Atlas of Genetics and Cytogenetics in Oncology and Haematology

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   
X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

RARG (retinoic acid receptor gamma)

Identity

Alias_namesretinoic acid receptor
Alias_symbol (synonym)RARC
NR1B3
Other alias
HGNC (Hugo) RARG
LocusID (NCBI) 5916
Atlas_Id 42049
Location 12q13.13  [Link to chromosome band 12q13]
Location_base_pair Starts at 53210566 and ends at 53220413 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)
NCDN (1p34.3) / RARG (12q13.13)NUP98 (11p15.4) / RARG (12q13.13)RARG (12q13.13) / BCAS1 (20q13.2)
RARG (12q13.13) / TACC2 (10q26.13)RARG 12q13.13 / BCAS1 20q13.2

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 ]
  t(11;12)(p15;q13) NUP98/RARG
t(11;12)(p15;q13) NUP98/RARG

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(12;20)(q13;q13) RARG/BCAS1

External links

Nomenclature
HGNC (Hugo)RARG   9866
Cards
Entrez_Gene (NCBI)RARG  5916  retinoic acid receptor gamma
AliasesNR1B3; RARC
GeneCards (Weizmann)RARG
Ensembl hg19 (Hinxton)ENSG00000172819 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000172819 [Gene_View]  chr12:53210566-53220413 [Contig_View]  RARG [Vega]
ICGC DataPortalENSG00000172819
TCGA cBioPortalRARG
AceView (NCBI)RARG
Genatlas (Paris)RARG
WikiGenes5916
SOURCE (Princeton)RARG
Genetics Home Reference (NIH)RARG
Genomic and cartography
GoldenPath hg38 (UCSC)RARG  -     chr12:53210566-53220413 -  12q13.13   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RARG  -     12q13.13   [Description]    (hg19-Feb_2009)
EnsemblRARG - 12q13.13 [CytoView hg19]  RARG - 12q13.13 [CytoView hg38]
Mapping of homologs : NCBIRARG [Mapview hg19]  RARG [Mapview hg38]
OMIM180190   
Gene and transcription
Genbank (Entrez)AB307689 AK290588 AK297023 AK297110 AK297277
RefSeq transcript (Entrez)NM_000966 NM_001042728 NM_001243730 NM_001243731 NM_001243732
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)RARG
Cluster EST : UnigeneHs.733399 [ NCBI ]
CGAP (NCI)Hs.733399
Alternative Splicing GalleryENSG00000172819
Gene ExpressionRARG [ NCBI-GEO ]   RARG [ EBI - ARRAY_EXPRESS ]   RARG [ SEEK ]   RARG [ MEM ]
Gene Expression Viewer (FireBrowse)RARG [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5916
GTEX Portal (Tissue expression)RARG
Human Protein AtlasENSG00000172819-RARG [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP13631   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP13631  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP13631
Splice isoforms : SwissVarP13631
PhosPhoSitePlusP13631
Domaine pattern : Prosite (Expaxy)NUCLEAR_REC_DBD_1 (PS00031)    NUCLEAR_REC_DBD_2 (PS51030)   
Domains : Interpro (EBI)Nucl_hrmn_rcpt_lig-bd    Nuclear_hrmn_rcpt    Retinoic_acid_rcpt    Znf_hrmn_rcpt    Znf_NHR/GATA   
Domain families : Pfam (Sanger)Hormone_recep (PF00104)    zf-C4 (PF00105)   
Domain families : Pfam (NCBI)pfam00104    pfam00105   
Domain families : Smart (EMBL)HOLI (SM00430)  ZnF_C4 (SM00399)  
Conserved Domain (NCBI)RARG
DMDM Disease mutations5916
Blocks (Seattle)RARG
PDB (SRS)1EXA    1EXX    1FCX    1FCY    1FCZ    1FD0    2LBD    3LBD    4LBD   
PDB (PDBSum)1EXA    1EXX    1FCX    1FCY    1FCZ    1FD0    2LBD    3LBD    4LBD   
PDB (IMB)1EXA    1EXX    1FCX    1FCY    1FCZ    1FD0    2LBD    3LBD    4LBD   
PDB (RSDB)1EXA    1EXX    1FCX    1FCY    1FCZ    1FD0    2LBD    3LBD    4LBD   
Structural Biology KnowledgeBase1EXA    1EXX    1FCX    1FCY    1FCZ    1FD0    2LBD    3LBD    4LBD   
SCOP (Structural Classification of Proteins)1EXA    1EXX    1FCX    1FCY    1FCZ    1FD0    2LBD    3LBD    4LBD   
CATH (Classification of proteins structures)1EXA    1EXX    1FCX    1FCY    1FCZ    1FD0    2LBD    3LBD    4LBD   
SuperfamilyP13631
Human Protein Atlas [tissue]ENSG00000172819-RARG [tissue]
Peptide AtlasP13631
HPRD01573
IPIIPI00465344   IPI00427809   IPI00788710   IPI01020715   IPI01016077   IPI00921806   IPI00984457   
Protein Interaction databases
DIP (DOE-UCLA)P13631
IntAct (EBI)P13631
FunCoupENSG00000172819
BioGRIDRARG
STRING (EMBL)RARG
ZODIACRARG
Ontologies - Pathways
QuickGOP13631
