Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   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

ARID1B (AT-rich interaction domain 1B)

Identity

Other names6A3-5
BAF250B
BRIGHT
DAN15
ELD/OSA1
MRD12
OSA2
P250R
HGNC (Hugo) ARID1B
LocusID (NCBI) 57492
Atlas_Id 53195
Location 6q25.3
Location_base_pair Starts at 157099064 and ends at 157531913 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2015)
ARID1B 6q25.3 AL590867.1ARID1B 6q25.3 C6orf35ARID1B 6q25.3 / ENPP4 6p21.1
ARID1B 6q25.3 / PARK2 6q26ARID1B 6q25.3 / PLEKHG1 6q25.1ARID1B 6q25.3 / PREP 6q21
ARID1B 6q25.3 / SNX9 6q25.3ARID1B 6q25.3 / SYNE1 6q25.1ARID1B 6q25.3 / TIAM2 6q25.3
C6orf35 ARID1B 6q25.3SASH1 6q24.3 / ARID1B 6q25.3

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)ARID1B   18040
Cards
Entrez_Gene (NCBI)ARID1B  57492  AT-rich interaction domain 1B
GeneCards (Weizmann)ARID1B
Ensembl hg19 (Hinxton)ENSG00000049618 [Gene_View]  chr6:157099064-157531913 [Contig_View]  ARID1B [Vega]
Ensembl hg38 (Hinxton)ENSG00000049618 [Gene_View]  chr6:157099064-157531913 [Contig_View]  ARID1B [Vega]
ICGC DataPortalENSG00000049618
TCGA cBioPortalARID1B
AceView (NCBI)ARID1B
Genatlas (Paris)ARID1B
WikiGenes57492
SOURCE (Princeton)ARID1B
Genomic and cartography
GoldenPath hg19 (UCSC)ARID1B  -     chr6:157099064-157531913 +  6q25.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)ARID1B  -     6q25.3   [Description]    (hg38-Dec_2013)
EnsemblARID1B - 6q25.3 [CytoView hg19]  ARID1B - 6q25.3 [CytoView hg38]
Mapping of homologs : NCBIARID1B [Mapview hg19]  ARID1B [Mapview hg38]
OMIM614556   614562   
Gene and transcription
Genbank (Entrez)AB033061 AF253515 AF259792 AF468300 AF521671
RefSeq transcript (Entrez)NM_017519 NM_020732
RefSeq genomic (Entrez)NC_000006 NC_018917 NG_032093 NT_025741 NW_004929328
Consensus coding sequences : CCDS (NCBI)ARID1B
Cluster EST : UnigeneHs.744461 [ NCBI ]
CGAP (NCI)Hs.744461
Alternative Splicing : Fast-db (Paris)GSHG0026145
Alternative Splicing GalleryENSG00000049618
Gene ExpressionARID1B [ NCBI-GEO ]     ARID1B [ SEEK ]   ARID1B [ MEM ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
BioGPS (Tissue expression)57492
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8NFD5 (Uniprot)
NextProtQ8NFD5  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8NFD5
Splice isoforms : SwissVarQ8NFD5 (Swissvar)
PhosPhoSitePlusQ8NFD5
Domaine pattern : Prosite (Expaxy)ARID (PS51011)   
Domains : Interpro (EBI)ARID_dom    ARM-like    BAF250/Osa   
Domain families : Pfam (Sanger)ARID (PF01388)    DUF3518 (PF12031)   
Domain families : Pfam (NCBI)pfam01388    pfam12031   
Domain families : Smart (EMBL)BRIGHT (SM00501)  
DMDM Disease mutations57492
Blocks (Seattle)ARID1B
PDB (SRS)2CXY    2EH9   
PDB (PDBSum)2CXY    2EH9   
PDB (IMB)2CXY    2EH9   
PDB (RSDB)2CXY    2EH9   
Structural Biology KnowledgeBase2CXY    2EH9   
SCOP (Structural Classification of Proteins)2CXY    2EH9   
CATH (Classification of proteins structures)2CXY    2EH9   
Human Protein AtlasENSG00000049618
Peptide AtlasQ8NFD5
HPRD10660
