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    Fam50b family with sequence similarity 50, member B [ Mus musculus (house mouse) ]

    Gene ID: 108161, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Fam50bprovided by MGI
    Official Full Name
    family with sequence similarity 50, member Bprovided by MGI
    Primary source
    MGI:MGI:1351640
    See related
    Ensembl:ENSMUSG00000038246 AllianceGenome:MGI:1351640
    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
    X5L; D0H6S2654E; XAP-5-like
    Summary
    Predicted to be involved in chromatin organization. Predicted to be located in intercellular bridge; midbody; and nucleoplasm. Predicted to be active in nucleus. Is expressed in primary spermatocyte; seminiferous tubule; and spermatid. Orthologous to human FAM50B (family with sequence similarity 50 member B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Restricted expression toward testis adult (RPKM 88.8) See more
    Orthologs
    human all
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    Genomic context

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    See Fam50b in Genome Data Viewer
    Location:
    13 A3.3; 13 14.18 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (34918833..34931605)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (34734850..34747622)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_34156 Neighboring gene STARR-positive B cell enhancer mm9_chr13:34735014-34735315 Neighboring gene STARR-positive B cell enhancer mm9_chr13:34735430-34735730 Neighboring gene PX domain containing 1 Neighboring gene predicted gene 15908 Neighboring gene STARR-seq mESC enhancer starr_34157 Neighboring gene STARR-positive B cell enhancer ABC_E4064 Neighboring gene VISTA enhancer mm180 Neighboring gene STARR-positive B cell enhancer ABC_E11539 Neighboring gene STARR-positive B cell enhancer ABC_E7222 Neighboring gene STARR-positive B cell enhancer ABC_E7223 Neighboring gene ribosomal protein S4, X-linked pseudogene Neighboring gene predicted gene, 36839 Neighboring gene pre-mRNA processing factor 4B

    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. Human and mouse XAP-5 and XAP-5-like (X5L) genes: identification of an ancient functional retroposon differentially expressed in testis. Sedlacek Z, et al. Genomics, 1999 Oct 15. PMID 10534398
    2. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article
    3. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
    5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    involved_in chromatin organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in intercellular bridge IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intercellular bridge ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in midbody IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in midbody ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    protein FAM50B

    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_001382856.1 → NP_001369785.1  protein FAM50B

      Status: VALIDATED

      Source sequence(s)
      AC132344
      UniProtKB/Swiss-Prot
      Q80X84, Q9D993, Q9WTJ8
      Related
      ENSMUSP00000046980.7, ENSMUST00000039605.8
      Conserved Domains (1) summary
      pfam04921
      Location:117 → 333
      XAP5; circadian clock regulator

    2. NM_138746.2 → NP_620085.2  protein FAM50B

      See identical proteins and their annotated locations for NP_620085.2

      Status: VALIDATED

      Source sequence(s)
      AC132344
      Consensus CDS
      CCDS49232.1
      UniProtKB/Swiss-Prot
      Q80X84, Q9D993, Q9WTJ8
      Related
      ENSMUSP00000152187.2, ENSMUST00000221037.2
      Conserved Domains (1) summary
      pfam04921
      Location:117 → 333
      XAP5; circadian clock regulator

    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_000079.7 Reference GRCm39 C57BL/6J

      Range
      34918833..34931605
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NG_001505.1: Suppressed sequence

      Description
      NG_001505.1: This RefSeq was permanently suppressed because it is now thought that this gene does encode a protein.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9WTJ8.1 GenPept UniProtKB/Swiss-Prot:Q9WTJ8

    Gene LinkOut

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

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