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Aliases for RXRA Gene

Aliases for RXRA Gene

  • Retinoid X Receptor Alpha 2 3 4 5
  • Nuclear Receptor Subfamily 2 Group B Member 1 2 3 4
  • Retinoid X Receptor, Alpha 2 3
  • NR2B1 3 4
  • Retinoid X Nuclear Receptor Alpha 3

External Ids for RXRA Gene

Previous GeneCards Identifiers for RXRA Gene

  • GC09P128442
  • GC09P129062
  • GC09P130816
  • GC09P132732
  • GC09P132661
  • GC09P134519
  • GC09P136358
  • GC09P137208
  • GC09P106757

Summaries for RXRA Gene

Entrez Gene Summary for RXRA Gene

  • Retinoid X receptors (RXRs) and retinoic acid receptors (RARs) are nuclear receptors that mediate the biological effects of retinoids by their involvement in retinoic acid-mediated gene activation. These receptors function as transcription factors by binding as homodimers or heterodimers to specific sequences in the promoters of target genes. The protein encoded by this gene is a member of the steroid and thyroid hormone receptor superfamily of transcriptional regulators. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, May 2014]

GeneCards Summary for RXRA Gene

RXRA (Retinoid X Receptor Alpha) is a Protein Coding gene. Diseases associated with RXRA include x-linked adrenal hypoplasia congenita. Among its related pathways are Adipocytokine signaling pathway and Bile secretion. GO annotations related to this gene include transcription factor activity, sequence-specific DNA binding and protein heterodimerization activity. An important paralog of this gene is RXRG.

UniProtKB/Swiss-Prot for RXRA 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 RAR/RXR heterodimers bind to the retinoic acid response elements (RARE) composed of tandem 5-AGGTCA-3 sites known as DR1-DR5. The high affinity ligand for RXRs is 9-cis retinoic acid. RXRA serves as a common heterodimeric partner for a number of nuclear receptors. 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. The RXRA/PPARA heterodimer is required for PPARA transcriptional activity on fatty acid oxidation genes such as ACOX1 and the P450 system genes.

Tocris Summary for RXRA Gene

  • Retinoid X receptors (RXR) are members of the NR2B nuclear receptor family and are common binding partners to many other nuclear receptors, including PPARs, liver X receptors (LXRs) and vitamin D receptors (VDRs). There are three RXR subtypes; alpha, beta and gamma.

Gene Wiki entry for RXRA Gene

No data available for PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RXRA Gene

Genomics for RXRA Gene

Regulatory Elements for RXRA Gene

Enhancers for RXRA Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around RXRA on UCSC Golden Path with GeneCards custom track

Genomic Location for RXRA Gene

Chromosome:
9
Start:
134,317,098 bp from pter
End:
134,440,586 bp from pter
Size:
123,489 bases
Orientation:
Plus strand

Genomic View for RXRA Gene

Genes around RXRA on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for RXRA Gene

Proteins for RXRA Gene

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

    Protein Symbol:
    P19793-RXRA_HUMAN
    Recommended name:
    Retinoic acid receptor RXR-alpha
    Protein Accession:
    P19793
    Secondary Accessions:
    • B3KY83
    • Q2NL52
    • Q2V504

    Protein attributes for RXRA Gene

    Size:
    462 amino acids
    Molecular mass:
    50811 Da
    Quaternary structure:
    • Homodimer. Heterodimer with RARA; required for ligand-dependent retinoic acid receptor transcriptional activity. Heterodimer with PPARA (via the leucine-like zipper in the LBD); the interaction is required for PPARA transcriptional activity. Also heterodimerizes with PPARG. Interacts with NCOA3 and NCOA6 coactivators. Interacts with FAM120B (By similarity). Interacts with PELP1, SENP6, SFPQ, DNTTIP2 and RNF8. Interacts (via the DNA binding domain) with HCV core protein; the interaction enhances the transcriptional activities of the RXRA/RARA and the RXRA/PPARA heterodimers. Interacts with PRMT2. Interacts with ASXL1 (By similarity). Interacts with BHLHE40/DEC1, BHLHE41/DEC2, NCOR1 and NCOR2. Interacts in a ligand-dependent fashion with MED1 and NCOA1.

