Atlas of Genetics and Cytogenetics in Oncology and Haematology


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RBFOX2 (RNA binding protein, fox-1 homolog 2)

Identity

Alias_namesRBM9
RNA binding motif protein 9
RNA binding protein, fox-1 homolog (C. elegans) 2
Alias_symbol (synonym)HNRBP2
FOX-2
HRNBP2
Other aliasFOX2
Fox-2
RTA
dJ106I20.3
fxh
HGNC (Hugo) RBFOX2
LocusID (NCBI) 23543
Atlas_Id 53203
Location 22q12.3  [Link to chromosome band 22q12]
Location_base_pair Starts at 35738734 and ends at 35840470 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
AQP7P1 (9q13) / RBFOX2 (22q12.3)FBXO24 (7q22.1) / RBFOX2 (22q12.3)LOC399806 () / RBFOX2 (22q12.3)
NKTR (3p22.1) / RBFOX2 (22q12.3)NUP50 (22q13.31) / RBFOX2 (22q12.3)RBFOX2 (22q12.3) / AHCYL1 (1p13.3)
RBFOX2 (22q12.3) / CAPZA1 (1p13.2)RBFOX2 (22q12.3) / LGALS2 (22q13.1)RBFOX2 (22q12.3) / MED16 (19p13.3)
RBFOX2 (22q12.3) / NTSR1 (20q13.33)RBFOX2 (22q12.3) / RBFOX2 (22q12.3)SLC25A17 (22q13.2) / RBFOX2 (22q12.3)
SSR1 (6p24.3) / RBFOX2 (22q12.3)NUP50 22q13.31 / RBFOX2 22q12.3RBFOX2 22q12.3 / LGALS2 22q13.1
RBFOX2 22q12.3 / NTSR1 20q13.33SLC25A17 22q13.2 / RBFOX2 22q12.3

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

 


