RXRA (retinoid X receptor alpha)

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RXRA (retinoid X receptor alpha)

Identity

Alias_names	retinoid X receptor
Alias_symbol (synonym)	NR2B1
Other alias
HGNC (Hugo)	RXRA
LocusID (NCBI)	6256
Atlas_Id	42186
Location	9q34.2 [Link to chromosome band 9q34]
Location_base_pair	Starts at 134326463 and ends at 134440586 bp from pter ( according to hg38-Dec_2013)

Fusion genes
(updated 2017)

Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

RXRA (9q34.2) / LRBA (4q31.3)

RXRA (9q34.2) / RXRA (9q34.2)

Note	Non-annotated gene. Preliminary data : if you are an author who wish to write a full paper/card on this gene, go to How to contribute

DNA/RNA

Other Leukemias implicated (Data extracted from papers in the Atlas) [ 2 ]

M3/M3v acute myeloid leukemia (AML M3/M3v)
::Acute promyelocytic leukemia (APL)
::Acute promyelocytic leukemia (APL) PML/RARA
t(12;12)(p13;q13) ETV6/BAZ2A

External links

	Nomenclature
HGNC (Hugo)	RXRA 10477
	Cards
Entrez_Gene (NCBI)	RXRA 6256 retinoid X receptor alpha
Aliases	NR2B1
GeneCards (Weizmann)	RXRA
Ensembl hg19 (Hinxton)	ENSG00000186350 [Gene_View]
Ensembl hg38 (Hinxton)	ENSG00000186350 [Gene_View] chr9:134326463-134440586 [Contig_View] RXRA [Vega]
ICGC DataPortal	ENSG00000186350
TCGA cBioPortal	RXRA
AceView (NCBI)	RXRA
Genatlas (Paris)	RXRA
WikiGenes	6256
SOURCE (Princeton)	RXRA
Genetics Home Reference (NIH)	RXRA
	Genomic and cartography
GoldenPath hg38 (UCSC)	RXRA - chr9:134326463-134440586 + 9q34.2 [Description] (hg38-Dec_2013)
GoldenPath hg19 (UCSC)	RXRA - 9q34.2 [Description] (hg19-Feb_2009)
Ensembl	RXRA - 9q34.2 [CytoView hg19] RXRA - 9q34.2 [CytoView hg38]
Mapping of homologs : NCBI	RXRA [Mapview hg19] RXRA [Mapview hg38]
OMIM	180245
	Gene and transcription
Genbank (Entrez)	AB307705 AF052092 AK090416 AK131081 AK131192
RefSeq transcript (Entrez)	NM_001291920 NM_001291921 NM_002957
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)	RXRA
Cluster EST : Unigene	Hs.590886 [ NCBI ]
CGAP (NCI)	Hs.590886
Alternative Splicing Gallery	ENSG00000186350
Gene Expression	RXRA [ NCBI-GEO ] RXRA [ EBI - ARRAY_EXPRESS ] RXRA [ SEEK ] RXRA [ MEM ]
Gene Expression Viewer (FireBrowse)	RXRA [ Firebrowse - Broad ]
SOURCE (Princeton)	Expression in : [Datasets] [Normal Tissue Atlas] [carcinoma Classsification] [NCI60]
Genevestigator	Expression in : [tissues] [cell-lines] [cancer] [perturbations]
BioGPS (Tissue expression)	6256
GTEX Portal (Tissue expression)	RXRA
Human Protein Atlas	ENSG00000186350-RXRA [pathology] [cell] [tissue]
	Protein : pattern, domain, 3D structure
UniProt/SwissProt	P19793 [function] [subcellular_location] [family_and_domains] [pathology_and_biotech] [ptm_processing] [expression] [interaction]
NextProt	P19793 [Sequence] [Exons] [Medical] [Publications]
With graphics : InterPro	P19793
Splice isoforms : SwissVar	P19793
PhosPhoSitePlus	P19793
Domaine pattern : Prosite (Expaxy)	NUCLEAR_REC_DBD_1 (PS00031) NUCLEAR_REC_DBD_2 (PS51030)
Domains : Interpro (EBI)	Nuc_recep-AF1 Nucl_hrmn_rcpt_lig-bd Nuclear_hrmn_rcpt Retinoid-X_rcpt/HNF4 Znf_hrmn_rcpt Znf_NHR/GATA
Domain families : Pfam (Sanger)	Hormone_recep (PF00104) Nuc_recep-AF1 (PF11825) zf-C4 (PF00105)
Domain families : Pfam (NCBI)	pfam00104 pfam11825 pfam00105
Domain families : Smart (EMBL)	HOLI (SM00430) ZnF_C4 (SM00399)
Conserved Domain (NCBI)	RXRA
DMDM Disease mutations	6256
Blocks (Seattle)	RXRA
