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Aliases for SSX2 Gene

Aliases for SSX2 Gene

  • SSX Family Member 2 2 3 5
  • Synovial Sarcoma, X Breakpoint 2 2 3 4
  • Sarcoma, Synovial, X-Chromosome-Related 2 2 3
  • Cancer/Testis Antigen Family 5, Member 2a 2 3
  • Synovial Sarcoma, X Breakpoint 2B 2 3
  • Cancer/Testis Antigen 5.2 3 4
  • Tumor Antigen HOM-MEL-40 3 4
  • CT5.2 3 4
  • Synovial Sarcoma, X Breakpoint 2, Isoform B 2
  • Protein SSX2 3
  • HOM-MEL-40 3
  • SSX2 SSX2B 4
  • CT5.2A 3
  • SSX2A 4
  • HD21 3
  • SSX 3

External Ids for SSX2 Gene

Previous HGNC Symbols for SSX2 Gene

  • SSX

Previous GeneCards Identifiers for SSX2 Gene

  • GC0XP043594
  • GC0XP050491
  • GC0XM051377
  • GC0XM051692
  • GC0XM052608
  • GC0XM052742
  • GC0XM052673
  • GC0XM049853
  • GC0XM052725
  • GC0XM052644

Summaries for SSX2 Gene

Entrez Gene Summary for SSX2 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 spontaneous humoral and cellular immune responses in cancer patients, and are potentially useful targets in cancer vaccine-based immunotherapy. This gene, and also the SSX1 and SSX4 family members, have been involved in t(X;18)(p11.2;q11.2) translocations that are 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 likely responsible for transforming activity. Alternative splicing of this gene results in multiple transcript variants. This gene also has an identical duplicate, GeneID: 727837, located about 45 kb downstream in the opposite orientation on chromosome X. [provided by RefSeq, Jul 2013]

CIViC summary for SSX2 Gene

GeneCards Summary for SSX2 Gene

SSX2 (SSX Family Member 2) is a Protein Coding gene. Diseases associated with SSX2 include Sarcoma, Synovial and Sarcoma. Among its related pathways are Transcriptional misregulation in cancer. Gene Ontology (GO) annotations related to this gene include nucleic acid binding. An important paralog of this gene is SSX2B.

UniProtKB/Swiss-Prot for SSX2 Gene

  • Could act as a modulator of transcription.

Gene Wiki entry for SSX2 Gene

Additional gene information for SSX2 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SSX2 Gene

Genomics for SSX2 Gene

GeneHancer (GH) Regulatory Elements for SSX2 Gene

Promoters and enhancers for SSX2 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH0XI052707 Promoter 0.5 EPDnew 550.8 +0.0 27 0.1 LOC791098 SSX2 GC0XP052698
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SSX2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SSX2 gene promoter:

Genomic Locations for SSX2 Gene

Genomic Locations for SSX2 Gene
10,332 bases
Minus strand

Genomic View for SSX2 Gene

Genes around SSX2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SSX2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SSX2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SSX2 Gene

Proteins for SSX2 Gene

  • Protein details for SSX2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein SSX2
    Protein Accession:
    Secondary Accessions:
    • Q16404
    • Q5JS26
    • Q96IP7
    • Q9BU88

    Protein attributes for SSX2 Gene

    188 amino acids
    Molecular mass:
    21620 Da
    Quaternary structure:
    • Interacts via its N-terminal region with RAB3IP and SSX2IP.
    • Interacts via its N-terminal region with RAB3IP and SSX2IP.
    • Sequence=AAB35674.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for SSX2 Gene


neXtProt entry for SSX2 Gene

Post-translational modifications for SSX2 Gene

No Post-translational modifications

Other Protein References for SSX2 Gene

No data available for DME Specific Peptides for SSX2 Gene

Domains & Families for SSX2 Gene

Gene Families for SSX2 Gene

Human Protein Atlas (HPA):
  • Cancer-related genes
  • Disease related genes
  • Predicted intracellular proteins

Protein Domains for SSX2 Gene

Suggested Antigen Peptide Sequences for SSX2 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the SSX family.
  • Belongs to the SSX family.
genes like me logo Genes that share domains with SSX2: view

Function for SSX2 Gene

Molecular function for SSX2 Gene

GENATLAS Biochemistry:
protein SSX2 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)
UniProtKB/Swiss-Prot Function:
Could act as a modulator of transcription.

Gene Ontology (GO) - Molecular Function for SSX2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003714 transcription corepressor activity IBA --
GO:0005515 protein binding IPI 12007189
genes like me logo Genes that share ontologies with SSX2: view
genes like me logo Genes that share phenotypes with SSX2: view

Human Phenotype Ontology for SSX2 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Animal Models , Transcription Factor Targets and HOMER Transcription for SSX2 Gene

Localization for SSX2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SSX2 Gene

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli (2)
  • Nucleus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SSX2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005634 nucleus IDA --
genes like me logo Genes that share ontologies with SSX2: view

No data available for Subcellular locations from COMPARTMENTS for SSX2 Gene

Pathways & Interactions for SSX2 Gene

genes like me logo Genes that share pathways with SSX2: view

Pathways by source for SSX2 Gene

1 KEGG pathway for SSX2 Gene

Gene Ontology (GO) - Biological Process for SSX2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated NAS 7539744
GO:1903507 negative regulation of nucleic acid-templated transcription IBA --
genes like me logo Genes that share ontologies with SSX2: view

No data available for SIGNOR curated interactions for SSX2 Gene

Drugs & Compounds for SSX2 Gene

(1) Drugs for SSX2 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(2) Additional Compounds for SSX2 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with SSX2: view

Transcripts for SSX2 Gene

Unigene Clusters for SSX2 Gene

Synovial sarcoma, X breakpoint 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for SSX2 Gene

No ASD Table

Relevant External Links for SSX2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SSX2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SSX2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SSX2 Gene

This gene is overexpressed in Testis (x50.7).

