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SSX1 Gene

protein-coding   GIFtS: 59

GC0XP047958
synovial sarcoma, X breakpoint 1
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
CT5.1 1, 2, 3
MGC150425 2
MGC5162 2
OTTHUMP00000023245 2
SSRC 2, 5
Descriptions
Cancer/testis antigen 5.1 3
cancer/testis antigen family 5, member 1 2
sarcoma, synovial, X-chromosome-related 1 2
synovial sarcoma, X breakpoint 1 2, 3
External Ids
HGNC: 113351
Entrez Gene: 67562
UniProtKB: Q163843
Ensembl: ENSG000001267527
Search outside databases for aliases for SSX1 gene

Previous GC identifers: GC0XP046917 GC0XP046332 GC0XP046794 GC0XP047160 GC0XP047871 GC0XP047999

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

EntrezGene summary for SSX1:
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 translocation results in the fusion of the synovial sarcoma translocation gene on chromosome
18 to one of the SSX genes on chromosome X. The encoded hybrid proteins are probably responsible
for transforming activity. [provided by RefSeq]

UniProtKB/Swiss-Prot: SSX1_HUMAN, Q16384
Function: Could act as a modulator of transcription

Gene Wiki entry for SSX1

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the SSX1 gene  

Entrez Gene cytogenetic band: Xp11.23-p11.22   Ensembl cytogenetic band:  Xp11.23   HGNC cytogenetic band: Xp11.23

SSX1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XP047958:     (about GC identifiers)

Start:
47,957,054 bp from pter
End:
48,185,976 bp from pter
Size:
228,923 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000023.9  NT_079573.3  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
About This Section

UniProtKB/Swiss-Prot: SSX1_HUMAN, Q16384 (See protein sequence)
Recommended Name: Protein SSX1  
Size: 188 amino acids; 21931 Da
Secondary accessions: A3KN76 Q08AJ2 Q5JQ64

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_005626.1  

    ENSEMBL proteins: 
    ENSP00000366118 ENSP00000385051 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (SSX1, SS18-SSX1 Fusion Protein)
    Human Recombinant Proteins from Abnova (SSX1)
                  OriGene Purified Recombinant Human Protein: SSX1 

    2 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622 intracellular IEA--
    GO:0005634 nucleus TAS10072425
    About this table

    Antibodies for SSX1: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Browse Antibodies at Sigma-Aldrich
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (SSX1, SS18-SSX1 Fusion Protein), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (SSX1)
    Novus Biologicals Antibody for SSX1

    Assays for SSX1: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    3 InterPro domains/families:
     IPR003655 Krueppel-associated_box-rel
     IPR019041 SSXRD_motif
     IPR001909 Krueppel-associated_box


       GeneDecks  SSX1 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry Q16384

    ProtoNet protein and cluster: Q16384

    1 Blocks protein family: IPB001909 KRAB box

    UniProtKB/Swiss-Prot: SSX1_HUMAN, Q16384
    Similarity: Belongs to the SSX family
    Similarity: Contains 1 KRAB-related domain

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (SSX1)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (SSX1)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_005635

                  Applied Biosystems Silencer® siRNAs for SSX1

                  Sigma-Aldrich siRNA for SSX1  
                         Sigma-Aldrich shRNA for SSX1  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for SSX1
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_005635
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_005635
                                     untagged cDNA clone in CMV expression vector: NM_005635 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_005635

    UniProtKB/Swiss-Prot: SSX1_HUMAN, Q16384
    Function: Could act as a modulator of transcription

    Genatlas biochemistry entry for SSX1:
    protein SSX1 with homology to Kruppel associated box,KRAB,transcriptional corepressor,complexing
    with polycomb group (PcG) proteins RING1 or BMI1 and associating with chromatin,fused with SYT
    (SSXT) in synovial sarcoma with translocation t(X;18)(p11.2;q11.2) (see BSSX)

    2 Gene Ontology (GO) molecular function terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676 nucleic acid binding IEA--
    GO:0003714 transcription corepressor activity TAS10072425
    About this table

