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    UPF3 Upf3p [ Saccharomyces cerevisiae S288C ]

    Gene ID: 852963, updated on 9-Dec-2024

    Summary

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    Official Symbol
    UPF3
    Official Full Name
    Upf3p
    Primary source
    SGD:S000003304
    Locus tag
    YGR072W
    See related
    AllianceGenome:SGD:S000003304; FungiDB:YGR072W; VEuPathDB:YGR072W
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Saccharomyces cerevisiae S288C (strain: S288C)
    Lineage
    Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
    Also known as
    SUA6; SUP112
    Summary
    Enables mRNA binding activity. Involved in DNA recombination; nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay; and protein ubiquitination. Located in cytoplasm and nucleolus. Human ortholog(s) of this gene implicated in syndromic X-linked intellectual disability 14. Orthologous to human UPF3A (UPF3A regulator of nonsense mediated mRNA decay) and UPF3B (UPF3B regulator of nonsense mediated mRNA decay). [provided by Alliance of Genome Resources, Dec 2024]
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    Genomic context

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    See UPF3 in Genome Data Viewer
    Location:
    chromosome: VII
    Exon count:
    1
    Sequence:
    Chromosome: VII; NC_001139.9 (634304..635467)

    Chromosome VII - NC_001139.9Genomic Context describing neighboring genes Neighboring gene Rho family guanine nucleotide exchange factor ROM1 Neighboring gene Env11p Neighboring gene mRNA splicing protein SMD1 Neighboring gene U4/U6-U5 snRNP complex subunit PRP38 Neighboring gene mitochondrial 54S ribosomal protein YmL25

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_001139.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Using the cre-lox recombination system to assess functional impairment caused by amino acid substitutions in yeast proteins. Shirley RL, et al. Biol Proced Online, 2004. PMID 15472721, Free PMC Article
    2. A factor required for nonsense-mediated mRNA decay in yeast is exported from the nucleus to the cytoplasm by a nuclear export signal sequence. Shirley RL, et al. J Cell Sci, 1998 Nov. PMID 9763508
    3. Identification of an additional gene required for eukaryotic nonsense mRNA turnover. Lee BS, et al. Proc Natl Acad Sci U S A, 1995 Oct 24. PMID 7479783, Free PMC Article
    4. cis- and trans-acting suppressors of a translation initiation defect at the cyc1 locus of Saccharomyces cerevisiae. Pinto I, et al. Genetics, 1992 Sep. PMID 1327957, Free PMC Article
    5. Intra- and intermolecular regulatory interactions in Upf1, the RNA helicase central to nonsense-mediated mRNA decay in yeast. He F, et al. Mol Cell Biol, 2013 Dec. PMID 24100012, Free PMC Article

    See all (111) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    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 SGD

    Function Evidence Code Pubs
    enables mRNA binding HDA PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA recombination IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of translation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein ubiquitination IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein ubiquitination IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    Upf3p
    NP_011586.1
    • Component of the nonsense-mediated mRNA decay (NMD) pathway; along with Nam7p and Nmd2p; involved in decay of mRNA containing nonsense codons; involved in telomere maintenance

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_001139.9 Reference assembly

      Range
      634304..635467
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001181201.1 → NP_011586.1  TPA: Upf3p [Saccharomyces cerevisiae S288C]

      See identical proteins and their annotated locations for NP_011586.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      D6VUK5, E9P8W8, P48412
      UniProtKB/TrEMBL
      C7GXQ2, G2WEF7, N1P9V6
      Conserved Domains (1) summary
      pfam03467
      Location:83 → 264
      Smg4_UPF3; Smg-4/UPF3 family
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P48412.1

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