Atlas of Genetics and Cytogenetics in Oncology and Haematology

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SMARCA2 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2)

Identity

Other namesBAF190
BRM
NCBRS
SNF2
SNF2L2
SNF2LA
SWI2
Sth1p
hBRM
hSNF2a
HGNC (Hugo) SMARCA2
LocusID (NCBI) 6595
Atlas_Id 42331
Location 9p24.3  [Link to chromosome band 9p24]
Location_base_pair Starts at 2021945 and ends at 2193623 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)		FGFR1OP2 (12p11.23) / SMARCA2 (9p24.3)GFM1 (3q25.32) / SMARCA2 (9p24.3)KCNMA1 (10q22.3) / SMARCA2 (9p24.3)
PVT1 (8q24.21) / SMARCA2 (9p24.3)RFX3 (9p24.2) / SMARCA2 (9p24.3)SMARCA2 (9p24.3) / AC074212.3 ()
SMARCA2 (9p24.3) / DMRT1 (9p24.3)SMARCA2 (9p24.3) / SMARCA2 (9p24.3)TMEM181 (6q25.3) / SMARCA2 (9p24.3)
RFX3 9p24.2 / SMARCA2 9p24.3SMARCA2 9p24.3 AC074212.3SMARCA2 9p24.3 / DMRT1 9p24.3

