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Aliases for RXRB Gene

Aliases for RXRB Gene

  • Retinoid X Receptor Beta 2 3 4 5
  • Nuclear Receptor Subfamily 2 Group B Member 2 2 3 4
  • Retinoid X Receptor, Beta 2 3
  • NR2B2 3 4
  • MHC Class I Promoter Binding Protein 3
  • H-2RIIBP 3
  • DAUDI6 3
  • RCoR-1 3

External Ids for RXRB Gene

Previous GeneCards Identifiers for RXRB Gene

  • GC06M033164
  • GC06M033208
  • GC06M033270
  • GC06M033161
  • GC06M032877

Summaries for RXRB Gene

Entrez Gene Summary for RXRB Gene

  • This gene encodes a member of the retinoid X receptor (RXR) family of nuclear receptors which are involved in mediating the effects of retinoic acid (RA). The encoded protein forms homodimers with the retinoic acid, thyroid hormone, and vitamin D receptors, increasing both DNA binding and transcriptional function on their respective response elements. This gene lies within the major histocompatibility complex (MHC) class II region on chromosome 6. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Jul 2012]

GeneCards Summary for RXRB Gene

RXRB (Retinoid X Receptor Beta) is a Protein Coding gene. Diseases associated with RXRB include wegener granulomatosis and vasculitis. Among its related pathways are Adipocytokine signaling pathway and Glioma. GO annotations related to this gene include transcription factor activity, sequence-specific DNA binding and sequence-specific DNA binding. An important paralog of this gene is RXRG.

UniProtKB/Swiss-Prot for RXRB 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 (By similarity). Specifically binds 9-cis retinoic acid (9C-RA).

Tocris Summary for RXRB 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 RXRB Gene

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

Genomics for RXRB Gene

Regulatory Elements for RXRB Gene

Enhancers for RXRB 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 RXRB on UCSC Golden Path with GeneCards custom track

Promoters for RXRB Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around RXRB on UCSC Golden Path with GeneCards custom track

Transcription factor binding sites by QIAGEN in the RXRB gene promoter:

Genomic Location for RXRB Gene

Chromosome:
6
Start:
33,193,585 bp from pter
End:
33,200,853 bp from pter
Size:
7,269 bases
Orientation:
Minus strand

Genomic View for RXRB Gene

Genes around RXRB on UCSC Golden Path with GeneCards custom track

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

Proteins for RXRB Gene

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

    Protein Symbol:
    P28702-RXRB_HUMAN
    Recommended name:
    Retinoic acid receptor RXR-beta
    Protein Accession:
    P28702
    Secondary Accessions:
    • P28703
    • Q59G65
    • Q5JP92
    • Q5STQ1

    Protein attributes for RXRB Gene

    Size:
    533 amino acids
    Molecular mass:
    56922 Da
    Quaternary structure:
    • Homodimer (By similarity). Heterodimer with a RAR molecule. Binds DNA preferentially as a RAR/RXR heterodimer.
    SequenceCaution:
    • Sequence=BAD92481.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for RXRB Gene

    Alternative splice isoforms for RXRB Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RXRB Gene

Proteomics data for RXRB Gene at MOPED

Post-translational modifications for RXRB Gene

  • Ubiquitination at Lys 452
  • Modification sites at PhosphoSitePlus

Other Protein References for RXRB Gene

Antibody Products

  • R&D Systems Antibodies for RXRB (RXR beta/NR2B2)
  • Cell Signaling Technology (CST) Antibodies for RXRB (RXRB)

No data available for DME Specific Peptides for RXRB Gene

Domains & Families for RXRB Gene

Gene Families for RXRB Gene

Graphical View of Domain Structure for InterPro Entry

P28702

UniProtKB/Swiss-Prot:

RXRB_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. NR2 subfamily.
Domain:
  • Composed of three domains: a modulating N-terminal domain, a DNA-binding domain and a C-terminal ligand-binding 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 RXRB: view

Function for RXRB Gene

Molecular function for RXRB Gene

GENATLAS Biochemistry:
retinoic acid X receptor binding and activated by 9-cis-retinoic acid,only (9-cis-RA),beta subunit,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 (By similarity). Specifically binds 9-cis retinoic acid (9C-RA).

Gene Ontology (GO) - Molecular Function for RXRB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003707 steroid hormone receptor activity IEA --
GO:0004879 RNA polymerase II transcription factor activity, ligand-activated sequence-specific DNA binding IDA 7990953
GO:0005515 protein binding IPI 16189514
GO:0030375 thyroid hormone receptor coactivator activity IEA --
GO:0042974 retinoic acid receptor binding IEA --
genes like me logo Genes that share ontologies with RXRB: view
genes like me logo Genes that share phenotypes with RXRB: view

Animal Models for RXRB Gene

MGI Knock Outs for RXRB:

Animal Model Products

Inhibitory RNA Products

In Situ Assay Products

Flow Cytometry Products

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

Localization for RXRB Gene

Subcellular locations from UniProtKB/Swiss-Prot for RXRB Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RXRB Gene COMPARTMENTS Subcellular localization image for RXRB gene
Compartment Confidence
nucleus 5
cytosol 2
peroxisome 2

No data available for Gene Ontology (GO) - Cellular Components for RXRB Gene

Pathways & Interactions for RXRB Gene

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

SIGNOR curated interactions for RXRB Gene

Gene Ontology (GO) - Biological Process for RXRB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:2000273 positive regulation of receptor activity IEA --
genes like me logo Genes that share ontologies with RXRB: view

