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 ... See more...

Aliases for SSX4B Gene

Aliases for SSX4B Gene

  • SSX Family Member 4B 2 3 5
  • Synovial Sarcoma, X Breakpoint 4B 2 3
  • Cancer/Testis Antigen 5.4 3 4
  • Protein SSX4 3 4
  • CT5.4 3 4
  • OTTHUMT00000056510 2
  • SSX4B 5
  • SSX4A 4

External Ids for SSX4B Gene

Previous GeneCards Identifiers for SSX4B Gene

  • GC00U921552
  • GC0XU900601
  • GC0XM048146
  • GC0XM048261

Summaries for SSX4B Gene

Entrez Gene Summary for SSX4B 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 translocation results in the fusion of the synovial sarcoma translocation gene on chromosome 18 to one of the SSX genes on chromosome X. Chromosome Xp11 contains a segmental duplication resulting in two identical copies of synovial sarcoma, X breakpoint 4, SSX4 and SSX4B, in tail-to-tail orientation. This gene, SSX4B, represents the more centromeric copy. Two transcript variants encoding distinct isoforms have been identified for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for SSX4B Gene

SSX4B (SSX Family Member 4B) is a Protein Coding gene. Diseases associated with SSX4B include Synovium Neoplasm and Mediastinal Mesenchymal Tumor. Gene Ontology (GO) annotations related to this gene include nucleic acid binding. An important paralog of this gene is SSX4.

UniProtKB/Swiss-Prot Summary for SSX4B Gene

Additional gene information for SSX4B Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SSX4B Gene

Genomics for SSX4B Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SSX4B Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH0XJ048411 Promoter 0.3 EPDnew 600.7 +0.0 3 0.1 ENSG00000231603 LOC791095 NONHSAG054415.2 SSX4B SSX4
GH0XJ048467 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 0.2 -57.4 -57421 5.5 GATAD2A CTCF ZNF512 IKZF1 MTA2 PKNOX1 MTA1 REST BRD9 DPF2 SLC38A5 FTSJ1 ENSG00000270012 ZNF81 ENSG00000204620 CCDC22 ZNF182 PQBP1 RBM3 UXT
GH0XJ048464 Promoter/Enhancer 0.7 Ensembl ENCODE 0.2 -53.8 -53803 1.6 JUND ZNF585B FOS lnc-SSX4B-2 lnc-FTSJ1-2 RN7SL262P ZNF630 ZNF182 LINC01560 HDAC6 UXT-AS1 SLC38A5 SSX4B
GH0XJ048383 Promoter 0.3 EPDnew 0.3 +28.4 28390 0.1 LOC101060049 SSX4 lnc-SSX4B-1 SSX4B
GH0XJ048426 Enhancer 0.2 Ensembl 0.4 -15.8 -15791 1 SLC38A5 ENSG00000204620 ENSG00000231489 ENSG00000235350 SSXP6 lnc-FTSJ1-3 SSX4B
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SSX4B on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SSX4B

Top Transcription factor binding sites by QIAGEN in the SSX4B gene promoter:
  • C/EBPalpha
  • En-1
  • HNF-1
  • HNF-1A
  • HOXA9
  • HOXA9B
  • Meis-1
  • Meis-1b
  • NCX
  • RSRFC4

Genomic Locations for SSX4B Gene

Genomic Locations for SSX4B Gene
chrX:48,402,078-48,411,910
(GRCh38/hg38)
Size:
9,833 bases
Orientation:
Minus strand
chrX:48,261,524-48,271,344
(GRCh37/hg19)
Size:
9,821 bases
Orientation:
Minus strand

Genomic View for SSX4B Gene

Genes around SSX4B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SSX4B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SSX4B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SSX4B Gene

Proteins for SSX4B Gene

  • Protein details for SSX4B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O60224-SSX4_HUMAN
    Recommended name:
    Protein SSX4
    Protein Accession:
    O60224
    Secondary Accessions:
    • A8MYD4
    • B2RPE3
    • Q3SYD4
    • Q5JQZ0
    • Q9UJU9

    Protein attributes for SSX4B Gene

    Size:
    188 amino acids
    Molecular mass:
    21858 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAI03865.1; Type=Miscellaneous discrepancy; Note=Several sequencing errors.; Evidence={ECO:0000305};

    Alternative splice isoforms for SSX4B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SSX4B Gene

Post-translational modifications for SSX4B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SSX4B Gene

No data available for DME Specific Peptides for SSX4B Gene

Domains & Families for SSX4B Gene

Gene Families for SSX4B Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SSX4B Gene

InterPro:
Blocks:
  • KRAB box
ProtoNet:

Suggested Antigen Peptide Sequences for SSX4B Gene

GenScript: Design optimal peptide antigens:
  • Cancer/testis antigen 5.4 (SSX4_HUMAN)

Graphical View of Domain Structure for InterPro Entry

O60224

UniProtKB/Swiss-Prot:

