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SSX6 (synovial sarcoma, X breakpoint 6 (pseudogene))

Identity

Other namesSSXP2
dJ54B20.1
psiSSX2
HGNC (Hugo) SSX6
LocusID (NCBI) 280657
Atlas_Id 42411
Location Xp11.23
Location_base_pair Starts at 47967377 and ends at 47973694 bp from pter ( according to hg19-Feb_2009)

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)SSX6   19652
Cards
Entrez_Gene (NCBI)SSX6  280657  synovial sarcoma, X breakpoint 6 (pseudogene)
GeneCards (Weizmann)SSX6
Ensembl hg19 (Hinxton) [Gene_View]  chrX:47967377-47973694 [Contig_View]  SSX6 [Vega]
Ensembl hg38 (Hinxton) [Gene_View]  chrX:47967377-47973694 [Contig_View]  SSX6 [Vega]
TCGA cBioPortalSSX6
AceView (NCBI)SSX6
Genatlas (Paris)SSX6
WikiGenes280657
SOURCE (Princeton)SSX6
Genomic and cartography
GoldenPath hg19 (UCSC)SSX6  -     chrX:47967377-47973694 +  Xp11.23   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SSX6  -     Xp11.23   [Description]    (hg38-Dec_2013)
EnsemblSSX6 - Xp11.23 [CytoView hg19]  SSX6 - Xp11.23 [CytoView hg38]
Mapping of homologs : NCBISSX6 [Mapview hg19]  SSX6 [Mapview hg38]
OMIM300541   
Gene and transcription
Genbank (Entrez)AK302765 BC148532 BC153125 BK000686
RefSeq transcript (Entrez)NM_173357
RefSeq genomic (Entrez)NC_000023 NC_018934 NG_002582 NT_079573 NW_004929439
Consensus coding sequences : CCDS (NCBI)SSX6
Cluster EST : UnigeneHs.511998 [ NCBI ]
CGAP (NCI)Hs.511998
Alternative Splicing : Fast-db (Paris)GSHG0031505
Gene ExpressionSSX6 [ NCBI-GEO ]     SSX6 [ SEEK ]   SSX6 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ7RTT6 (Uniprot)
NextProtQ7RTT6  [Medical]
With graphics : InterProQ7RTT6
Splice isoforms : SwissVarQ7RTT6 (Swissvar)
Domaine pattern : Prosite (Expaxy)KRAB_RELATED (PS50806)   
Domains : Interpro (EBI)Krueppel-associated_box    Krueppel-associated_box-rel    SSX    SSXRD_motif   
Related proteins : CluSTrQ7RTT6
Domain families : Pfam (Sanger)SSXRD (PF09514)   
Domain families : Pfam (NCBI)pfam09514   
Domain families : Smart (EMBL)KRAB (SM00349)  
DMDM Disease mutations280657
Blocks (Seattle)Q7RTT6
Peptide AtlasQ7RTT6
HPRD18109
IPIIPI00175923   IPI00979084   IPI00964093   
Protein Interaction databases
DIP (DOE-UCLA)Q7RTT6
IntAct (EBI)Q7RTT6
BioGRIDSSX6
IntegromeDBSSX6
STRING (EMBL)SSX6
Ontologies - Pathways
QuickGOQ7RTT6
Ontology : AmiGOnucleic acid binding  nucleus  transcription, DNA-templated  regulation of transcription, DNA-templated  
Ontology : EGO-EBInucleic acid binding  nucleus  transcription, DNA-templated  regulation of transcription, DNA-templated  
Protein Interaction DatabaseSSX6
DoCM (Curated mutations)SSX6
Wikipedia pathwaysSSX6
Gene fusion - Rearrangements
Gene fusion: TCGA
Polymorphisms : SNP, variants
NCBI Variation ViewerSSX6 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SSX6
dbVarSSX6
ClinVarSSX6
1000_GenomesSSX6 
Exome Variant ServerSSX6
SNP (GeneSNP Utah)SSX6
SNP : HGBaseSSX6
Genetic variants : HAPMAPSSX6
Genomic Variants (DGV)SSX6 [DGVbeta]
Mutations
ICGC Data PortalSSX6 
TCGA Data PortalSSX6 
Tumor PortalSSX6
Somatic Mutations in Cancer : COSMICSSX6 
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)X-chromosome gene database
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)X:47967377-47973694
CONAN: Copy Number AnalysisSSX6 
Mutations and Diseases : HGMDSSX6
OMIM300541   
MedgenSSX6
NextProtQ7RTT6 [Medical]
GENETestsSSX6
Disease Genetic AssociationSSX6
Huge Navigator SSX6 [HugePedia]  SSX6 [HugeCancerGEM]
snp3D : Map Gene to Disease280657
DGIdb (Drug Gene Interaction db)SSX6
General knowledge
Homologs : HomoloGeneSSX6
Homology/Alignments : Family Browser (UCSC)SSX6
Phylogenetic Trees/Animal Genes : TreeFamSSX6
Chemical/Protein Interactions : CTD280657
Chemical/Pharm GKB GenePA134968874
Clinical trialSSX6
Other databases
Probes
Litterature
PubMed5 Pubmed reference(s) in Entrez
CoreMineSSX6
GoPubMedSSX6
iHOPSSX6
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated02-2015Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed May 20 20:09:08 CEST 2015

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