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SSX4B (SSX family member 4B)

Identity

Alias_namessynovial sarcoma
Alias_symbol (synonym)OTTHUMT00000056510
Other aliasCT5.4
HGNC (Hugo) SSX4B
LocusID (NCBI) 548313
Atlas_Id 43041
Location Xp11.23  [Link to chromosome band Xp11]
Location_base_pair Starts at 48383516 and ends at 48393343 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)
SS18 (18q11.2) / SSX4B (Xp11.23)

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)SSX4B   16880
Cards
Entrez_Gene (NCBI)SSX4B  548313  SSX family member 4B
AliasesCT5.4
GeneCards (Weizmann)SSX4B
Ensembl hg19 (Hinxton)ENSG00000269791 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000269791 [Gene_View]  ENSG00000269791 [Sequence]  chrX:48383516-48393343 [Contig_View]  SSX4B [Vega]
ICGC DataPortalENSG00000269791
TCGA cBioPortalSSX4B
AceView (NCBI)SSX4B
Genatlas (Paris)SSX4B
WikiGenes548313
SOURCE (Princeton)SSX4B
Genetics Home Reference (NIH)SSX4B
Genomic and cartography
GoldenPath hg38 (UCSC)SSX4B  -     chrX:48383516-48393343 +  Xp11.23   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SSX4B  -     Xp11.23   [Description]    (hg19-Feb_2009)
EnsemblSSX4B - Xp11.23 [CytoView hg19]  SSX4B - Xp11.23 [CytoView hg38]
Mapping of homologs : NCBISSX4B [Mapview hg19]  SSX4B [Mapview hg38]
Gene and transcription
Genbank (Entrez)AA312651 AX740218 BC005325 BC103864 BC137394
RefSeq transcript (Entrez)NM_001034832 NM_001040612
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SSX4B
Cluster EST : UnigeneHs.648298 [ NCBI ]
CGAP (NCI)Hs.648298
Alternative Splicing GalleryENSG00000269791
Gene ExpressionSSX4B [ NCBI-GEO ]   SSX4B [ EBI - ARRAY_EXPRESS ]   SSX4B [ SEEK ]   SSX4B [ MEM ]
Gene Expression Viewer (FireBrowse)SSX4B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)548313
GTEX Portal (Tissue expression)SSX4B
Human Protein AtlasENSG00000269791-SSX4B [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO60224   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO60224  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO60224
Splice isoforms : SwissVarO60224
PhosPhoSitePlusO60224
Domaine pattern : Prosite (Expaxy)KRAB_RELATED (PS50806)   
Domains : Interpro (EBI)KRAB    Krueppel-associated_box-rel    SSX    SSXRD_motif   
Domain families : Pfam (Sanger)KRAB (PF01352)    SSXRD (PF09514)   
Domain families : Pfam (NCBI)pfam01352    pfam09514   
Domain families : Smart (EMBL)KRAB (SM00349)  
Conserved Domain (NCBI)SSX4B
DMDM Disease mutations548313
Blocks (Seattle)SSX4B
SuperfamilyO60224
Human Protein Atlas [tissue]ENSG00000269791-SSX4B [tissue]
Peptide AtlasO60224
IPIIPI00028377   IPI00651676   IPI00332129   
Protein Interaction databases
DIP (DOE-UCLA)O60224
IntAct (EBI)O60224
FunCoupENSG00000269791
BioGRIDSSX4B
STRING (EMBL)SSX4B
ZODIACSSX4B
Ontologies - Pathways
QuickGOO60224
Ontology : AmiGOnucleic acid binding  transcription corepressor activity  nucleus  transcription, DNA-templated  regulation of transcription, DNA-templated  negative regulation of nucleic acid-templated transcription  
Ontology : EGO-EBInucleic acid binding  transcription corepressor activity  nucleus  transcription, DNA-templated  regulation of transcription, DNA-templated  negative regulation of nucleic acid-templated transcription  
NDEx NetworkSSX4B
Atlas of Cancer Signalling NetworkSSX4B
Wikipedia pathwaysSSX4B
Orthology - Evolution
OrthoDB548313
GeneTree (enSembl)ENSG00000269791
Phylogenetic Trees/Animal Genes : TreeFamSSX4B
HOVERGENO60224
HOGENOMO60224
Homologs : HomoloGeneSSX4B
Homology/Alignments : Family Browser (UCSC)SSX4B
Gene fusions - Rearrangements
Fusion : QuiverSSX4B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSSX4B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SSX4B
dbVarSSX4B
ClinVarSSX4B
1000_GenomesSSX4B 
Exome Variant ServerSSX4B
ExAC (Exome Aggregation Consortium)ENSG00000269791
GNOMAD BrowserENSG00000269791
Genetic variants : HAPMAP548313
Genomic Variants (DGV)SSX4B [DGVbeta]
DECIPHERSSX4B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSSX4B 
Mutations
ICGC Data PortalSSX4B 
TCGA Data PortalSSX4B 
Broad Tumor PortalSSX4B
OASIS PortalSSX4B [ Somatic mutations - Copy number]
Mutations and Diseases : HGMDSSX4B
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SSX4B
DgiDB (Drug Gene Interaction Database)SSX4B
DoCM (Curated mutations)SSX4B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SSX4B (select a term)
intoGenSSX4B
Cancer3DSSX4B(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETSSX4B
MedgenSSX4B
Genetic Testing Registry SSX4B
NextProtO60224 [Medical]
TSGene548313
GENETestsSSX4B
Target ValidationSSX4B
Huge Navigator SSX4B [HugePedia]
snp3D : Map Gene to Disease548313
BioCentury BCIQSSX4B
ClinGenSSX4B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD548313
Chemical/Pharm GKB GenePA142670867
Clinical trialSSX4B
Miscellaneous
canSAR (ICR)SSX4B (select the gene name)
Probes
Litterature
PubMed13 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSSX4B
EVEXSSX4B
GoPubMedSSX4B
iHOPSSX4B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri Jun 22 16:51:57 CEST 2018

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