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Aliases for SSX6 Gene

Aliases for SSX6 Gene

  • Synovial Sarcoma, X Breakpoint 6 (Pseudogene) 2 3
  • SSX Family Pseudogene 2 2 3
  • Synovial Sarcoma X Breakpoint 6 Protein 3
  • Synovial Sarcoma, X Breakpoint 6 2
  • SSX2 Pseudogene 3
  • DJ54B20.1 3
  • PsiSSX2 3
  • SSXP2 3

External Ids for SSX6 Gene

Previous HGNC Symbols for SSX6 Gene

  • SSXP2

Previous GeneCards Identifiers for SSX6 Gene

  • GC0XU900001
  • GC0XP046793
  • GC0XP047013
  • GC0XP047723
  • GC0XP047852
  • GC0XP047967

Summaries for SSX6 Gene

Entrez Gene Summary for SSX6 Gene

  • This gene belongs to the family of highly homologous synovial sarcoma X (SSX) breakpoint proteins. These proteins may function as transcriptional repressors. They are also capable of eliciting spontaneously humoral and cellular immune responses in cancer patients, and are potentially useful targets in cancer vaccine-based immunotherapy. SSX1, SSX2 and SSX4 genes have been involved in the t(X;18) translocation characteristically found in all synovial sarcomas. This gene is classified as a pseudogene because a splice donor in the 3' UTR has changed compared to other family members, rendering the transcript a candidate for nonsense-mediated mRNA decay (NMD). [provided by RefSeq, Aug 2009]

GeneCards Summary for SSX6 Gene

SSX6 (Synovial Sarcoma, X Breakpoint 6 (Pseudogene)) is a Pseudogene. Diseases associated with SSX6 include sarcoma. GO annotations related to this gene include nucleic acid binding.

UniProtKB/Swiss-Prot for SSX6 Gene

  • Could act as a modulator of transcription

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SSX6 Gene

Genomics for SSX6 Gene

Regulatory Elements for SSX6 Gene

Genomic Location for SSX6 Gene

Start:
48,107,982 bp from pter
End:
48,120,686 bp from pter
Size:
12,705 bases
Orientation:
Plus strand

Genomic View for SSX6 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SSX6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SSX6 Gene

Proteins for SSX6 Gene

  • Protein details for SSX6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q7RTT6-SSX6_HUMAN
    Recommended name:
    Putative protein SSX6
    Protein Accession:
    Q7RTT6
    Secondary Accessions:

    Protein attributes for SSX6 Gene

    Size:
    188 amino acids
    Molecular mass:
    21688 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SSX6 Gene

Proteomics data for SSX6 Gene at MOPED

Post-translational modifications for SSX6 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SSX6 Gene

Domains for SSX6 Gene

Protein Domains for SSX6 Gene

Suggested Antigen Peptide Sequences for SSX6 Gene

Graphical View of Domain Structure for InterPro Entry

Q7RTT6

UniProtKB/Swiss-Prot:

SSX6_HUMAN :
  • Q7RTT6
Domain:
  • Contains 1 KRAB-related domain.
Family:
  • Belongs to the SSX family.
genes like me logo Genes that share domains with SSX6: view

No data available for Gene Families for SSX6 Gene

Function for SSX6 Gene

Molecular function for SSX6 Gene

UniProtKB/Swiss-Prot Function: Could act as a modulator of transcription

Gene Ontology (GO) - Molecular Function for SSX6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
genes like me logo Genes that share ontologies with SSX6: view

Phenotypes for SSX6 Gene

GenomeRNAi human phenotypes for SSX6:
genes like me logo Genes that share phenotypes with SSX6: view

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SSX6

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for SSX6 Gene

Localization for SSX6 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SSX6 Gene COMPARTMENTS Subcellular localization image for SSX6 gene
Compartment Confidence
nucleus 3
cytosol 2

Gene Ontology (GO) - Cellular Components for SSX6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with SSX6: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for SSX6 Gene

Pathways for SSX6 Gene

SuperPathways for SSX6 Gene

No Data Available

Interacting Proteins for SSX6 Gene

Gene Ontology (GO) - Biological Process for SSX6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with SSX6: view

No data available for Pathways by source for SSX6 Gene

Transcripts for SSX6 Gene

mRNA/cDNA for SSX6 Gene

(4) Selected AceView cDNA sequences:
(1) REFSEQ mRNAs :
(2) Additional mRNA sequences :
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SSX6 Gene

Synovial sarcoma, X breakpoint 6 (pseudogene):
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SSX6

Primer Products

  • OriGene qSTAR qPCR primer pairs in human,mouse,rat for SSX6
  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SSX6 Gene

No ASD Table

Relevant External Links for SSX6 Gene

GeneLoc Exon Structure for
SSX6
ECgene alternative splicing isoforms for
SSX6

Expression for SSX6 Gene

mRNA expression in normal human tissues for SSX6 Gene

mRNA differential expression in normal tissues according to GTEx for SSX6 Gene

This gene is overexpressed in Testis (26.5) and Spleen (17.6).

