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SSX1 (synovial sarcoma, X breakpoint 1)

Identity

Other namesCT5.1
SSRC
HGNC (Hugo) SSX1
LocusID (NCBI) 6756
Atlas_Id 87
Location Xp11.23  [Link to chromosome band Xp11]
Location_base_pair Starts at 48114752 and ends at 48126879 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
SS18 (18q11.2) / SSX1 (Xp11.23)SS18L1 (20q13.33) / SSX1 (Xp11.23)SSX1 (Xp11.23) / SS18 (18q11.2)
SSX1 (Xp11.23) / SS18L1 (20q13.33)SSX1 (Xp11.23) / SSX1 (Xp11.23)SSX1 (Xp11.23) / SYT1 (12q21.2)
SSX1 (Xp11.23) / SYT4 (18q12.3)SYT1 (12q21.2) / SSX1 (Xp11.23)SSX1 Xp11.23 / SS18 18q11.2

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

 

Breakpoints

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 4 ]
  Prostate tumors: an overview
Soft tissue tumors: an overview
Testis: Spermatocytic seminoma
Soft Tissues: Biphasic svial sarcoma with t(X;20)(p11;q13) SS18L1/SSX1
Soft Tissues: Synovial sarcoma with t(X;18)(p11;q11) SS18/

External links

Nomenclature
HGNC (Hugo)SSX1   11335
Cards
Entrez_Gene (NCBI)SSX1  6756  synovial sarcoma, X breakpoint 1
AliasesCT5.1; SSRC
GeneCards (Weizmann)SSX1
Ensembl hg19 (Hinxton)ENSG00000126752 [Gene_View]  chrX:48114752-48126879 [Contig_View]  SSX1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000126752 [Gene_View]  chrX:48114752-48126879 [Contig_View]  SSX1 [Vega]
ICGC DataPortalENSG00000126752
TCGA cBioPortalSSX1
AceView (NCBI)SSX1
Genatlas (Paris)SSX1
WikiGenes6756
SOURCE (Princeton)SSX1
Genomic and cartography
GoldenPath hg19 (UCSC)SSX1  -     chrX:48114752-48126879 +  Xp11.23   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SSX1  -     Xp11.23   [Description]    (hg38-Dec_2013)
EnsemblSSX1 - Xp11.23 [CytoView hg19]  SSX1 - Xp11.23 [CytoView hg38]
Mapping of homologs : NCBISSX1 [Mapview hg19]  SSX1 [Mapview hg38]
OMIM300813   312820   
Gene and transcription
Genbank (Entrez)BC001003 BC125151 BC128611 BC133693 BC150487
RefSeq transcript (Entrez)NM_001278691 NM_005635
RefSeq genomic (Entrez)NC_000023 NC_018934 NG_012528 NT_079573 NW_004929439
Consensus coding sequences : CCDS (NCBI)SSX1
Cluster EST : UnigeneHs.434142 [ NCBI ]
CGAP (NCI)Hs.434142
Alternative Splicing GalleryENSG00000126752
Gene ExpressionSSX1 [ NCBI-GEO ]   SSX1 [ EBI - ARRAY_EXPRESS ]   SSX1 [ SEEK ]   SSX1 [ MEM ]
Gene Expression Viewer (FireBrowse)SSX1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6756
GTEX Portal (Tissue expression)SSX1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ16384 (Uniprot)
NextProtQ16384  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ16384
Splice isoforms : SwissVarQ16384 (Swissvar)
PhosPhoSitePlusQ16384
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)  
DMDM Disease mutations6756
Blocks (Seattle)SSX1
SuperfamilyQ16384
Human Protein AtlasENSG00000126752
Peptide AtlasQ16384
HPRD02428
IPIIPI00001519   
Protein Interaction databases
DIP (DOE-UCLA)Q16384
IntAct (EBI)Q16384
FunCoupENSG00000126752
BioGRIDSSX1
STRING (EMBL)SSX1
ZODIACSSX1
Ontologies - Pathways
QuickGOQ16384
Ontology : AmiGOnucleic acid binding  transcription corepressor activity  protein binding  nucleus  transcription, DNA-templated  regulation of transcription, DNA-templated  negative regulation of nucleic acid-templated transcription  
Ontology : EGO-EBInucleic acid binding  transcription corepressor activity  protein binding  nucleus  transcription, DNA-templated  regulation of transcription, DNA-templated  negative regulation of nucleic acid-templated transcription  
Pathways : KEGGTranscriptional misregulation in cancer   
NDEx Network
Atlas of Cancer Signalling NetworkSSX1
Wikipedia pathwaysSSX1
Orthology - Evolution
OrthoDB6756
GeneTree (enSembl)ENSG00000126752
Phylogenetic Trees/Animal Genes : TreeFamSSX1
Homologs : HomoloGeneSSX1
Homology/Alignments : Family Browser (UCSC)SSX1
Gene fusions - Rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerSSX1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SSX1
dbVarSSX1
ClinVarSSX1
1000_GenomesSSX1 
Exome Variant ServerSSX1
ExAC (Exome Aggregation Consortium)SSX1 (select the gene name)
Genetic variants : HAPMAP6756
Genomic Variants (DGV)SSX1 [DGVbeta]
Mutations
ICGC Data PortalSSX1 
TCGA Data PortalSSX1 
Broad Tumor PortalSSX1
OASIS PortalSSX1 [ Somatic mutations - Copy number]
Cancer Gene: CensusSSX1 
Somatic Mutations in Cancer : COSMICSSX1 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)X-chromosome gene database
BioMutasearch SSX1
DgiDB (Drug Gene Interaction Database)SSX1
DoCM (Curated mutations)SSX1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SSX1 (select a term)
intoGenSSX1
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)X:48114752-48126879  ENSG00000126752
CONAN: Copy Number AnalysisSSX1 
Mutations and Diseases : HGMDSSX1
OMIM300813    312820   
MedgenSSX1
Genetic Testing Registry SSX1
NextProtQ16384 [Medical]
TSGene6756
GENETestsSSX1
Huge Navigator SSX1 [HugePedia]
snp3D : Map Gene to Disease6756
BioCentury BCIQSSX1
ClinGenSSX1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6756
Chemical/Pharm GKB GenePA36159
Clinical trialSSX1
Miscellaneous
canSAR (ICR)SSX1 (select the gene name)
Probes
Litterature
PubMed40 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSSX1
EVEXSSX1
GoPubMedSSX1
iHOPSSX1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Aug 9 19:09:49 CEST 2016

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