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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SSX9 Gene

protein-coding   GIFtS: 34
GCID: GC0XM048154

Synovial Sarcoma, X Breakpoint 9

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Synovial Sarcoma, X Breakpoint 91 2

External Ids:    HGNC: 196551   Entrez Gene: 2806602   Ensembl: ENSG000002046487   OMIM: 3005445   UniProtKB: Q7RTT33   

Export aliases for SSX9 gene to outside databases

Previous GC identifers: GC0XU900003 GC0XM046981 GC0XM047201 GC0XM047202 GC0XM047911 GC0XM048039


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for SSX9 Gene:
The product of 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 appears not to be involved in this type of
chromosome translocation. (provided by RefSeq, Jul 2008)

GeneCards Summary for SSX9 Gene: 
SSX9 (synovial sarcoma, X breakpoint 9) is a protein-coding gene. Diseases associated with SSX9 include synovial sarcoma, and sarcoma. GO annotations related to this gene include nucleic acid binding. An important paralog of this gene is SSX2B.

UniProtKB/Swiss-Prot: SSX9_HUMAN, Q7RTT3
Function: Could act as a modulator of transcription




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SSX9 gene promoter:
         HOXA9B   ATF-2   CUTL1   HNF-1A   C/EBPalpha   HNF-4alpha1   COMP1   HNF-1   Meis-1a   Meis-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSSX9 promoter sequence
   Search SABiosciences Chromatin IP Primers for SSX9

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SSX9


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: Xp11.23   Ensembl cytogenetic band:  Xp11.23   HGNC cytogenetic band: Xp11.23

SSX9 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SSX9 gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XM048154:  view genomic region     (about GC identifiers)

Start:
48,154,885 bp from pter      End:
48,165,732 bp from pter
Size:
10,848 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: SSX9_HUMAN, Q7RTT3 (See protein sequence)
Recommended Name: Protein SSX9  
Size: 188 amino acids; 21553 Da

Explore the universe of human proteins at neXtProt for SSX9: NX_Q7RTT3

Explore proteomics data for SSX9 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q7RTT3

  • SSX9 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    SSX9 Protein Expression

    ENSEMBL proteins: 
     ENSP00000366107   ENSP00000385293  

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    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular ----
    GO:0005634nucleus IEA--

    SSX9 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    3 InterPro protein domains:
     IPR003655 Krueppel-associated_box-rel
     IPR019041 SSXRD_motif
     IPR001909 Krueppel-associated_box

    Graphical View of Domain Structure for InterPro Entry Q7RTT3

    ProtoNet protein and cluster: Q7RTT3

    1 Blocks protein domain: IPB001909 KRAB box

    UniProtKB/Swiss-Prot: SSX9_HUMAN, Q7RTT3
    Similarity: Belongs to the SSX family
    Similarity: Contains 1 KRAB-related domain


    SSX9 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SSX9_HUMAN, Q7RTT3
    Function: Could act as a modulator of transcription

         Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding IEA--
         
    SSX9 for ontologies           About GeneDecksing


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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SSX9

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-dependent IEA--
    GO:0006355regulation of transcription, DNA-dependent IEA--

    SSX9 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SSX9

    Search CenterWatch for drugs/clinical trials and news about SSX9

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
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    About This Section

    REFSEQ mRNAs for SSX9 gene: 
    NM_174962.3  

    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000376909 ENST00000407081(uc022bvu.1)
    miRNA
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      Search QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SSX9

    2 AceView cDNA sequences:

    NM_174962 BK000689 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    SSX9 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    SSX9 Expression
    About this image


    See SSX9 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SSX9

    UniProtKB/Swiss-Prot: SSX9_HUMAN, Q7RTT3
    Tissue specificity: Not detected in any normal or tumor tissues

        SABiosciences Custom PCR Arrays for SSX9
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SSX9

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section
      --

    ENSEMBL Gene Tree for SSX9 (if available)
    TreeFam Gene Tree for SSX9 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SSX9 gene
    SSX2B2  SSX22  SSX62  SSX42  SSX72  SSX12  SSX52  SSX4B2  
    SSX32  
    18 SIMAP similar genes for SSX9 using alignment to 1 protein entry:     SSX9_HUMAN:
    SSX10    SSX7    SYT-SSX2    SSX2B    SSX3    SSX5
    SSX6    SS18/SSX2 fusion    SSX2    SSX4B    SSX-HSTT    SSX1
    SSX4    SSX8    SYT-SSX1    SSX11    SS18/SSX1 fusion    PRDM7_V2

    SSX9 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/139 SNPs in SSX9 are shown (see all 139)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr X posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1410183191,2
    --48160510(+) TGTTGC/TGAGAG 1 -- ds50010--------
    rs1903497671,2
    --48160516(+) GAGAGC/TGGGTG 1 -- ds50010--------
    rs48246921,2
    C,F,A,H--48160540(+) ACCAGG/CAGGCC 1 -- ds50011Minor allele frequency- C:0.50NA 4
    rs1825258261,2
    --48160635(+) GGATTA/CGACTA 1 -- ds50010--------
    rs1849924151,2
    --48160753(+) CTTTAC/TTTCCA 1 -- ds50010--------
    rs1882368081,2
    --48160895(+) GAGGTA/CTTCTT 1 -- ds50010--------
    rs128457511,2
    C--48160923(+) ATCCAC/TGTGAA 1 -- ds50014Minor allele frequency- T:0.00NA CSA 5
    rs1485134761,2
    --48160970(+) AAAGAA/TGTATT 1 -- ds50010--------
    rs66097001,2
    C,F,H--48160974(+) ATGTAT/CTGAGG 1 -- ds50015Minor allele frequency- C:0.02NS NA 790
    rs66097011,2
    C--48161114(+) CAAAGA/GTTCTC 1 -- nc-transcript-variant4Minor allele frequency- G:0.00NA CSA 5

    HapMap Linkage Disequilibrium report for SSX9 (48154885 - 48165732 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for SSX9: --
    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing SSX9
    DNA2.0 Custom Variant and Variant Library Synthesis for SSX9

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 300544    OMIM disorders: --

    2 diseases for SSX9:    About MalaCards
    synovial sarcoma    sarcoma


    SSX9 for disorders           About GeneDecksing


    Export disorders for SSX9 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for SSX9 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SSX9)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The SSX gene family: characterization of 9 complete genes. (PubMed id 12216073)1, 2, 3 Gure A.O.... Chen Y.-T. (2002)
    2. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (2005)
    3. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 280660 HGNC: 19655 AceView: SSX9 Ensembl:ENSG00000204648 euGenes: HUgn280660
    ECgene: SSX9 H-InvDB: SSX9

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for SSX9 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for SSX9 Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for SSX9 gene:
    Search GeneIP for patents involving SSX9

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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    About This Section

     
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     SwitchGear 3'UTR luciferase reporter plasmids for SSX9
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     Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SSX9
     inGenious Targeting Laboratory - Custom generated mouse model solutions for SSX9
     inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for SSX9
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    (GIFtS: 73)
    transforming growth factor, beta 1
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    The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


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