PDB (SRS)	1BY4 1DSZ 1FBY 1FM6 1FM9 1G1U 1G5Y 1K74 1LBD 1MV9 1MVC 1MZN 1R0N 1RDT 1RXR 1XLS 1XV9 1XVP 1YNW 2ACL 2NLL 2P1T 2P1U 2P1V 2ZXZ 2ZY0 3DZU 3DZY 3E00 3E94 3FAL 3FC6 3FUG 3H0A 3KWY 3NSP 3NSQ 3OAP 3OZJ 3PCU 3R29 3R2A 3R5M 3UVV 4CN2 4CN3 4CN5 4CN7 4J5W 4J5X 4K4J 4K6I 4M8E 4M8H 4N5G 4N8R 4NQA 4OC7 4POH 4POJ 4PP3 4PP5 4RFW 4RMC 4RMD 4RME 4ZO1 4ZSH 5EC9
PDB (PDBSum)	1BY4 1DSZ 1FBY 1FM6 1FM9 1G1U 1G5Y 1K74 1LBD 1MV9 1MVC 1MZN 1R0N 1RDT 1RXR 1XLS 1XV9 1XVP 1YNW 2ACL 2NLL 2P1T 2P1U 2P1V 2ZXZ 2ZY0 3DZU 3DZY 3E00 3E94 3FAL 3FC6 3FUG 3H0A 3KWY 3NSP 3NSQ 3OAP 3OZJ 3PCU 3R29 3R2A 3R5M 3UVV 4CN2 4CN3 4CN5 4CN7 4J5W 4J5X 4K4J 4K6I 4M8E 4M8H 4N5G 4N8R 4NQA 4OC7 4POH 4POJ 4PP3 4PP5 4RFW 4RMC 4RMD 4RME 4ZO1 4ZSH 5EC9
PDB (IMB)	1BY4 1DSZ 1FBY 1FM6 1FM9 1G1U 1G5Y 1K74 1LBD 1MV9 1MVC 1MZN 1R0N 1RDT 1RXR 1XLS 1XV9 1XVP 1YNW 2ACL 2NLL 2P1T 2P1U 2P1V 2ZXZ 2ZY0 3DZU 3DZY 3E00 3E94 3FAL 3FC6 3FUG 3H0A 3KWY 3NSP 3NSQ 3OAP 3OZJ 3PCU 3R29 3R2A 3R5M 3UVV 4CN2 4CN3 4CN5 4CN7 4J5W 4J5X 4K4J 4K6I 4M8E 4M8H 4N5G 4N8R 4NQA 4OC7 4POH 4POJ 4PP3 4PP5 4RFW 4RMC 4RMD 4RME 4ZO1 4ZSH 5EC9
PDB (RSDB)	1BY4 1DSZ 1FBY 1FM6 1FM9 1G1U 1G5Y 1K74 1LBD 1MV9 1MVC 1MZN 1R0N 1RDT 1RXR 1XLS 1XV9 1XVP 1YNW 2ACL 2NLL 2P1T 2P1U 2P1V 2ZXZ 2ZY0 3DZU 3DZY 3E00 3E94 3FAL 3FC6 3FUG 3H0A 3KWY 3NSP 3NSQ 3OAP 3OZJ 3PCU 3R29 3R2A 3R5M 3UVV 4CN2 4CN3 4CN5 4CN7 4J5W 4J5X 4K4J 4K6I 4M8E 4M8H 4N5G 4N8R 4NQA 4OC7 4POH 4POJ 4PP3 4PP5 4RFW 4RMC 4RMD 4RME 4ZO1 4ZSH 5EC9
Structural Biology KnowledgeBase	1BY4 1DSZ 1FBY 1FM6 1FM9 1G1U 1G5Y 1K74 1LBD 1MV9 1MVC 1MZN 1R0N 1RDT 1RXR 1XLS 1XV9 1XVP 1YNW 2ACL 2NLL 2P1T 2P1U 2P1V 2ZXZ 2ZY0 3DZU 3DZY 3E00 3E94 3FAL 3FC6 3FUG 3H0A 3KWY 3NSP 3NSQ 3OAP 3OZJ 3PCU 3R29 3R2A 3R5M 3UVV 4CN2 4CN3 4CN5 4CN7 4J5W 4J5X 4K4J 4K6I 4M8E 4M8H 4N5G 4N8R 4NQA 4OC7 4POH 4POJ 4PP3 4PP5 4RFW 4RMC 4RMD 4RME 4ZO1 4ZSH 5EC9
SCOP (Structural Classification of Proteins)	1BY4 1DSZ 1FBY 1FM6 1FM9 1G1U 1G5Y 1K74 1LBD 1MV9 1MVC 1MZN 1R0N 1RDT 1RXR 1XLS 1XV9 1XVP 1YNW 2ACL 2NLL 2P1T 2P1U 2P1V 2ZXZ 2ZY0 3DZU 3DZY 3E00 3E94 3FAL 3FC6 3FUG 3H0A 3KWY 3NSP 3NSQ 3OAP 3OZJ 3PCU 3R29 3R2A 3R5M 3UVV 4CN2 4CN3 4CN5 4CN7 4J5W 4J5X 4K4J 4K6I 4M8E 4M8H 4N5G 4N8R 4NQA 4OC7 4POH 4POJ 4PP3 4PP5 4RFW 4RMC 4RMD 4RME 4ZO1 4ZSH 5EC9
CATH (Classification of proteins structures)	1BY4 1DSZ 1FBY 1FM6 1FM9 1G1U 1G5Y 1K74 1LBD 1MV9 1MVC 1MZN 1R0N 1RDT 1RXR 1XLS 1XV9 1XVP 1YNW 2ACL 2NLL 2P1T 2P1U 2P1V 2ZXZ 2ZY0 3DZU 3DZY 3E00 3E94 3FAL 3FC6 3FUG 3H0A 3KWY 3NSP 3NSQ 3OAP 3OZJ 3PCU 3R29 3R2A 3R5M 3UVV 4CN2 4CN3 4CN5 4CN7 4J5W 4J5X 4K4J 4K6I 4M8E 4M8H 4N5G 4N8R 4NQA 4OC7 4POH 4POJ 4PP3 4PP5 4RFW 4RMC 4RMD 4RME 4ZO1 4ZSH 5EC9
Superfamily	P19793
Human Protein Atlas [tissue]	ENSG00000186350-RXRA [tissue]
Peptide Atlas	P19793
HPRD	01577
IPI	IPI00418394 IPI01011260 IPI00431177 IPI00442358 IPI00386192 IPI00979550
	Protein Interaction databases
DIP (DOE-UCLA)	P19793
IntAct (EBI)	P19793
FunCoup	ENSG00000186350
BioGRID	RXRA
STRING (EMBL)	RXRA
ZODIAC	RXRA
	Ontologies - Pathways
QuickGO	P19793
Ontology : AmiGO	negative regulation of transcription by RNA polymerase II nuclear chromatin RNA polymerase II regulatory region sequence-specific DNA binding in utero embryonic development maternal placenta development retinoic acid binding DNA binding double-stranded DNA binding DNA binding transcription factor activity DNA binding transcription factor activity steroid hormone receptor activity retinoic acid receptor activity transcription coactivator activity nuclear receptor activity 9-cis retinoic acid receptor activity protein binding nucleus nucleoplasm