Ontology : AmiGOnegative regulation of transcription by RNA polymerase II  nuclear chromatin  RNA polymerase II regulatory region sequence-specific DNA binding  neural tube closure  glandular epithelial cell development  retinal pigment epithelium development  growth plate cartilage chondrocyte growth  DNA binding  DNA binding transcription factor activity  steroid hormone receptor activity  retinoic acid receptor activity  protein binding  nucleus  nucleus  nucleoplasm  nucleoplasm  transcription factor complex  transcription initiation from RNA polymerase II promoter  zinc ion binding  positive regulation of cell proliferation  negative regulation of cell proliferation  regulation of cell size  anterior/posterior pattern specification  integral component of membrane  embryonic camera-type eye development  regulation of myelination  negative regulation of chondrocyte differentiation  response to retinoic acid  embryonic hindlimb morphogenesis  multicellular organism growth  positive regulation of apoptotic process  negative regulation of apoptotic process  positive regulation of programmed cell death  steroid hormone mediated signaling pathway  regulation of myeloid cell differentiation  positive regulation of transcription by RNA polymerase II  retinoid X receptor binding  embryonic eye morphogenesis  retinoic acid receptor signaling pathway  canonical Wnt signaling pathway  face development  trachea cartilage development  prostate gland epithelium morphogenesis  Harderian gland development  cellular response to retinoic acid  cellular response to leukemia inhibitory factor  
Ontology : EGO-EBInegative regulation of transcription by RNA polymerase II  nuclear chromatin  RNA polymerase II regulatory region sequence-specific DNA binding  neural tube closure  glandular epithelial cell development  retinal pigment epithelium development  growth plate cartilage chondrocyte growth  DNA binding  DNA binding transcription factor activity  steroid hormone receptor activity  retinoic acid receptor activity  protein binding  nucleus  nucleus  nucleoplasm  nucleoplasm  transcription factor complex  transcription initiation from RNA polymerase II promoter  zinc ion binding  positive regulation of cell proliferation  negative regulation of cell proliferation  regulation of cell size  anterior/posterior pattern specification  integral component of membrane  embryonic camera-type eye development  regulation of myelination  negative regulation of chondrocyte differentiation  response to retinoic acid  embryonic hindlimb morphogenesis  multicellular organism growth  positive regulation of apoptotic process  negative regulation of apoptotic process  positive regulation of programmed cell death  steroid hormone mediated signaling pathway  regulation of myeloid cell differentiation  positive regulation of transcription by RNA polymerase II  retinoid X receptor binding  embryonic eye morphogenesis  retinoic acid receptor signaling pathway  canonical Wnt signaling pathway  face development  trachea cartilage development  prostate gland epithelium morphogenesis  Harderian gland development  cellular response to retinoic acid  cellular response to leukemia inhibitory factor  
Pathways : BIOCARTANuclear Receptors in Lipid Metabolism and Toxicity [Genes]   
NDEx NetworkRARG
Atlas of Cancer Signalling NetworkRARG
Wikipedia pathwaysRARG
Orthology - Evolution
OrthoDB5916
GeneTree (enSembl)ENSG00000172819
Phylogenetic Trees/Animal Genes : TreeFamRARG
HOVERGENP13631
HOGENOMP13631
Homologs : HomoloGeneRARG
Homology/Alignments : Family Browser (UCSC)RARG
Gene fusions - Rearrangements
Fusion : MitelmanNUP98/RARG [11p15.4/12q13.13]  [t(11;12)(p15;q13)]  
Fusion : MitelmanRARG/BCAS1 [12q13.13/20q13.2]  [t(12;20)(q13;q13)]  
Fusion: TCGA_MDACCRARG 12q13.13 BCAS1 20q13.2 BLCA
Fusion PortalRARG 12q13.13 BCAS1 20q13.2 BLCA
Fusion : QuiverRARG
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRARG [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RARG
dbVarRARG
ClinVarRARG
1000_GenomesRARG 
Exome Variant ServerRARG
ExAC (Exome Aggregation Consortium)ENSG00000172819
GNOMAD BrowserENSG00000172819
Genetic variants : HAPMAP5916
Genomic Variants (DGV)RARG [DGVbeta]
DECIPHERRARG [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRARG 
Mutations
ICGC Data PortalRARG 
TCGA Data PortalRARG 
Broad Tumor PortalRARG
OASIS PortalRARG [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRARG  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDRARG
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
BioMutasearch RARG
DgiDB (Drug Gene Interaction Database)RARG
DoCM (Curated mutations)RARG (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RARG (select a term)
intoGenRARG
Cancer3DRARG(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM180190   
Orphanet
DisGeNETRARG
MedgenRARG
Genetic Testing Registry RARG
NextProtP13631 [Medical]
TSGene5916
GENETestsRARG
Target ValidationRARG
Huge Navigator RARG [HugePedia]
snp3D : Map Gene to Disease5916
BioCentury BCIQRARG
ClinGenRARG
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD5916
Chemical/Pharm GKB GenePA34227
Clinical trialRARG
Miscellaneous
canSAR (ICR)RARG (select the gene name)
Probes
Litterature
PubMed89 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRARG
EVEXRARG
GoPubMedRARG
iHOPRARG
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed Feb 28 13:34:07 CET 2018
Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.