IPIIPI00015404   IPI00395617   IPI00396577   IPI00023986   IPI00152720   IPI00552725   IPI00742937   IPI00964415   
Protein Interaction databases
DIP (DOE-UCLA)Q8NFD5
IntAct (EBI)Q8NFD5
FunCoupENSG00000049618
BioGRIDARID1B
IntegromeDBARID1B
STRING (EMBL)ARID1B
ZODIACARID1B
Ontologies - Pathways
QuickGOQ8NFD5
Ontology : AmiGODNA binding  transcription coactivator activity  protein binding  nucleoplasm  cytoplasm  transcription, DNA-templated  nervous system development  SWI/SNF complex  chromatin-mediated maintenance of transcription  nBAF complex  
Ontology : EGO-EBIDNA binding  transcription coactivator activity  protein binding  nucleoplasm  cytoplasm  transcription, DNA-templated  nervous system development  SWI/SNF complex  chromatin-mediated maintenance of transcription  nBAF complex  
Protein Interaction DatabaseARID1B
Atlas of Cancer Signalling NetworkARID1B
Wikipedia pathwaysARID1B
Orthology - Evolution
OrthoDB57492
GeneTree (enSembl)ENSG00000049618
Phylogenetic Trees/Animal Genes : TreeFamARID1B
Homologs : HomoloGeneARID1B
Homology/Alignments : Family Browser (UCSC)ARID1B
Gene fusions - Rearrangements
Fusion: TCGAARID1B 6q25.3 AL590867.1 BRCA
Fusion: TCGAARID1B 6q25.3 C6orf35 LUAD
Fusion: TCGAARID1B 6q25.3 ENPP4 6p21.1 LUSC
Fusion: TCGAARID1B 6q25.3 PARK2 6q26 LUAD
Fusion: TCGAARID1B 6q25.3 PLEKHG1 6q25.1 BRCA
Fusion: TCGAARID1B 6q25.3 PREP 6q21 LGG
Fusion: TCGAARID1B 6q25.3 SNX9 6q25.3 BRCA
Fusion: TCGAARID1B 6q25.3 SYNE1 6q25.1 OV
Fusion: TCGAARID1B 6q25.3 TIAM2 6q25.3 GBM
Fusion: TCGAC6orf35 ARID1B 6q25.3 LUAD
Fusion: TCGASASH1 6q24.3 ARID1B 6q25.3 BRCA
Polymorphisms : SNP, variants
NCBI Variation ViewerARID1B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)ARID1B
dbVarARID1B
ClinVarARID1B
1000_GenomesARID1B 
Exome Variant ServerARID1B
Exome Aggregation Consortium (ExAC)ENSG00000049618
SNP (GeneSNP Utah)ARID1B
SNP : HGBaseARID1B
Genetic variants : HAPMAPARID1B
Genomic Variants (DGV)ARID1B [DGVbeta]
Mutations
ICGC Data PortalARID1B 
TCGA Data PortalARID1B 
Tumor PortalARID1B
TCGA Copy Number PortalARID1B
Cancer Gene: CensusARID1B 
Somatic Mutations in Cancer : COSMICARID1B 
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)LOVD - Leiden Open Variation Database
BioMutasearch ARID1B
DgiDB (Drug Gene Interaction Database)ARID1B
DoCM (Curated mutations)ARID1B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)ARID1B (select a term)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)6:157099064-157531913
CONAN: Copy Number AnalysisARID1B 
Mutations and Diseases : HGMDARID1B
OMIM614556    614562   
MedgenARID1B
NextProtQ8NFD5 [Medical]
TSGene57492
GENETestsARID1B
Huge Navigator ARID1B [HugePedia]  ARID1B [HugeCancerGEM]
snp3D : Map Gene to Disease57492
BioCentury BCIQARID1B
General knowledge
Chemical/Protein Interactions : CTD57492
Chemical/Pharm GKB GenePA134909463
Clinical trialARID1B
Other databases
Probes
Litterature
PubMed61 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineARID1B
GoPubMedARID1B
iHOPARID1B
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 : Sat Jan 16 18:09:42 CET 2016

Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.