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    UPF3B UPF3B regulator of nonsense mediated mRNA decay [ Bos taurus (domestic cattle) ]

    Gene ID: 616181, updated on 29-Jan-2025

    Summary

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    Official Symbol
    UPF3Bprovided by VGNC
    Official Full Name
    UPF3B regulator of nonsense mediated mRNA decayprovided by VGNC
    Primary source
    VGNC:VGNC:36683
    See related
    Ensembl:ENSBTAG00000035615
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Bos taurus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Ruminantia; Pecora; Bovidae; Bovinae; Bos
    Orthologs
    human mouse all
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    Genomic context

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    See UPF3B in Genome Data Viewer
    Location:
    chromosome: X
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_12 current ARS-UCD2.0 (GCF_002263795.3) X NC_037357.1 (4167947..4184406, complement)

    Chromosome X - NC_037357.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA69 Neighboring gene ribosomal protein L39 Neighboring gene vasculin-like protein 1 Neighboring gene uncharacterized LOC132344375 Neighboring gene oxysterol-binding protein-related protein 1-like

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_037357.1 Chromosome X Reference ARS-UCD2.0 Primary Assembly

    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Dominette sequence data
    • BioProject: PRJNA294306
    • Analysis date: Tue Dec 17 08:57:05 2024

    Bibliography

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    Related articles in PubMed

    1. A whole-genome assembly of the domestic cow, Bos taurus. Zimin AV, et al. Genome Biol, 2009. PMID 19393038, Free PMC Article
    2. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Clone Names

    • MGC134301

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables mRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in positive regulation of translation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    regulator of nonsense transcripts 3B
    Names
    UPF3 regulator of nonsense transcripts homolog B

    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_001076411.2 → NP_001069879.1  regulator of nonsense transcripts 3B

      See identical proteins and their annotated locations for NP_001069879.1

      Status: PROVISIONAL

      Source sequence(s)
      BC111353
      UniProtKB/TrEMBL
      G5E5Q4, Q2T9M5
      Related
      ENSBTAP00070033711.1, ENSBTAT00070056160.1
      Conserved Domains (1) summary
      cd12728
      Location:50 → 137
      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: GCF_002263795.3-RS_2024_12

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

    Reference ARS-UCD2.0 Primary Assembly

    Genomic

    1. NC_037357.1 Reference ARS-UCD2.0 Primary Assembly

      Range
      4167947..4184406 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_024988250.2 → XP_024844018.1  regulator of nonsense transcripts 3B isoform X3

      Conserved Domains (1) summary
      cd12728
      Location:26 → 110
      RRM_like_Smg4_UPF3B; RNA recognition motif-like Smg4_UPF3 domain in up-frameshift suppressor 3 homolog B on chromosome X (Upf3B)

    2. XM_005227441.5 → XP_005227498.1  regulator of nonsense transcripts 3B isoform X4

      See identical proteins and their annotated locations for XP_005227498.1

      Conserved Domains (1) summary
      pfam03467
      Location:2 → 135
      Smg4_UPF3; Smg-4/UPF3 family

    3. XM_005227440.5 → XP_005227497.1  regulator of nonsense transcripts 3B isoform X2

      See identical proteins and their annotated locations for XP_005227497.1

      UniProtKB/TrEMBL
      A0AAA9S8G5
      Related
      ENSBTAP00070033707.1, ENSBTAT00070056147.1
      Conserved Domains (1) summary
      cd12728
      Location:50 → 137
      RRM_like_Smg4_UPF3B; RNA recognition motif-like Smg4_UPF3 domain in up-frameshift suppressor 3 homolog B on chromosome X (Upf3B)

    4. XM_005227439.5 → XP_005227496.1  regulator of nonsense transcripts 3B isoform X1

      See identical proteins and their annotated locations for XP_005227496.1

      UniProtKB/TrEMBL
      A0AAA9SYT0
      Related
      ENSBTAP00070033698.1, ENSBTAT00070056124.1
      Conserved Domains (1) summary
      cd12728
      Location:50 → 137
      RRM_like_Smg4_UPF3B; RNA recognition motif-like Smg4_UPF3 domain in up-frameshift suppressor 3 homolog B on chromosome X (Upf3B)
    Nucleotide Protein Strain
    Heading Accession and Version

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