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)SMARCA2   11098
Cards
Entrez_Gene (NCBI)SMARCA2  6595  SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2
AliasesBAF190; BRM; NCBRS; SNF2; 
SNF2L2; SNF2LA; SWI2; Sth1p; hBRM; hSNF2a
GeneCards (Weizmann)SMARCA2
Ensembl hg19 (Hinxton)ENSG00000080503 [Gene_View]  chr9:2021945-2193623 [Contig_View]  SMARCA2 [Vega]
Ensembl hg38 (Hinxton)ENSG00000080503 [Gene_View]  chr9:2021945-2193623 [Contig_View]  SMARCA2 [Vega]
ICGC DataPortalENSG00000080503
TCGA cBioPortalSMARCA2
AceView (NCBI)SMARCA2
Genatlas (Paris)SMARCA2
WikiGenes6595
SOURCE (Princeton)SMARCA2
Genomic and cartography
GoldenPath hg19 (UCSC)SMARCA2  -     chr9:2021945-2193623 +  9p24.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SMARCA2  -     9p24.3   [Description]    (hg38-Dec_2013)
EnsemblSMARCA2 - 9p24.3 [CytoView hg19]  SMARCA2 - 9p24.3 [CytoView hg38]
Mapping of homologs : NCBISMARCA2 [Mapview hg19]  SMARCA2 [Mapview hg38]
OMIM600014   601358   
Gene and transcription
Genbank (Entrez)AK094076 AK296373 AK298045 AK299683 AK300093
RefSeq transcript (Entrez)NM_001289396 NM_001289397 NM_001289398 NM_001289399 NM_001289400 NM_003070 NM_139045
RefSeq genomic (Entrez)NC_000009 NC_018920 NG_032162 NT_008413 NW_004929342
Consensus coding sequences : CCDS (NCBI)SMARCA2
Cluster EST : UnigeneHs.644901 [ NCBI ]
CGAP (NCI)Hs.644901
Alternative Splicing GalleryENSG00000080503
Gene ExpressionSMARCA2 [ NCBI-GEO ]   SMARCA2 [ EBI - ARRAY_EXPRESS ]   SMARCA2 [ SEEK ]   SMARCA2 [ MEM ]
Gene Expression Viewer (FireBrowse)SMARCA2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6595
GTEX Portal (Tissue expression)SMARCA2
Protein : pattern, domain, 3D structure
UniProt/SwissProtP51531 (Uniprot)
NextProtP51531  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP51531
Splice isoforms : SwissVarP51531 (Swissvar)
Catalytic activity : Enzyme3.6.4.- [ Enzyme-Expasy ]   3.6.4.-3.6.4.- [ IntEnz-EBI ]   3.6.4.- [ BRENDA ]   3.6.4.- [ KEGG ]   
PhosPhoSitePlusP51531
Domaine pattern : Prosite (Expaxy)BROMODOMAIN_1 (PS00633)    BROMODOMAIN_2 (PS50014)    HELICASE_ATP_BIND_1 (PS51192)    HELICASE_CTER (PS51194)    HSA (PS51204)    QLQ (PS51666)   
Domains : Interpro (EBI)BRK_domain    Bromodomain    Bromodomain_CS    Gln-Leu-Gln_QLQ    Helicase_ATP-bd    Helicase_C    HSA_dom    P-loop_NTPase    SMARCA2    SnAC    SNF2_N   
Domain families : Pfam (Sanger)BRK (PF07533)    Bromodomain (PF00439)    Helicase_C (PF00271)    HSA (PF07529)    QLQ (PF08880)    SnAC (PF14619)    SNF2_N (PF00176)   
Domain families : Pfam (NCBI)pfam07533    pfam00439    pfam00271    pfam07529    pfam08880    pfam14619    pfam00176   
Domain families : Smart (EMBL)BRK (SM00592)  BROMO (SM00297)  DEXDc (SM00487)  HELICc (SM00490)  HSA (SM00573)  QLQ (SM00951)  
DMDM Disease mutations6595
Blocks (Seattle)SMARCA2
PDB (SRS)2DAT    5DKC   
PDB (PDBSum)2DAT    5DKC   
PDB (IMB)2DAT    5DKC   
PDB (RSDB)2DAT    5DKC   
Structural Biology KnowledgeBase2DAT    5DKC   
SCOP (Structural Classification of Proteins)2DAT    5DKC   
CATH (Classification of proteins structures)2DAT    5DKC   
SuperfamilyP51531
Human Protein AtlasENSG00000080503
Peptide AtlasP51531
HPRD02483
IPIIPI00514648   IPI00386718   IPI00647560   IPI00647028   IPI00641350   IPI00641050   IPI00640353   IPI00642503   IPI00103451   IPI00643691   IPI00640994   IPI00644329   IPI00645885   
Protein Interaction databases
DIP (DOE-UCLA)P51531
IntAct (EBI)P51531
FunCoupENSG00000080503
BioGRIDSMARCA2
STRING (EMBL)SMARCA2
ZODIACSMARCA2
Ontologies - Pathways
QuickGOP51531
Ontology : AmiGOnegative regulation of transcription from RNA polymerase II promoter  nuclear chromatin  RNA polymerase II transcription coactivator activity  chromatin binding  transcription coactivator activity  helicase activity  protein binding  ATP binding  nucleus  nucleoplasm  nucleoplasm  chromatin remodeling  chromatin remodeling  transcription, DNA-templated  regulation of transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  spermatid development  nervous system development  DNA-dependent ATPase activity  negative regulation of cell proliferation  SWI/SNF complex  negative regulation of cell growth  histone binding  intracellular membrane-bounded organelle  transcription regulatory region DNA binding  intermediate filament cytoskeleton  negative regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  positive regulation of transcription from RNA polymerase II promoter  positive regulation of transcription from RNA polymerase II promoter  npBAF complex  nBAF complex  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  nuclear chromatin  RNA polymerase II transcription coactivator activity  chromatin binding  transcription coactivator activity  helicase activity  protein binding  ATP binding  nucleus  nucleoplasm  nucleoplasm  chromatin remodeling  chromatin remodeling  transcription, DNA-templated  regulation of transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  spermatid development  nervous system development  DNA-dependent ATPase activity  negative regulation of cell proliferation  SWI/SNF complex  negative regulation of cell growth  histone binding  intracellular membrane-bounded organelle  transcription regulatory region DNA binding  intermediate filament cytoskeleton  negative regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  positive regulation of transcription from RNA polymerase II promoter  positive regulation of transcription from RNA polymerase II promoter  npBAF complex  nBAF complex  
NDEx NetworkSMARCA2
Atlas of Cancer Signalling NetworkSMARCA2
Wikipedia pathwaysSMARCA2
Orthology - Evolution
OrthoDB6595
GeneTree (enSembl)ENSG00000080503
Phylogenetic Trees/Animal Genes : TreeFamSMARCA2
Homologs : HomoloGeneSMARCA2
Homology/Alignments : Family Browser (UCSC)SMARCA2
Gene fusions - Rearrangements
Fusion: TCGARFX3 9p24.2 SMARCA2 9p24.3 BRCA
Fusion: TCGASMARCA2 9p24.3 AC074212.3 SKCM
Fusion: TCGASMARCA2 9p24.3 DMRT1 9p24.3 HNSC
Polymorphisms : SNP, variants
NCBI Variation ViewerSMARCA2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SMARCA2
dbVarSMARCA2
ClinVarSMARCA2
1000_GenomesSMARCA2 
Exome Variant ServerSMARCA2
ExAC (Exome Aggregation Consortium)SMARCA2 (select the gene name)
Genetic variants : HAPMAP6595
Genomic Variants (DGV)SMARCA2 [DGVbeta]
Mutations
ICGC Data PortalSMARCA2 
TCGA Data PortalSMARCA2 
Broad Tumor PortalSMARCA2
OASIS PortalSMARCA2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSMARCA2 
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 SMARCA2
DgiDB (Drug Gene Interaction Database)SMARCA2
DoCM (Curated mutations)SMARCA2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SMARCA2 (select a term)
intoGenSMARCA2
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)9:2021945-2193623  ENSG00000080503
CONAN: Copy Number AnalysisSMARCA2 
Mutations and Diseases : HGMDSMARCA2
OMIM600014    601358   
MedgenSMARCA2
Genetic Testing Registry SMARCA2
NextProtP51531 [Medical]
TSGene6595
GENETestsSMARCA2
Huge Navigator SMARCA2 [HugePedia]
snp3D : Map Gene to Disease6595
BioCentury BCIQSMARCA2
ClinGenSMARCA2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6595
Chemical/Pharm GKB GenePA35948
Clinical trialSMARCA2
Miscellaneous
canSAR (ICR)SMARCA2 (select the gene name)
Probes
Litterature
PubMed162 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSMARCA2
EVEXSMARCA2
GoPubMedSMARCA2
iHOPSMARCA2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 19 19:14:02 CEST 2016
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