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section



    5/13 Interacting proteins for SSX1 (ENSP000003661183) via UniProtKB, MINT, and/or STRING (see all 13 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SS18ENSP000002691383STRING (score=.965)
    SMARCA2ENSP000002657733STRING (score=.952)
    RAB3IPENSP000003233493STRING (score=.809)
    SSX2IPENSP000003402793STRING (score=.783)
    MAGEC1ENSP000002858793STRING (score=.748)
    About this table

    2 Gene Ontology (GO) biological process terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006350 transcription IEA--
    GO:0006355 regulation of transcription, DNA-dependent IEA--
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for SSX1
    2 PharmGKB drug compound relationships for SSX1 gene
    Drug compound PharmGKB Relations PubMed IDs for articles supporting these relationships
    mercaptopurinePD  FA  GN  12704389
    methotrexatePD  FA  GN  12704389
    About this table


    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (SSX1)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (SSX1)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_005635

                  Sigma-Aldrich siRNA for SSX1  
                         Sigma-Aldrich shRNA for SSX1  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_005635  

    REFSEQ mRNAs for SSX1 gene: 

    NM_005635.2   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_005635  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_005635
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_005635
                                     untagged cDNA clone in CMV expression vector: NM_005635 

    Additional cDNA sequence: BC148313.2 

    4 DOTS entries:

    DT.40315656  DT.92450035  DT.92450031  DT.95361396 

    24/30 AceView cDNA sequences (see all 30 ):

    BE408883 BU170242 NM_005635 BE535379 AA954482 CB160731 X86174 BE277023 
    BQ229996 BQ432374 AA378285 BQ434972 BC001003 BQ224117 BU619846 BQ774004 
    AW951509 BQ774650 BE410950 BE777476 BU178412 BI831262 BP428754 BF211314 

    highest scoring ESTs for SSX1:

    X86174 AA378285 AA954482 AW951509 BC001003 BE277023 BE535379 BQ432374 BQ434972 BQ774004 

    Unigene Clusters for SSX1:

    Synovial sarcoma, X breakpoint 1
    Hs.434142  [show with all ESTs], Hs.694472 , Hs.713144
    Unigene Representative Sequences: NM_005635, BC133693, BC148313


    GeneLoc Exon Structure

    2 Ensembl transcripts including schematic representations:
    ENST00000376919  ENST00000403001  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    SSX1 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for SSX1

    1 / 2 / 3

    6 probe-sets matching SSX1 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    34068_f_at2, 3 U95-A 19 1.00 0.19 0.92 0.63 X86174 1.00 1.00 1.00 1

    35950_at2, 3 U95-A 11 1.00 0.13 0.63 1.39 U90841 0.20 0.04 0.14 2

    206627_s_at2, 3 U133-A 7 1.00 0.33 -- -- NM_005635 0.60 1.00 0.82 1

    206626_x_at2, 3 U133-A 12 1.00 0.24 -- -- BC001003 0.80 1.00 0.91 1

    206627_s_at2 U133Plus2 7 1.00 0.33 -- -- -- -- -- -- --

    206626_x_at2 U133Plus2 12 1.00 0.24 -- -- -- -- -- -- --
    About this table
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: AGCCTGCGGG

    SOURCE GeneReport for Unigene clusters: Hs.434142 Hs.694472 Hs.713144

    Expression variation in blood from EXPOLDB for SSX1

    UniProtKB/Swiss-Prot: SSX1_HUMAN, Q16384
    Tissue specificity: Expressed at high level in the testis. Expressed at low level in thyroid. Not
    detected in tonsil, colon, lung, spleen, prostate, kidney, striated and smooth muscles. Detected
    in rhabdomyosarcoma and fibrosarcoma cell lines. Not detected in mesenchymal and epithelial cell
    lines

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for SSX1 gene from 2 species
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    chimpanzee
    (Pan troglodytes)
    SSX11   -- synovial sarcoma, X breakpoint 1 98.4(n)
    95.74(a)
    736918  XM_001137291.1  XP_001137291.1 
    mouse
    (Mus musculus)
    Ssxb21   -- synovial sarcoma, X member B, breakpoint 2 61.15(n)
    43.88(a)
    387132  NM_001001450.2  NP_001001450.1 
    About this table        Species with no ortholog for SSX1

    ENSEMBL Gene Tree for SSX1
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for SSX1 gene
    SSX22  SSX2B2  SSX62  SSX42  SSX72  SSX52  SSX102  SSX92  
    SSX4B2  SSX32  