    Three dimensional structures from OCA and Proteopedia for RXRA Gene

    Alternative splice isoforms for RXRA Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RXRA Gene

Proteomics data for RXRA Gene at MOPED

Post-translational modifications for RXRA Gene

  • Phosphorylated on serine and threonine residues mainly in the N-terminal modulating domain. Constiutively phosphorylated on Ser-21 in the presence or absence of ligand. Under stress conditions, hyperphosphorylated by activated JNK on Ser-56, Ser-70, Thr-82 and Ser-260 (By similarity). Phosphorylated on Ser-27, in vitro, by PKA. This phosphorylation is required for repression of cAMP-mediated transcriptional activity of RARA.
  • Sumoylation negatively regulates transcriptional activity. Desumoylated specifically by SENP6.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RXRA Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • R&D Systems Antibodies for RXRA (RXR alpha/NR2B1)
  • Cell Signaling Technology (CST) Antibodies for RXRA (RXRA)

No data available for DME Specific Peptides for RXRA Gene

Domains & Families for RXRA Gene

Gene Families for RXRA Gene

Graphical View of Domain Structure for InterPro Entry

P19793

UniProtKB/Swiss-Prot:

RXRA_HUMAN :
  • Composed of three domains: a modulating N-terminal domain (AF1 domain), a DNA-binding domain and a C-terminal ligand-binding domain (AF2 domain).
  • Belongs to the nuclear hormone receptor family. NR2 subfamily.
Domain:
  • Composed of three domains: a modulating N-terminal domain (AF1 domain), a DNA-binding domain and a C-terminal ligand-binding domain (AF2 domain).
  • Contains 1 nuclear receptor DNA-binding domain.
Family:
  • Belongs to the nuclear hormone receptor family. NR2 subfamily.
genes like me logo Genes that share domains with RXRA: view

Function for RXRA Gene

Molecular function for RXRA Gene

GENATLAS Biochemistry:
retinoic acid X receptor binding and activated by 9-cis-retinoic acid,only (9-cis-RA),alpha subunit,regulating cardiac morphogenesis,obligate member of heterodimeric nuclear receptors,steroid/thyroid/retinoic receptor superfamily
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 RAR/RXR heterodimers bind to the retinoic acid response elements (RARE) composed of tandem 5-AGGTCA-3 sites known as DR1-DR5. The high affinity ligand for RXRs is 9-cis retinoic acid. RXRA serves as a common heterodimeric partner for a number of nuclear receptors. 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. The RXRA/PPARA heterodimer is required for PPARA transcriptional activity on fatty acid oxidation genes such as ACOX1 and the P450 system genes.

Gene Ontology (GO) - Molecular Function for RXRA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004879 RNA polymerase II transcription factor activity, ligand-activated sequence-specific DNA binding IEA,IDA 7990953
GO:0004886 9-cis retinoic acid receptor activity IEA --
GO:0005515 protein binding IEA,IPI 9653119
GO:0032403 protein complex binding IEA --
genes like me logo Genes that share ontologies with RXRA: view
genes like me logo Genes that share phenotypes with RXRA: view

Animal Models for RXRA Gene

MGI Knock Outs for RXRA:

Animal Model Products

  • Taconic Biosciences Mouse Models for RXRA
Targeted motifs for RXRA Gene
HOMER Transcription Factor Regulatory Elements motif RXRA
  • Consensus sequence: TAGGGCAAAGGTCA Submotif: DR1 Cell Type: 3T3L1 GEO ID: GSE13511

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology and Transcription Factor Targets for RXRA Gene

Localization for RXRA Gene

Subcellular locations from UniProtKB/Swiss-Prot for RXRA Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RXRA Gene COMPARTMENTS Subcellular localization image for RXRA gene
Compartment Confidence
nucleus 5
golgi apparatus 2
peroxisome 2
extracellular 1

Gene Ontology (GO) - Cellular Components for RXRA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0090575 RNA polymerase II transcription factor complex IEA,IDA 17426122
genes like me logo Genes that share ontologies with RXRA: view

Pathways & Interactions for RXRA Gene

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

SIGNOR curated interactions for RXRA Gene

Activates:
Inactivates:
Is activated by:
Is inactivated by:

Gene Ontology (GO) - Biological Process for RXRA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001701 in utero embryonic development IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006367 transcription initiation from RNA polymerase II promoter TAS --
GO:0006766 vitamin metabolic process TAS 1651173
GO:0007494 midgut development IEA --
genes like me logo Genes that share ontologies with RXRA: view