transcription initiation from RNA polymerase II promoter vitamin metabolic process embryo implantation cholesterol metabolic process zinc ion binding bile acid and bile salt transport ligand-dependent nuclear receptor binding modulation by virus of host morphology or physiology regulation of lipid metabolic process enzyme binding chromatin DNA binding response to retinoic acid peroxisome proliferator activated receptor signaling pathway peptide binding vitamin D receptor binding camera-type eye development protein complex receptor complex steroid hormone mediated signaling pathway sequence-specific DNA binding transcription regulatory region DNA binding retinoic acid-responsive element binding positive regulation of transcription by RNA polymerase II positive regulation of translational initiation by iron protein heterodimerization activity retinoic acid receptor signaling pathway DBD domain binding LBD domain binding protein homotetramerization ventricular cardiac muscle tissue morphogenesis ventricular cardiac muscle cell differentiation cardiac muscle cell proliferation secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development regulation of branching involved in prostate gland morphogenesis vitamin D response element binding RNA polymerase II transcription factor complex positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus
Ontology : EGO-EBI	negative regulation of transcription by RNA polymerase II nuclear chromatin RNA polymerase II regulatory region sequence-specific DNA binding in utero embryonic development maternal placenta development retinoic acid binding DNA binding double-stranded DNA binding DNA binding transcription factor activity DNA binding transcription factor activity steroid hormone receptor activity retinoic acid receptor activity transcription coactivator activity nuclear receptor activity 9-cis retinoic acid receptor activity protein binding nucleus nucleoplasm transcription initiation from RNA polymerase II promoter vitamin metabolic process embryo implantation cholesterol metabolic process zinc ion binding bile acid and bile salt transport ligand-dependent nuclear receptor binding modulation by virus of host morphology or physiology regulation of lipid metabolic process enzyme binding chromatin DNA binding response to retinoic acid peroxisome proliferator activated receptor signaling pathway peptide binding vitamin D receptor binding camera-type eye development protein complex receptor complex steroid hormone mediated signaling pathway sequence-specific DNA binding transcription regulatory region DNA binding retinoic acid-responsive element binding positive regulation of transcription by RNA polymerase II positive regulation of translational initiation by iron protein heterodimerization activity retinoic acid receptor signaling pathway DBD domain binding LBD domain binding protein homotetramerization ventricular cardiac muscle tissue morphogenesis ventricular cardiac muscle cell differentiation cardiac muscle cell proliferation secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development regulation of branching involved in prostate gland morphogenesis vitamin D response element binding RNA polymerase II transcription factor complex positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus
Pathways : BIOCARTA	Mechanism of Gene Regulation by Peroxisome Proliferators via PPARa(alpha) [Genes] Nuclear receptors coordinate the activities of chromatin remodeling complexes and coactivators to facilitate initiation of transcription in carcinoma cells [Genes] Control of Gene Expression by Vitamin D Receptor [Genes] Map Kinase Inactivation of SMRT Corepressor [Genes] Role of PPAR-gamma Coactivators in Obesity and Thermogenesis [Genes] Degradation of the RAR and RXR by the proteasome [Genes] FXR and LXR Regulation of Cholesterol Metabolism [Genes] Visceral Fat Deposits and the Metabolic Syndrome [Genes] Basic mechanism of action of PPARa, PPARb(d) and PPARg and effects on gene expression [Genes] Transcription Regulation by Methyltransferase of CARM1 [Genes]
Pathways : KEGG	PPAR signaling pathway Adipocytokine signaling pathway
NDEx Network	RXRA
Atlas of Cancer Signalling Network	RXRA
Wikipedia pathways	RXRA
	Orthology - Evolution
OrthoDB	6256
GeneTree (enSembl)	ENSG00000186350
Phylogenetic Trees/Animal Genes : TreeFam	RXRA
HOVERGEN	P19793
HOGENOM	P19793
Homologs : HomoloGene	RXRA
Homology/Alignments : Family Browser (UCSC)	RXRA
	Gene fusions - Rearrangements
Fusion : Quiver	RXRA
	Polymorphisms : SNP and Copy number variants
NCBI Variation Viewer	RXRA [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)	RXRA
dbVar	RXRA
ClinVar	RXRA
1000_Genomes	RXRA
Exome Variant Server	RXRA
ExAC (Exome Aggregation Consortium)	ENSG00000186350
GNOMAD Browser	ENSG00000186350
Genetic variants : HAPMAP	6256
Genomic Variants (DGV)	RXRA [DGVbeta]
DECIPHER	RXRA [patients] [syndromes] [variants] [genes]
CONAN: Copy Number Analysis	RXRA
	Mutations
ICGC Data Portal	RXRA
TCGA Data Portal	RXRA
Broad Tumor Portal	RXRA
OASIS Portal	RXRA [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMIC	RXRA [overview] [genome browser] [tissue] [distribution]
Mutations and Diseases : HGMD	RXRA
LOVD (Leiden Open Variation Database)	Whole genome datasets
LOVD (Leiden Open Variation Database)	LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)	LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)	Pharmacogenomics of Infectious Diseases (PGx_IfD )
BioMuta	search RXRA
DgiDB (Drug Gene Interaction Database)	RXRA
DoCM (Curated mutations)	RXRA (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)	RXRA (select a term)
intoGen	RXRA
Cancer3D	RXRA(select the gene name)
Impact of mutations	[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
	Diseases
OMIM	180245
Orphanet
DisGeNET	RXRA
Medgen	RXRA
Genetic Testing Registry	RXRA
NextProt	P19793 [Medical]
TSGene	6256
GENETests	RXRA
Target Validation	RXRA
Huge Navigator	RXRA [HugePedia]
snp3D : Map Gene to Disease	6256
BioCentury BCIQ	RXRA
ClinGen	RXRA
	Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD	6256
Chemical/Pharm GKB Gene	PA34890
Clinical trial	RXRA
	Miscellaneous
canSAR (ICR)	RXRA (select the gene name)
	Probes
	Litterature
PubMed	422 Pubmed reference(s) in Entrez
GeneRIFs	Gene References Into Functions (Entrez)
CoreMine	RXRA
EVEX	RXRA
GoPubMed	RXRA
iHOP	RXRA

Genes in title	automatic search in PubMed
REVIEW articles	automatic search in PubMed
Last year publications	automatic search in PubMed

Search in all EBI NCBI

indexed on : Wed Feb 28 13:35:54 CET 2018

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Atlas of Genetics and Cytogenetics in Oncology and Haematology

RXRA (retinoid X receptor alpha)

Non-annotated gene. Preliminary data : if you are an author who wish to write a full paper/card on this gene, go to How to contribute

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to How to contribute