    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/74 NCBI SNPs in SSX1 are shown (see all 74 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 2)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr X posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    --
    rs78846411,2
    A,C,F,H47997919(+) tttgcG/Agtaat 1 -- ng513Minor allele frequency- A:0.45EU EA 298
    rs50134561,2
    C,F,H48011362(+) TGAAAC/GTTGAG 1 -- ut317Minor allele frequency- G:0.38EU EA WA NA 532
    --
    rs43132831,2
    A,C47998026(+) AACAAA/GTAGTC 1 -- ng510--------
    --
    rs45001951,2
    A,C47998166(+) tcagcA/Ggggac 1 -- ng510--------
    --
    rs59524931,2
    A,C48010742(+) ATCAGC/TGACCC 1 S/S syn10--------
    --
    rs125571741,2
    A,C,F,H48002707(+) tgaggA/Ctatga 1 -- int14Minor allele frequency- C:0.40EU EA WA 416
    --
    rs59056691,2
    A,C,F,H48010315(+) acagtA/Gtctgc 1 -- int13Minor allele frequency- G:0.43EU EA 298
    --
    rs128369081,2
    A,F,H48005946(+) CCATGT/AGATGT 1 -- int14Minor allele frequency- A:0.40EU EA WA 418
    --
    rs59056681,2
    C,F,H48009953(+) ccccaA/Gaacat 1 -- int14Minor allele frequency- G:0.03EU EA WA 420
    --
    rs59066161,2
    C,F,H48009196(+) aggctA/Gtttaa 1 -- int18Minor allele frequency- N:0.02EU EA WA NA 597
    About this table

    HapMap Linkage Disequilibrium images for SSX1 (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

    OMIM: 312820

    UniProtKB/Swiss-Prot: SSX1_HUMAN, Q16384

  • A chromosomal aberration involving SSX1 may be a cause of synovial sarcoma. Translocation
    t(X;18)(p11.2;q11.2). The translocation is specifically found in more than 80% of synovial
    sarcoma. The fusion products SSXT-SSX1 or SSXT-SSX2 are probably responsible for transforming
    activity. Heterogeneity in the position of the breakpoint can occur (low frequency)
  • 4 Novoseek disease relationships for SSX1 gene

    Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    sarcoma synovial 94.01 23 7539744 (2), 10404078 (1), 17197895 (1), 17186289 (1) (see all 18)
    sarcoma 63.02 2 10399965 (1), 12469233 (1)
    melanoma 26.56 2 12007189 (1), 9378559 (1)
    cancer 0.00 2 17186289 (1), 15603546 (1)
    About this table

    1 PharmGKB disease relationship for SSX1 gene
    Disease PharmGKB Relations PubMed IDs for articles supporting these relationships
    Leukemia, Lymphocytic, Acute, L1PD  FA  GN  12704389
    About this table

    Human Genome Epidemiology Navigator: SSX1 (1 document)

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

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

    10/49 PubMed articles for SSX1 gene (see all 49 ):
    (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, and/or H-InvDB)
    About This Section

    Entrez Gene: 6756 HGNC: 11335 AceView: SSX1 Ensembl:ENSG00000126752 euGenes: HUgn6756
    ECgene: SSX1 H-InvDB: SSX1
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

    NameDescription
    ATLAS Chromosomes in Cancer entry for SSX1 Genetics and Cytogenetics in Oncology and Haematology
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for SSX1:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



      Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
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     Predesigned and custom siRNAs for SSX1 Browse antibodies at Sigma-Aldrich
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for SSX1 Browse small molecules at Sigma-Aldrich
     "Your Favorite Gene" Pathwaysfeedback


      
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     Recombinant & Natural Proteins  

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     Custom Service for Rabbit Pab from Full-length Protein
      
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     Recombinant Proteins
    (SSX1, SS18-SSX1 Fusion Protein)
     Antibodies (SSX1, SS18-SSX1 Fusion Protein)
     Tagged/untagged cDNA clones
     Validated SYBR primer pairs
     Purified proteins from HEK293T cells
     Western blot validated antibodies
     shRNA in GFP-retroviral vector
     Search Tocris compounds for SSX1




     Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
     Antibodies for SSX1

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