Drugs & Compounds for RXRA Gene

(41) Drugs for RXRA Gene - From: DrugBank, ApexBio, DGIdb, FDA Approved Drugs, IUPHAR, HMDB, Tocris, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Bexarotene Approved, Investigational Pharma Agonist, agonist, Target Others 43
Adapalene Approved Pharma binder, Target, other/unknown RAR尾 and RAR纬 agonist 74
Acitretin Approved Pharma Target, agonist Metabolite of etretinate 30
Alitretinoin Approved, Investigational Pharma agonist, Target 15
Etodolac Approved, Investigational Pharma Target, other COX-2 inhibitor 20

(18) Additional Compounds for RXRA Gene - From: Novoseek, Tocris, IUPHAR, and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
9-cis-retinoic acid
  • 15-Apo-beta-caroten-15-oate
  • 15-Apo-beta-caroten-15-oic acid
  • 9-cis-Retinoate
  • 9-cis-Retinoic acid
  • 9-cis-Tretinoin
Agonist
retinoic acid
302-79-4
SR11237
Agonist
CD 3254
196961-43-0
Fluorobexarotene
1190848-23-7

(5) Tocris Compounds for RXRA Gene

Compound Action Cas Number
CD 3254 Potent and selective RXRalpha agonist. 196961-43-0
Docosahexaenoic acid RXR agonist 6217-54-5
Fluorobexarotene RXR agonist 1190848-23-7
Retinoic acid Endogenous retinoic acid receptor agonist 302-79-4
SR 11237 Pan RXR agonist 146670-40-8

(3) ApexBio Compounds for RXRA Gene

Compound Action Cas Number
Acitretin Metabolite of etretinate 55079-83-9
Adapalene RAR尾 and RAR纬 agonist 106685-40-9
Bexarotene 153559-49-0
genes like me logo Genes that share compounds with RXRA: view

Transcripts for RXRA Gene

Unigene Clusters for RXRA Gene

Retinoid X receptor, alpha:
Representative Sequences:

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

ExUns: 1 ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8a · 8b
SP1: -
SP2: - - - - - -
SP3:

Relevant External Links for RXRA Gene

GeneLoc Exon Structure for
RXRA
ECgene alternative splicing isoforms for
RXRA

Expression for RXRA Gene

mRNA expression in normal human tissues for RXRA Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Whole Blood (x4.6).

Protein differential expression in normal tissues from HIPED for RXRA Gene

This gene is overexpressed in Liver (41.9) and Fetal gut (8.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for RXRA Gene



SOURCE GeneReport for Unigene cluster for RXRA Gene Hs.590886

mRNA Expression by UniProt/SwissProt for RXRA Gene

P19793-RXRA_HUMAN
Tissue specificity: Highly expressed in liver, also found in lung, kidney and heart.
genes like me logo Genes that share expression patterns with RXRA: view

Primer Products

No data available for Protein tissue co-expression partners for RXRA Gene

Orthologs for RXRA Gene

This gene was present in the common ancestor of animals.

Orthologs for RXRA Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia RXRA 35
  • 91.96 (n)
  • 96.74 (a)
RXRA 36
  • 94 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RXRA 35
  • 91.89 (n)
  • 98.25 (a)
RXRALPHA 36
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rxra 35
  • 88.96 (n)
  • 98.48 (a)
Rxra 16
Rxra 36
  • 97 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia RXRA 35
  • 99.54 (n)
  • 100 (a)
RXRA 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rxra 35
  • 89.39 (n)
  • 98.48 (a)
oppossum
(Monodelphis domestica)
Mammalia RXRA 36
  • 92 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RXRA 36
  • 97 (a)
OneToOne
chicken
(Gallus gallus)
Aves RXRA 35
  • 86.08 (n)
  • 96.32 (a)
RXRA 36
  • 95 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RXRA 36
  • 92 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rxra 35
  • 79.81 (n)
  • 91.41 (a)
Str.60 35
African clawed frog
(Xenopus laevis)
Amphibia rxra-A 35
zebrafish
(Danio rerio)
Actinopterygii rxraa 35
  • 77.11 (n)
  • 88.89 (a)
rxrg 35
rxraa 36
  • 81 (a)
OneToMany
rxrab 36
  • 89 (a)
OneToMany
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.9980 35
fruit fly
(Drosophila melanogaster)
Insecta usp 37
  • 47 (a)
usp 35
  • 62.59 (n)
  • 57.61 (a)
usp 36
  • 40 (a)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002095 35
  • 61.68 (n)
  • 57.78 (a)
worm
(Caenorhabditis elegans)
Secernentea nhr-14 37
  • 31 (a)
nhr-17 37
  • 30 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.304 35
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10537 36
  • 54 (a)
OneToMany
Species with no ortholog for RXRA:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RXRA Gene

