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    Ssxb1 SSX member B1 [ Mus musculus (house mouse) ]

    Gene ID: 67985, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ssxb1provided by MGI
    Official Full Name
    SSX member B1provided by MGI
    Primary source
    MGI:MGI:1915235
    See related
    Ensembl:ENSMUSG00000079705 AllianceGenome:MGI:1915235
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    4930414C09Rik
    Summary
    Predicted to be located in sperm flagellum. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in X-linked spermatogenic failure 5 and synovial sarcoma. Orthologous to several human genes including SSX2 (SSX family member 2); SSX2B (SSX family member 2B); and SSX4 (SSX family member 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Restricted expression toward testis adult (RPKM 1.2) See more
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    Genomic context

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    See Ssxb1 in Genome Data Viewer
    Location:
    X A1.1; X 3.81 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (8279544..8288400)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (8413305..8422159)

    Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene SSX member B10 Neighboring gene SSX member B9 Neighboring gene STARR-seq mESC enhancer starr_46696 Neighboring gene SSX member B2 Neighboring gene SSX member B15

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Identification and characterization of mouse SSX genes: a multigene family on the X chromosome with restricted cancer/testis expression. Chen YT, et al. Genomics, 2003 Dec. PMID 14611804
    2. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    3. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
    4. RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer. Shibata K, et al. Genome Res, 2000 Nov. PMID 11076861, Free PMC Article
    5. Normalization and subtraction of cap-trapper-selected cDNAs to prepare full-length cDNA libraries for rapid discovery of new genes. Carninci P, et al. Genome Res, 2000 Oct. PMID 11042159, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in sperm flagellum ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    synovial sarcoma, X member B1
    Names
    synovial sarcoma, X member B, breakpoint 1

    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.

    mRNA and Protein(s)

    1. NM_026492.4 → NP_080768.1  synovial sarcoma, X member B1

      See identical proteins and their annotated locations for NP_080768.1

      Status: VALIDATED

      Source sequence(s)
      BX890632
      Consensus CDS
      CCDS29997.1
      UniProtKB/TrEMBL
      B7ZWB6, Q6XAR6, Q9CPU1
      Related
      ENSMUSP00000037624.4, ENSMUST00000037297.4
      Conserved Domains (2) summary
      pfam09514
      Location:135 → 160
      SSXRD; SSXRD motif
      cl02581
      Location:23 → 78
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000086.8 Reference GRCm39 C57BL/6J

      Range
      8279544..8288400
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030251492.1 → XP_030107352.1  synovial sarcoma, X member B1 isoform X1

      UniProtKB/TrEMBL
      B7ZWB6, Q6XAR6, Q9CPU1
      Conserved Domains (2) summary
      pfam09514
      Location:135 → 160
      SSXRD; SSXRD motif
      cl02581
      Location:23 → 78
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    Nucleotide Protein Strain
    Heading Accession and Version

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