SSX4_HUMAN :
  • Belongs to the SSX family.
Family:
  • Belongs to the SSX family.
genes like me logo Genes that share domains with SSX4B: view

Function for SSX4B Gene

Molecular function for SSX4B Gene

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

Gene Ontology (GO) - Molecular Function for SSX4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
genes like me logo Genes that share ontologies with SSX4B: view
genes like me logo Genes that share phenotypes with SSX4B: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SSX4B

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SSX4B Gene

Localization for SSX4B Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SSX4B gene
Compartment Confidence
nucleus 4
plasma membrane 1
extracellular 1
cytoskeleton 1
cytosol 1

Subcellular locations from the

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

Gene Ontology (GO) - Cellular Components for SSX4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA 21873635
genes like me logo Genes that share ontologies with SSX4B: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for SSX4B Gene

Pathways & Interactions for SSX4B Gene

PathCards logo

SuperPathways for SSX4B Gene

No Data Available

Interacting Proteins for SSX4B Gene

Gene Ontology (GO) - Biological Process for SSX4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with SSX4B: view

No data available for Pathways by source and SIGNOR curated interactions for SSX4B Gene

Drugs & Compounds for SSX4B Gene

No Compound Related Data Available

Transcripts for SSX4B Gene

mRNA/cDNA for SSX4B Gene

2 REFSEQ mRNAs :
9 NCBI additional mRNA sequence :
2 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SSX4B

Alternative Splicing Database (ASD) splice patterns (SP) for SSX4B Gene

No ASD Table

Relevant External Links for SSX4B Gene

GeneLoc Exon Structure for
SSX4B

Expression for SSX4B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SSX4B Gene

mRNA differential expression in normal tissues according to GTEx for SSX4B Gene

This gene is overexpressed in Testis (x53.0).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SSX4B

SOURCE GeneReport for Unigene cluster for SSX4B Gene:

Hs.558402
genes like me logo Genes that share expression patterns with SSX4B: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SSX4B Gene

Orthologs for SSX4B Gene

This gene was present in the common ancestor of mammals.

Orthologs for SSX4B Gene

Organism Taxonomy Gene Similarity Type Details
Dog
(Canis familiaris)
Mammalia LOC612524 30
  • 69 (n)
Mouse
(Mus musculus)
Mammalia Ssxb2 30 17
  • 66.29 (n)
Cow
(Bos Taurus)
Mammalia SSX5 30
  • 63.54 (n)
Species where no ortholog for SSX4B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Chimpanzee (Pan troglodytes)
  • 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 Vase (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 SSX4B Gene

ENSEMBL:
Gene Tree for SSX4B (if available)
TreeFam:
Gene Tree for SSX4B (if available)

Paralogs for SSX4B Gene

Paralogs for SSX4B Gene

(13) SIMAP similar genes for SSX4B Gene using alignment to 2 proteins:

  • SSX4_HUMAN
  • A8MYD4_HUMAN

Pseudogenes.org Pseudogenes for SSX4B Gene

genes like me logo Genes that share paralogs with SSX4B: view

Variants for SSX4B Gene

Additional dbSNP identifiers (rs#s) for SSX4B Gene

Structural Variations from Database of Genomic Variants (DGV) for SSX4B Gene

Variant ID Type Subtype PubMed ID
esv25781 CNV gain 19812545
esv2671998 CNV deletion 23128226
esv32909 CNV gain+loss 17666407
esv3573944 CNV loss 25503493
esv3576858 CNV gain 25503493
nsv1141675 CNV duplication 24896259
nsv1153914 CNV duplication 26484159
nsv7441 OTHER inversion 18451855

Variation tolerance for SSX4B Gene

Gene Damage Index Score: 0.67; 14.27% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SSX4B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SSX4B

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SSX4B Gene

Disorders for SSX4B Gene

MalaCards: The human disease database

(9) MalaCards diseases for SSX4B Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
synovium neoplasm
  • synovial neoplasm
mediastinal mesenchymal tumor
  • mediastinal mesenchymal tumour
sarcoma
  • connective and soft tissue neoplasm
synovium cancer
  • malignant tumor of synovium
bone angioendothelial sarcoma
  • osseous hemangiosarcoma
- elite association - COSMIC cancer census association via MalaCards
Search SSX4B in MalaCards View complete list of genes associated with diseases
genes like me logo Genes that share disorders with SSX4B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SSX4B Gene

Publications for SSX4B Gene

  1. The DNA sequence of the human X chromosome. (PMID: 15772651) Ross MT … Bentley DR (Nature 2005) 3 4
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  3. SSX: a multigene family with several members transcribed in normal testis and human cancer. (PMID: 9378559) Gure AO … Chen YT (International journal of cancer 1997) 3 4
  4. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3

Products for SSX4B Gene

  • Signalway Proteins for SSX4B

Sources for SSX4B Gene