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

    Gene ID: 280657, updated on 17-Jun-2024

    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.

    Chemical Information
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    Research Materials