External links

Nomenclature
HGNC (Hugo)RBFOX2   9906
Cards
Entrez_Gene (NCBI)RBFOX2  23543  RNA binding protein, fox-1 homolog 2
AliasesFOX2; Fox-2; HNRBP2; HRNBP2; 
RBM9; RTA; dJ106I20.3; fxh
GeneCards (Weizmann)RBFOX2
Ensembl hg19 (Hinxton)ENSG00000100320 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000100320 [Gene_View]  chr22:35738734-35840470 [Contig_View]  RBFOX2 [Vega]
ICGC DataPortalENSG00000100320
TCGA cBioPortalRBFOX2
AceView (NCBI)RBFOX2
Genatlas (Paris)RBFOX2
WikiGenes23543
SOURCE (Princeton)RBFOX2
Genetics Home Reference (NIH)RBFOX2
Genomic and cartography
GoldenPath hg38 (UCSC)RBFOX2  -     chr22:35738734-35840470 -  22q12.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RBFOX2  -     22q12.3   [Description]    (hg19-Feb_2009)
EnsemblRBFOX2 - 22q12.3 [CytoView hg19]  RBFOX2 - 22q12.3 [CytoView hg38]
Mapping of homologs : NCBIRBFOX2 [Mapview hg19]  RBFOX2 [Mapview hg38]
OMIM612149   
Gene and transcription
Genbank (Entrez)###############################################################################################################################################################################################################################################################
RefSeq transcript (Entrez)NM_001031695 NM_001082576 NM_001082577 NM_001082578 NM_001082579 NM_001349982 NM_001349983 NM_001349989 NM_001349990 NM_001349991 NM_001349992 NM_001349994 NM_001349995 NM_001349996 NM_001349997 NM_001349998 NM_001349999 NM_014309
RefSeq genomic (Entrez)NC_000022 NC_018933 NG_029628 NT_187630
Consensus coding sequences : CCDS (NCBI)RBFOX2
Cluster EST : UnigeneHs.282998 [ NCBI ]
CGAP (NCI)Hs.282998
Alternative Splicing GalleryENSG00000100320
Gene ExpressionRBFOX2 [ NCBI-GEO ]   RBFOX2 [ EBI - ARRAY_EXPRESS ]   RBFOX2 [ SEEK ]   RBFOX2 [ MEM ]
Gene Expression Viewer (FireBrowse)RBFOX2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)23543
GTEX Portal (Tissue expression)RBFOX2
Protein : pattern, domain, 3D structure
UniProt/SwissProtO43251   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO43251  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO43251
Splice isoforms : SwissVarO43251
PhosPhoSitePlusO43251
Domaine pattern : Prosite (Expaxy)RRM (PS50102)   
Domains : Interpro (EBI)Fox-1_C_dom    FOX1_RRM    Nucleotide-bd_a/b_plait    RNA-bd_Fox-1    RRM_dom   
Domain families : Pfam (Sanger)Fox-1_C (PF12414)    RRM_1 (PF00076)   
Domain families : Pfam (NCBI)pfam12414    pfam00076   
Domain families : Smart (EMBL)RRM (SM00360)  
Conserved Domain (NCBI)RBFOX2
DMDM Disease mutations23543
Blocks (Seattle)RBFOX2
PDB (SRS)2CQ3   
PDB (PDBSum)2CQ3   
PDB (IMB)2CQ3   
PDB (RSDB)2CQ3   
Structural Biology KnowledgeBase2CQ3   
SCOP (Structural Classification of Proteins)2CQ3   
CATH (Classification of proteins structures)2CQ3   
SuperfamilyO43251
Human Protein AtlasENSG00000100320
Peptide AtlasO43251
HPRD15231
IPIIPI00843981   IPI00937652   IPI00179299   IPI00258170   IPI00844525   IPI00554810   IPI00885127   IPI00844603   IPI00258168   IPI00011618   IPI01025028   IPI00878853   IPI00879457   
Protein Interaction databases
DIP (DOE-UCLA)O43251
IntAct (EBI)O43251
FunCoupENSG00000100320
BioGRIDRBFOX2
STRING (EMBL)RBFOX2
ZODIACRBFOX2
Ontologies - Pathways
QuickGOO43251
Ontology : AmiGOregulation of alternative mRNA splicing, via spliceosome  regulation of alternative mRNA splicing, via spliceosome  transcription corepressor activity  RNA binding  mRNA binding  protein binding  nucleus  nucleoplasm  nucleoplasm  cytoplasm  cytosol  mRNA processing  nervous system development  transcription factor binding  RNA splicing  fibroblast growth factor receptor signaling pathway  regulation of definitive erythrocyte differentiation  RNA metabolic process  radial glia guided migration of Purkinje cell  intracellular estrogen receptor signaling pathway  regulation of cell proliferation  negative regulation of transcription, DNA-templated  dendrite morphogenesis  neuromuscular process controlling balance  
Ontology : EGO-EBIregulation of alternative mRNA splicing, via spliceosome  regulation of alternative mRNA splicing, via spliceosome  transcription corepressor activity  RNA binding  mRNA binding  protein binding  nucleus  nucleoplasm  nucleoplasm  cytoplasm  cytosol  mRNA processing  nervous system development  transcription factor binding  RNA splicing  fibroblast growth factor receptor signaling pathway  regulation of definitive erythrocyte differentiation  RNA metabolic process  radial glia guided migration of Purkinje cell  intracellular estrogen receptor signaling pathway  regulation of cell proliferation  negative regulation of transcription, DNA-templated  dendrite morphogenesis  neuromuscular process controlling balance  
NDEx NetworkRBFOX2
Atlas of Cancer Signalling NetworkRBFOX2
Wikipedia pathwaysRBFOX2
Orthology - Evolution
OrthoDB23543
GeneTree (enSembl)ENSG00000100320
Phylogenetic Trees/Animal Genes : TreeFamRBFOX2
HOVERGENO43251
HOGENOMO43251
Homologs : HomoloGeneRBFOX2
Homology/Alignments : Family Browser (UCSC)RBFOX2
Gene fusions - Rearrangements
Fusion : MitelmanNUP50/RBFOX2 [22q13.31/22q12.3]  [t(22;22)(q12;q13)]  
Fusion : MitelmanRBFOX2/LGALS2 [22q12.3/22q13.1]  [t(22;22)(q12;q13)]  
Fusion : MitelmanRBFOX2/NTSR1 [22q12.3/20q13.33]  [t(20;22)(q13;q12)]  
Fusion : MitelmanSLC25A17/RBFOX2 [22q13.2/22q12.3]  [t(22;22)(q12;q13)]  
Fusion: TCGANUP50 22q13.31 RBFOX2 22q12.3 BRCA
Fusion: TCGARBFOX2 22q12.3 LGALS2 22q13.1 GBM
Fusion: TCGARBFOX2 22q12.3 NTSR1 20q13.33 BRCA
Fusion: TCGASLC25A17 22q13.2 RBFOX2 22q12.3 BLCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRBFOX2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RBFOX2
dbVarRBFOX2
ClinVarRBFOX2
1000_GenomesRBFOX2 
Exome Variant ServerRBFOX2
ExAC (Exome Aggregation Consortium)RBFOX2 (select the gene name)
Genetic variants : HAPMAP23543
Genomic Variants (DGV)RBFOX2 [DGVbeta]
DECIPHERRBFOX2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRBFOX2 
Mutations
ICGC Data PortalRBFOX2 
TCGA Data PortalRBFOX2 
Broad Tumor PortalRBFOX2
OASIS PortalRBFOX2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRBFOX2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDRBFOX2
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch RBFOX2
DgiDB (Drug Gene Interaction Database)RBFOX2
DoCM (Curated mutations)RBFOX2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RBFOX2 (select a term)
intoGenRBFOX2
Cancer3DRBFOX2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM612149   
Orphanet
MedgenRBFOX2
Genetic Testing Registry RBFOX2
NextProtO43251 [Medical]
TSGene23543
GENETestsRBFOX2
Huge Navigator RBFOX2 [HugePedia]
snp3D : Map Gene to Disease23543
BioCentury BCIQRBFOX2
ClinGenRBFOX2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD23543
Chemical/Pharm GKB GenePA34272
Clinical trialRBFOX2
Miscellaneous
canSAR (ICR)RBFOX2 (select the gene name)
Probes
Litterature
PubMed53 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRBFOX2
EVEXRBFOX2
GoPubMedRBFOX2
iHOPRBFOX2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri May 19 12:34:26 CEST 2017

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