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SSX6P SSX family member 6, pseudogene [ Homo sapiens (human) ]

Gene ID: 280657, updated on 23-Nov-2023

Summary

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Official Symbol
SSX6Pprovided by HGNC
Official Full Name
SSX family member 6, pseudogeneprovided by HGNC
Primary source
HGNC:HGNC:19652
See related
MIM:300541; AllianceGenome:HGNC:19652
Gene type
pseudo
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SSX6; SSXP2; psiSSX2; dJ54B20.1
Summary
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 gene is classified as a pseudogene because a splice donor in the 3' UTR has changed compared to other family members, rendering the transcript a candidate for nonsense-mediated mRNA decay (NMD). [provided by RefSeq, Aug 2009]
Expression
Low expression observed in reference dataset See more
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Genomic context

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See SSX6P in Genome Data Viewer
Location:
Xp11.23
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (48107982..48120686)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (47518129..47530833)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (47967367..47980068)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene ZNF630 antisense RNA 1 Neighboring gene zinc finger protein 630 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:47931149-47931345 Neighboring gene small nucleolar RNA U13 Neighboring gene sperm acrosome associated 5B Neighboring gene ornithine aminotransferase pseudogene Neighboring gene RNA, U6 small nuclear 707, 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. The (epi)genetics of human synovial sarcoma. de Bruijn DR, et al. Genes Chromosomes Cancer, 2007 Feb. PMID 17117414
  2. Molecular mechanisms underlying human synovial sarcoma development. dos Santos NR, et al. Genes Chromosomes Cancer, 2001 Jan. PMID 11107170
  3. The SSX gene family: characterization of 9 complete genes. Güre AO, et al. Int J Cancer, 2002 Oct 10. PMID 12216073
  4. The DNA sequence of the human X chromosome. Ross MT, et al. Nature, 2005 Mar 17. PMID 15772651, Free PMC Article
  5. Histone Interaction Landscapes Visualized by Crosslinking Mass Spectrometry in Intact Cell Nuclei. Fasci D, et al. Mol Cell Proteomics, 2018 Oct. PMID 30021884, Free PMC Article

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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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

Other Names

  • SSX family pseudogene 2
  • SSX2 pseudogene
  • synovial sarcoma X breakpoint 6 protein
  • synovial sarcoma, X breakpoint 6 (pseudogene)

Clone Names

  • FLJ53113

Gene Ontology Provided by GOA

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
  

NCBI Reference Sequences (RefSeq)

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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.

RNA

  1. NR_028366.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC244636

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
    48107982..48120686
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    47518129..47530833
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NG_002582.2: Suppressed sequence

    Description
    NG_002582.2: This RefSeq was permanently suppressed because it is now thought that this pseudogene is transcribed.

  2. NM_173357.2: Suppressed sequence

    Description
    NM_173357.2: This RefSeq was permanently suppressed because it is now thought that this gene is a pseudogene.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q7RTT6.1 GenPept UniProtKB/Swiss-Prot:Q7RTT6

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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