Protein differential expression in normal tissues from HIPED for SSX2 Gene

This gene is overexpressed in Testis (48.3) and Ovary (20.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SSX2 Gene

Protein tissue co-expression partners for SSX2 Gene

NURSA nuclear receptor signaling pathways regulating expression of SSX2 Gene:


SOURCE GeneReport for Unigene cluster for SSX2 Gene:


mRNA Expression by UniProt/SwissProt for SSX2 Gene:

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.

Phenotype-based relationships between genes and organs from Gene ORGANizer for SSX2 Gene

Germ Layers:
  • mesoderm
  • skeleton
  • ankle
  • digit
  • elbow
  • finger
  • foot
  • hand
  • hip
  • knee
  • lower limb
  • shoulder
  • toe
  • upper limb
  • wrist
genes like me logo Genes that share expression patterns with SSX2: view

No data available for Evidence on tissue expression from TISSUES for SSX2 Gene

Orthologs for SSX2 Gene

This gene was present in the common ancestor of mammals.

Orthologs for SSX2 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia LOC100609340 33
  • 98.94 (n)
-- 34
  • 69 (a)
(Canis familiaris)
Mammalia -- 34
  • 40 (a)
(Mus musculus)
Mammalia Gm21876 34
  • 39 (a)
Ssxa1 34
  • 35 (a)
Ssxb6 34
  • 28 (a)
Ssxb5 34
  • 26 (a)
Ssxb8 34
  • 25 (a)
Ssxb10 34
  • 25 (a)
Ssxb1 34
  • 25 (a)
Gm14459 34
  • 24 (a)
Gm5751 34
  • 24 (a)
Gm6592 34
  • 24 (a)
Ssxb9 34
  • 24 (a)
Ssxb3 34
  • 24 (a)
Ssx9 34
  • 24 (a)
Ssxb2 34
  • 21 (a)
(Bos Taurus)
Mammalia SSX5 34
  • 25 (a)
Species where no ortholog for SSX2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for SSX2 Gene

Gene Tree for SSX2 (if available)
Gene Tree for SSX2 (if available)

Paralogs for SSX2 Gene

Paralogs for SSX2 Gene Pseudogenes for SSX2 Gene

genes like me logo Genes that share paralogs with SSX2: view

Variants for SSX2 Gene

Sequence variations from dbSNP and Humsavar for SSX2 Gene

SNP ID Clin Chr 0X pos Variation AA Info Type
rs112553841 -- 52,698,505(-) G/T intron_variant
rs113462432 -- 52,698,659(-) G/C intron_variant
rs113958409 -- 52,699,684(-) C/T intron_variant
rs17355429 -- 52,705,183(-) C/T coding_sequence_variant, synonymous_variant
rs17850183 -- 52,698,049(-) C/G coding_sequence_variant, missense_variant

Structural Variations from Database of Genomic Variants (DGV) for SSX2 Gene

Variant ID Type Subtype PubMed ID
nsv7446 OTHER inversion 18451855
nsv1119340 CNV duplication 24896259
esv2740170 CNV deletion 23290073
esv21492 CNV gain 19812545

Additional Variant Information for SSX2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SSX2 Gene

Disorders for SSX2 Gene

MalaCards: The human disease database

(3) MalaCards diseases for SSX2 Gene - From: OMIM, GTR, Orphanet, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
sarcoma, synovial
  • synovial sarcoma
  • connective and soft tissue neoplasm
spindle cell synovial sarcoma
  • synovial sarcoma with spindle cell components
- elite association - COSMIC cancer census association via MalaCards
Search SSX2 in MalaCards View complete list of genes associated with diseases


  • Note=A chromosomal aberration involving SSX2 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). {ECO:0000269 PubMed:7539744, ECO:0000269 PubMed:7951320}.

Additional Disease Information for SSX2

genes like me logo Genes that share disorders with SSX2: view

No data available for Genatlas for SSX2 Gene

Publications for SSX2 Gene

  1. The cancer-related protein SSX2 interacts with the human homologue of a Ras-like GTPase interactor, RAB3IP, and a novel nuclear protein, SSX2IP. (PMID: 12007189) de Bruijn DR … van Kessel AG (Genes, chromosomes & cancer 2002) 3 4 22 58
  2. The SSX-2 gene, which is involved in the t(X;18) translocation of synovial sarcomas, codes for the human tumor antigen HOM-MEL-40. (PMID: 8840996) Türeci O … Pfreundschuh M (Cancer research 1996) 2 3 22 58
  3. Fusion of SYT to two genes, SSX1 and SSX2, encoding proteins with homology to the Kruppel-associated box in human synovial sarcoma. (PMID: 7539744) Crew AJ … Cooper CS (The EMBO journal 1995) 3 4 22 58
  4. Molecular diagnosis of synovial sarcoma and characterization of a variant SYT-SSX2 fusion transcript. (PMID: 7495284) Fligman I … Ladanyi M (The American journal of pathology 1995) 3 4 22 58
  5. Identification of novel genes, SYT and SSX, involved in the t(X;18)(p11.2;q11.2) translocation found in human synovial sarcoma. (PMID: 7951320) Clark J … Cooper CS (Nature genetics 1994) 3 4 22 58

Products for SSX2 Gene

Sources for SSX2 Gene

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