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    SSX4B SSX family member 4B [ Homo sapiens (human) ]

    Gene ID: 548313, updated on 17-Jun-2024

    Summary

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    Official Symbol
    SSX4Bprovided by HGNC
    Official Full Name
    SSX family member 4Bprovided by HGNC
    Primary source
    HGNC:HGNC:16880
    See related
    Ensembl:ENSG00000269791 AllianceGenome:HGNC:16880
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CT5.4
    Summary
    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]
    Expression
    Restricted expression toward testis (RPKM 3.3) See more
    Orthologs
    all
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    Genomic context

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    See SSX4B in Genome Data Viewer
    Location:
    Xp11.23
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (48402082..48411960, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (47811054..47820934, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (48261524..48271405, complement)

    Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene ornithine aminotransferase, mitochondrial-like Neighboring gene SSX family member 4 Neighboring gene ornithine aminotransferase pseudogene Neighboring gene SSX family member 16, pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. CD4+ T cell responses to SSX-4 in melanoma patients. Ayyoub M, et al. J Immunol, 2005 Apr 15. PMID 15814740
    2. A novel fusion gene, SYT-SSX4, in synovial sarcoma. Skytting B, et al. J Natl Cancer Inst, 1999 Jun 2. PMID 10359553
    3. Cloning and characterization of spliced fusion transcript variants of synovial sarcoma: SYT/SSX4, SYT/SSX4v, and SYT/SSX2v. Possible regulatory role of the fusion gene product in wild type SYT expression. Brodin B, et al. Gene, 2001 May 2. PMID 11368913
    4. Expressions of cancer-testis antigens in human hepatocellular carcinomas. Chen CH, et al. Cancer Lett, 2001 Mar 26. PMID 11179834
    5. Molecular mechanisms underlying human synovial sarcoma development. dos Santos NR, et al. Genes Chromosomes Cancer, 2001 Jan. PMID 11107170

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC169015, MGC169016

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    protein SSX4
    Names
    cancer/testis antigen 5.4
    synovial sarcoma, X breakpoint 4B

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001034832.5 → NP_001030004.1  protein SSX4 isoform a

      See identical proteins and their annotated locations for NP_001030004.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
      Source sequence(s)
      AA312651, AL606490, BC137395, BE866727, CD671168
      Consensus CDS
      CCDS35241.1
      UniProtKB/Swiss-Prot
      A8MYD4, B2RPE3, O60224, Q3SYD4, Q5JQZ0, Q9UJU9
      Related
      ENSP00000469394.1, ENST00000595235.6
      Conserved Domains (2) summary
      smart00349
      Location:23 → 82
      KRAB; krueppel associated box
      pfam09514
      Location:156 → 187
      SSXRD; SSXRD motif

    2. NM_001040612.4 → NP_001035702.1  protein SSX4 isoform b

      See identical proteins and their annotated locations for NP_001035702.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an exon in the 3' coding region compared to variant 1. This results in a frame-shift, and a shorter isoform (b) with a distinct C-terminus compared to isoform a.
      Source sequence(s)
      AA312651, AL606490, BC137395, BE866727, CD671168
      Consensus CDS
      CCDS43935.1
      UniProtKB/Swiss-Prot
      O60224
      Related
      ENSP00000481765.1, ENST00000619890.1
      Conserved Domains (2) summary
      cd07765
      Location:24 → 61
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      smart00349
      Location:23 → 82
      KRAB; krueppel associated box

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000023.11 Reference GRCh38.p14 Primary Assembly

      Range
      48402082..48411960 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017029613.2 → XP_016885102.1  protein SSX4 isoform X1

      UniProtKB/Swiss-Prot
      A8MYD4, B2RPE3, O60224, Q3SYD4, Q5JQZ0, Q9UJU9
      Conserved Domains (2) summary
      smart00349
      Location:23 → 82
      KRAB; krueppel associated box
      pfam09514
      Location:156 → 187
      SSXRD; SSXRD motif

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060947.1 Alternate T2T-CHM13v2.0

      Range
      47811054..47820934 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054327291.1 → XP_054183266.1  protein SSX4 isoform X1

      UniProtKB/Swiss-Prot
      A8MYD4, B2RPE3, O60224, Q3SYD4, Q5JQZ0, Q9UJU9
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O60224.1 GenPept UniProtKB/Swiss-Prot:O60224

    Gene LinkOut

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