ENSEMBL:
Gene Tree for RXRA (if available)
TreeFam:
Gene Tree for RXRA (if available)

Paralogs for RXRA Gene

Paralogs for RXRA Gene

genes like me logo Genes that share paralogs with RXRA: view

Variants for RXRA Gene

Sequence variations from dbSNP and Humsavar for RXRA Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type
rs2234960 - 134,421,677(+) GCAGC(C/T)GAACG reference, missense
rs1805345 -, - 134,429,204(+) GAACA(G/T)CGCCC reference, missense
rs11542209 - 134,434,159(+) CTATG(C/T)GTCCT reference, missense
rs731516 -- 134,416,454(+) CTGGG(A/G)CAGAT intron-variant
rs749759 -- 134,432,806(+) GAGTG(A/G)GAGGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RXRA Gene

Variant ID Type Subtype PubMed ID
esv2739138 CNV Deletion 23290073
nsv831750 CNV Gain+Loss 17160897
dgv8346n71 CNV Loss 21882294
nsv894159 CNV Gain 21882294
dgv8347n71 CNV Loss 21882294
nsv469908 CNV Loss 18288195
nsv466633 CNV Loss 19166990
nsv894163 CNV Loss 21882294
dgv8348n71 CNV Loss 21882294
nsv466634 CNV Loss 19166990
nsv894166 CNV Gain 21882294
nsv825150 CNV Gain 20364138
esv27796 CNV Loss 19812545
nsv511426 CNV Gain 21212237
dgv8349n71 CNV Loss 21882294
esv1003062 CNV Insertion 20482838
esv1103609 CNV Insertion 17803354
nsv894175 CNV Loss 21882294
esv2561499 CNV Insertion 19546169
nsv512999 CNV Insertion 21212237
nsv894176 CNV Loss 21882294
nsv894177 CNV Loss 21882294
nsv428227 CNV Gain 18775914
nsv831751 CNV Loss 17160897
nsv466635 CNV Loss 19166990
nsv831752 CNV Loss 17160897
esv2673192 CNV Deletion 23128226
nsv466636 CNV Loss 19166990
nsv894178 CNV Loss 21882294
esv2739209 CNV Deletion 23290073
esv2105964 CNV Deletion 18987734
nsv825151 CNV Gain 20364138
nsv825152 CNV Gain 20364138
nsv825153 CNV Loss 20364138

Variation tolerance for RXRA Gene

Residual Variation Intolerance Score: 9.11% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.48; 28.86% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RXRA Gene

HapMap Linkage Disequilibrium report
RXRA

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RXRA Gene

Disorders for RXRA Gene

MalaCards: The human disease database

(1) MalaCards diseases for RXRA Gene - From: GeneCards

Disorder Aliases PubMed IDs
x-linked adrenal hypoplasia congenita
  • ahc
- elite association - COSMIC cancer census association via MalaCards
Search RXRA in MalaCards View complete list of genes associated with diseases

Relevant External Links for RXRA

Genetic Association Database (GAD)
RXRA
Human Genome Epidemiology (HuGE) Navigator
RXRA
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RXRA
genes like me logo Genes that share disorders with RXRA: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RXRA Gene

Publications for RXRA Gene

  1. Nuclear receptor that identifies a novel retinoic acid response pathway. (PMID: 2159111) Mangelsdorf D.J. … Evans R.M. (Nature 1990) 2 3 4 67
  2. Proteasomal degradation of retinoid X receptor alpha reprograms transcriptional activity of PPARgamma in obese mice and humans. (PMID: 20364085) Lefebvre B. … Lefebvre P. (J. Clin. Invest. 2010) 3 23
  3. Peroxisome proliferator-activated receptors and retinoid X receptor-alpha in term human gestational tissues: tissue specific and labour-associated changes. (PMID: 19070893) Holdsworth-Carson S.J. … Lappas M. (Placenta 2009) 3 23
  4. Vitamin D-related genes, serum vitamin D concentrations and prostate cancer risk. (PMID: 19255064) Ahn J. … Hayes R.B. (Carcinogenesis 2009) 3 23
  5. Preterm and infection-driven preterm labor: the role of peroxisome proliferator-activated receptors and retinoid X receptor. (PMID: 19279199) Holdsworth-Carson S.J. … Lappas M. (Reproduction 2009) 3 23

Products for RXRA Gene

Sources for RXRA Gene

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