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    Upf3b UPF3 regulator of nonsense transcripts homolog B (yeast) [ Mus musculus (house mouse) ]

    Gene ID: 68134, updated on 23-Jun-2021

    Summary

    Official Symbol
    Upf3bprovided by MGI
    Official Full Name
    UPF3 regulator of nonsense transcripts homolog B (yeast)provided by MGI
    Primary source
    MGI:MGI:1915384
    See related
    Ensembl:ENSMUSG00000036572
    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
    RENT; UPF3; UPF3X; RENT3B; AI317193; AW541158; 5730594O13Rik
    Expression
    Broad expression in CNS E11.5 (RPKM 8.6), CNS E14 (RPKM 7.2) and 22 other tissues See more
    Orthologs
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    Genomic context

    See Upf3b in Genome Data Viewer
    Location:
    X; X A3.3
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) X NC_000086.8 (36355331..36374124, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (37091678..37110471, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) X NC_000086.6 (34631829..34650317, complement)

    Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene predicted gene, 26099 Neighboring gene small nucleolar RNA, H/ACA box 69 Neighboring gene ribosomal protein L39 Neighboring gene NFKB activating protein Neighboring gene A kinase (PRKA) anchor protein 14 Neighboring gene predicted gene, 39503 Neighboring gene NADH:ubiquinone oxidoreductase subunit A1

    Genomic regions, transcripts, and products

    Expression

    • 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

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Gene trapped (1) 
    • Endonuclease-mediated (2) 

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables mRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in centriolar satellite ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    part_of exon-exon junction complex ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    regulator of nonsense transcripts 3B
    Names
    hUPF3B

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_026573.3NP_080849.1  regulator of nonsense transcripts 3B

      See identical proteins and their annotated locations for NP_080849.1

      Status: VALIDATED

      Source sequence(s)
      AK145431, BC047049
      Consensus CDS
      CCDS30068.1
      UniProtKB/TrEMBL
      Q3ULL6, Q80UI8
      Related
      ENSMUSP00000075614.7, ENSMUST00000076265.13
      Conserved Domains (1) summary
      cd12728
      Location:50137
      RRM_like_Smg4_UPF3B; RNA recognition motif-like Smg4_UPF3 domain in up-frameshift suppressor 3 homolog B on chromosome X (Upf3B)

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

    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
      36355331..36374124 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006541394.4XP_006541457.1  regulator of nonsense transcripts 3B isoform X1

      See identical proteins and their annotated locations for XP_006541457.1

      Conserved Domains (1) summary
      pfam03467
      Location:51208
      Smg4_UPF3; Smg-4/UPF3 family
    2. XM_036162085.1XP_036017978.1  regulator of nonsense transcripts 3B isoform X3

    3. XM_036162083.1XP_036017976.1  regulator of nonsense transcripts 3B isoform X2

    4. XM_036162084.1XP_036017977.1  regulator of nonsense transcripts 3B isoform X2

    RNA

    1. XR_001782759.2 RNA Sequence

    2. XR_004940361.1 RNA Sequence

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