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SSX5 SSX family member 5 [ Homo sapiens (human) ]

Gene ID: 6758, updated on 1-Aug-2020

Summary

Official Symbol
SSX5provided by HGNC
Official Full Name
SSX family member 5provided by HGNC
Primary source
HGNC:HGNC:11339
See related
Ensembl:ENSG00000165583 MIM:300327
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
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 spontaneous humoral and cellular immune responses in cancer patients, and are potentially useful targets in cancer vaccine-based immunotherapy. While some of the related SSX genes are involved in t(X;18)(p11.2;q11.2) translocations that are characteristically found in all synovial sarcomas, this gene does not appear to be involved in such translocations. Two transcript variants encoding distinct isoforms have been identified for this gene. [provided by RefSeq, Jul 2013]
Expression
Low expression observed in reference dataset See more

Genomic context

See SSX5 in Genome Data Viewer
Location:
Xp11.23
Exon count:
11
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) X NC_000023.11 (48177982..48196798, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (48045656..48056199, complement)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene ornithine aminotransferase pseudogene Neighboring gene RNA, U6 small nuclear 707, pseudogene Neighboring gene SSX family pseudogene 3 Neighboring gene S100A11 pseudogene 5 Neighboring gene ornithine aminotransferase pseudogene Neighboring gene RNA, 5S ribosomal pseudogene 503

Genomic regions, transcripts, and products

Expression

  • 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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Clone Names

  • MGC9494

Gene Ontology Provided by GOA

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

General protein information

Preferred Names
protein SSX5
Names
synovial sarcoma, X breakpoint 5

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_012529.1 RefSeqGene

    Range
    4969..15544
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_021015.4NP_066295.3  protein SSX5 isoform a

    See identical proteins and their annotated locations for NP_066295.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AC245047, BC016640, BE896093
    Consensus CDS
    CCDS14288.1
    UniProtKB/Swiss-Prot
    O60225
    Related
    ENSP00000312415.1, ENST00000311798.5
    Conserved Domains (3) summary
    cd07765
    Location:65102
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    smart00349
    Location:65123
    KRAB; krueppel associated box
    pfam09514
    Location:197228
    SSXRD; SSXRD motif
  2. NM_175723.1NP_783729.1  protein SSX5 isoform b

    See identical proteins and their annotated locations for NP_783729.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1, resulting in an isoform (b) that is shorter than isoform a.
    Source sequence(s)
    AC245047, BC016640, BE896093, U90842
    Consensus CDS
    CCDS14289.1
    UniProtKB/Swiss-Prot
    O60225
    Related
    ENSP00000290558.1, ENST00000347757.5
    Conserved Domains (3) summary
    cd07765
    Location:2461
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    smart00349
    Location:2382
    KRAB; krueppel associated box
    pfam09514
    Location:156187
    SSXRD; SSXRD motif

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20200522

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p13 Primary Assembly

    Range
    48177982..48196798 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017029758.2XP_016885247.1  protein SSX5 isoform X1

    UniProtKB/Swiss-Prot
    O60225
    Conserved Domains (3) summary
    cd07765
    Location:2461
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    smart00349
    Location:2382
    KRAB; krueppel associated box
    pfam09514
    Location:156187
    SSXRD; SSXRD motif
  2. XM_011543949.2XP_011542251.1  protein SSX5 isoform X1

    See identical proteins and their annotated locations for XP_011542251.1

    UniProtKB/Swiss-Prot
    O60225
    Conserved Domains (3) summary
    cd07765
    Location:2461
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    smart00349
    Location:2382
    KRAB; krueppel associated box
    pfam09514
    Location:156187
    SSXRD; SSXRD motif
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