA: view

Pathways & Interactions for RARA Gene

genes like me logo Genes that share pathways with RARA: view

SIGNOR curated interactions for RARA Gene

Activates:
Inactivates:
Is activated by:
Is inactivated by:
Other effect:

Gene Ontology (GO) - Biological Process for RARA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription by RNA polymerase II IEA --
GO:0001657 ureteric bud development IEA --
GO:0001843 neural tube closure IEA --
GO:0001889 liver development IEA --
GO:0002068 glandular epithelial cell development IEA --
genes like me logo Genes that share ontologies with RARA: view

Drugs & Compounds for RARA Gene

(88) Drugs for RARA Gene - From: DrugBank, PharmGKB, ApexBio, DGIdb, IUPHAR, HMDB, Tocris, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Tamibarotene Approved, Investigational Pharma Agonist, binder, Target, agonist RARα agonist 0
Tretinoin Approved, Investigational Nutra Full agonist, Agonist, Antagonist, binder, Target 242
Acitretin Approved Pharma inhibitor, Target, agonist Metabolite of etretinate 30
Adapalene Approved Pharma binder, Target, agonist RAR尾 and RAR纬 agonist 78
Tazarotene Approved, Investigational Pharma binder, Target, agonist Topical retinoid;antiproliferative;inducer of TIG3 tumor suppressor 46

(45) Additional Compounds for RARA Gene - From: Novoseek and Tocris

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
retinoic acid
302-79-4
Liarozole dihydrochloride

(5) Tocris Compounds for RARA Gene

Compound Action Cas Number
EC 23 Synthetic retinoid; induces differentiation of stem cells 104561-41-3
Isotretinoin Endogenous agonist for retinoic acid receptors; inducer of neuronal differentiation 4759-48-2
Liarozole dihydrochloride Blocks retinoic acid metabolism
Retinoic acid Endogenous retinoic acid receptor agonist 302-79-4
TTNPB Retinoic acid analog; RAR agonist 71441-28-6

(26) ApexBio Compounds for RARA Gene

Compound Action Cas Number
Acitretin Metabolite of etretinate 55079-83-9
Acitretin sodium 925701-88-8
Adapalene RAR尾 and RAR纬 agonist 106685-40-9
Adarotene Apoptosis inducer/DNA damage agent 496868-77-0
AGN 194310 pan-RAR antagonist 229961-45-9
AGN 195183 RARαagonist,potent and selective 191469-29-1
AGN 196996 RARαantagonist 958295-17-5
AGN 205327 Potent RARs agonist
AM580 Selective RARα agonist 102121-60-8
BMS 195614 Neutral RARα selective antagonist 253310-42-8
BMS 453 RAR agonist 166977-43-1
BMS 493 Pan-RAR inverse agonist 215030-90-3
BMS 753 RARα-selective agonist 215307-86-1
Ch 55 110368-33-7
EC 23 104561-41-3
ER 50891 187400-85-7
Fenretinide Synthetic retinoid agonist 65646-68-6
LE 135 155877-83-1
MM 11253 345952-44-5
Palovarotene 410528-02-8
Talarozole Cytochrome P450 inhibitor 201410-53-9
Tamibarotene RARα agonist 94497-51-5
Tazarotene Topical retinoid;antiproliferative;inducer of TIG3 tumor suppressor 118292-40-3
Tretinoin (Aberela) 302-79-4
TTNPB (Arotinoid Acid) Potent RAR agonist 71441-28-6
Vitamin A Acetate Unsaturated nutritional hydrocarbons 127-47-9
genes like me logo Genes that share compounds with RARA: view

Drug Products

Transcripts for RARA Gene

Unigene Clusters for RARA Gene

Retinoic acid receptor, alpha:
Representative Sequences:

Clone Products

  • Addgene plasmids for RARA

Alternative Splicing Database (ASD) splice patterns (SP) for RARA Gene

ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5a · 5b · 5c ^ 6a · 6b ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12a · 12b ^ 13 ^ 14 ^ 15
SP1: - - - - - - - -
SP2: - - - - - - - - -
SP3: - - - - -
SP4: -
SP5: - - - -
SP6:
SP7: -
SP8: -

Relevant External Links for RARA Gene

GeneLoc Exon Structure for
RARA
ECgene alternative splicing isoforms for
RARA

Expression for RARA Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RARA Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RARA Gene

This gene is overexpressed in Whole Blood (x9.5).

Protein differential expression in normal tissues from HIPED for RARA Gene

This gene is overexpressed in Heart (54.1) and Cerebrospinal fluid (14.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for RARA Gene



Protein tissue co-expression partners for RARA Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RARA Gene:

RARA

SOURCE GeneReport for Unigene cluster for RARA Gene:

Hs.654583

Evidence on tissue expression from TISSUES for RARA Gene

  • Bone marrow(4.6)
  • Nervous system(4.6)
  • Blood(4.5)
  • Kidney(2)
  • Liver(2)
  • Lung(2)
  • Skin(2)
  • Thyroid gland(2)

Phenotype-based relationships between genes and organs from Gene ORGANizer for RARA Gene

Germ Layers:
  • mesoderm
Systems:
  • immune
  • lymphatic
Regions:
General:
  • blood
  • bone marrow
  • white blood cell
genes like me logo Genes that share expression patterns with RARA: view

No data available for mRNA Expression by UniProt/SwissProt for RARA Gene

Orthologs for RARA Gene

This gene was present in the common ancestor of animals.

Orthologs for RARA Gene

Organism Taxonomy Gene Similarity Type Details
oppossum
(Monodelphis domestica)
Mammalia RARA 34
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RARA 34 33
  • 94.66 (n)
OneToOne
cow
(Bos Taurus)
Mammalia RARA 34 33
  • 94.59 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Rara 16 34 33
  • 91.56 (n)
chimpanzee
(Pan troglodytes)
Mammalia RARA 34
  • 91 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rara 33
  • 90.27 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia RARA 34
  • 74 (a)
OneToOne