Drugs & Compounds for RXRB Gene

(17) Drugs for RXRB 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, agonist RAR尾 and RAR纬 agonist 74
Acitretin Approved Pharma Target, agonist Metabolite of etretinate 30
Tazarotene Approved, Investigational Pharma binder, Target, agonist Topical retinoid;antiproliferative;inducer of TIG3 tumor suppressor 36
Tretinoin Approved, Investigational Nutra Full agonist, Agonist, binder, Target, agonist 215

(7) Additional Compounds for RXRB Gene - From: Tocris, HMDB, and Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
retinoic acid
302-79-4
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
CD 3254
196961-43-0
Fluorobexarotene
1190848-23-7
SR 11237
146670-40-8

(5) Tocris Compounds for RXRB 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 RXRB 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 RXRB: view

Transcripts for RXRB Gene

Unigene Clusters for RXRB Gene

Retinoid X receptor, beta:
Representative Sequences:

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

No ASD Table

Relevant External Links for RXRB Gene

GeneLoc Exon Structure for
RXRB
ECgene alternative splicing isoforms for
RXRB

Expression for RXRB Gene

mRNA expression in normal human tissues for RXRB Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for RXRB Gene

This gene is overexpressed in Blymphocyte (27.3), Peripheral blood mononuclear cells (12.2), Placenta (10.6), and Ovary (6.6).

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



SOURCE GeneReport for Unigene cluster for RXRB Gene Hs.388034

mRNA Expression by UniProt/SwissProt for RXRB Gene

P28702-RXRB_HUMAN
Tissue specificity: Expressed in a variety of tumor cell lines.
genes like me logo Genes that share expression patterns with RXRB: view

Protein tissue co-expression partners for RXRB Gene

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for RXRB Gene

Orthologs for RXRB Gene

This gene was present in the common ancestor of animals.

Orthologs for RXRB Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia RXRB 35
  • 93.11 (n)
  • 98.12 (a)
RXRB 36
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RXRB 35
  • 95.21 (n)
  • 98.69 (a)
RXRB 36
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rxrb 35
  • 91.67 (n)
  • 96.56 (a)
Rxrb 16
Rxrb 36
  • 97 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia RXRB 35
  • 99.69 (n)
  • 100 (a)
RXRB 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rxrb 35
  • 90.35 (n)
  • 96.14 (a)
oppossum
(Monodelphis domestica)
Mammalia RXRB 36
  • 93 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RXRB 36
  • 64 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rxrb 35
  • 73.24 (n)
  • 87.84 (a)
zebrafish
(Danio rerio)
Actinopterygii -- 35
rxrba 35
  • 73.12 (n)
  • 82.49 (a)
rxrba 36
  • 73 (a)
OneToMany
rxrbb 36
  • 70 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta usp 37
  • 47 (a)
usp 36
  • 40 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea nhr-14 37
  • 33 (a)
nhr-69 37
  • 34 (a)
Species with no ortholog for RXRB:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • chicken (Gallus gallus)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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 RXRB Gene

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

Paralogs for RXRB Gene

Paralogs for RXRB Gene

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

Variants for RXRB Gene

Sequence variations from dbSNP and Humsavar for RXRB Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs9501283 -- 33,196,920(+) TTTTT(A/T)AATAA intron-variant
rs10548957 -- 33,195,863(+) CAAAG(-/AG)GGGTC intron-variant
rs6531 -- 33,195,674(-) TCCTT(C/T)TCACA nc-transcript-variant, reference, synonymous-codon
rs2076310 -- 33,198,257(-) TATCA(C/T)CACCT intron-variant
rs2735325 -- 33,195,194(-) ACCCA(A/G)TGGGC intron-variant

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

Variant ID Type Subtype PubMed ID
nsv885768 CNV Loss 21882294
nsv830634 CNV Loss 17160897
nsv522719 CNV Loss 19592680

Variation tolerance for RXRB Gene

Residual Variation Intolerance Score: 18.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.02; 37.17% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RXRB Gene

HapMap Linkage Disequilibrium report
RXRB

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

Disorders for RXRB Gene

MalaCards: The human disease database

(3) MalaCards diseases for RXRB Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
wegener granulomatosis
  • wegener's granulomatosis
vasculitis
  • angiitis
x-linked adrenal hypoplasia congenita
  • ahc
- elite association - COSMIC cancer census association via MalaCards
Search RXRB in MalaCards View complete list of genes associated with diseases

Relevant External Links for RXRB

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

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

Publications for RXRB Gene

  1. Retinoid X receptor beta polymorphisms do not explain functional differences in vitamins D and A response in Antineutrophil cytoplasmic antibody associated vasculitis patients. (PMID: 19811264) KAolsch A.I. … Yard B.A. (Autoimmunity 2009) 3 23 48 67
  2. Mapping of RXRB to human chromosome 6p21.3. (PMID: 8257090) Fitzgibbon J. … Povey S. (Ann. Hum. Genet. 1993) 2 3 23
  3. A phase I study of bexarotene, a retinoic X receptor agonist, in non-M3 acute myeloid leukemia. (PMID: 18765556) Tsai D.E. … Carroll M. (Clin. Cancer Res. 2008) 25 26
  4. Age-related change in the retinoid X receptor beta gene expression in peripheral blood mononuclear cells of healthy volunteers: effect of 13-cis retinoic acid supplementation. (PMID: 17916375) Brtko J. … Macejova D. (Mech. Ageing Dev. 2007) 3 23
  5. Bexarotene (LGD1069, Targretin), a selective retinoid X receptor agonist, prevents and reverses gemcitabine resistance in NSCLC cells by modulating gene amplification. (PMID: 17483357) Tooker P. … Hermann T.W. (Cancer Res. 2007) 25 26

Products for RXRB Gene

Sources for RXRB Gene

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