SOURCE GeneReport for Unigene cluster for SSX6 Gene Hs.511998

mRNA Expression by UniProt/SwissProt for SSX6 Gene

Q7RTT6-SSX6_HUMAN
Tissue specificity: Not detected in any normal tissues. Expressed in a melanoma cell line.
genes like me logo Genes that share expressions with SSX6: view

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Protein expression for SSX6 Gene

Orthologs for SSX6 Gene

Evolution for SSX6 Gene

ENSEMBL:
Gene Tree for SSX6 (if available)
TreeFam:
Gene Tree for SSX6 (if available)

No data available for Orthologs for SSX6 Gene

Paralogs for SSX6 Gene

Selected SIMAP similar genes for SSX6 Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for SSX6 Gene

genes like me logo Genes that share paralogs with SSX6: view

No data available for Paralogs for SSX6 Gene

Variants for SSX6 Gene

Sequence variations from dbSNP and Humsavar for SSX6 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type MAF
rs498814 -- 48,114,896(-) gaggc(A/C)gaggc intron-variant
rs523547 -- 48,106,889(-) AATTC(A/G)GGCCC upstream-variant-2KB
rs543755 -- 48,111,458(-) CCCTG(A/T)TGTGT intron-variant
rs559564 -- 48,114,903(-) acctc(C/G)ggagg intron-variant
rs565028 -- 48,106,616(-) cagtg(C/T)gcaga upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for SSX6 Gene

Variant ID Type Subtype PubMed ID
dgv2442e1 CNV Complex 17122850
dgv2443e1 CNV Complex 17122850
nsv6890 CNV Loss 18451855
dgv14n29 CNV Complex 16826518
nsv471601 CNV Gain 15918152
dgv2444e1 CNV Complex 17122850
esv2752324 CNV Gain 17911159
esv25781 CNV Gain 19812545
esv32909 CNV Gain+Loss 17666407
dgv2445e1 CNV Complex 17122850
dgv37n14 CNV Gain 18776910
nsv442804 CNV CNV 18776908
nsv438131 CNV Loss 16468122
nsv470351 CNV Loss 18288195
nsv470352 CNV Gain 18288195
nsv818025 CNV Gain+Loss 17921354
nsv517350 CNV Gain+Loss 19592680
nsv519165 CNV Loss 19592680
dgv268e55 CNV Loss 17911159
esv34932 CNV Gain 17911159
esv34308 CNV Gain 17911159
nsv9940 CNV Gain 18304495
nsv521227 CNV Gain 19592680
nsv6892 CNV Insertion 18451855
nsv9941 CNV Gain 18304495

Relevant External Links for SSX6 Gene

HapMap Linkage Disequilibrium report
SSX6
Locus Specific Mutation Databases (LSDB)
SSX6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SSX6 Gene

Disorders for SSX6 Gene

MalaCards: The human disease database

MalaCards: The human disease database. (1) Diseases for SSX6 Gene including...

Search for SSX6 Gene in MalaCards »
genes like me logo Genes that share disorders with SSX6: view

No data available for UniProtKB/Swiss-Prot for SSX6 Gene

Publications for SSX6 Gene

  1. The SSX gene family: characterization of 9 complete genes. (PMID: 12216073) Gure A.O. … Chen Y.-T. (Int. J. Cancer 2002) 2 3 4
  2. The DNA sequence of the human X chromosome. (PMID: 15772651) Ross M.T. … Bentley D.R. (Nature 2005) 3 4
  3. The (epi)genetics of human synovial sarcoma. (PMID: 17117414) de Bruijn D.R. … van Kessel A.G. (Genes Chromosomes Cancer 2007) 3
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3
  5. Molecular mechanisms underlying human synovial sarcoma development. (PMID: 11107170) dos Santos N.R. … van Kessel A.G. (Genes Chromosomes Cancer 2001) 3

Products for SSX6 Gene

Sources for SSX6 Gene

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