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Upf3 [ Drosophila melanogaster (fruit fly) ]

Gene ID: 37792, updated on 4-Apr-2024

Summary

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Official Symbol
Upf3provided by FlyBase
Primary source
FLYBASE:FBgn0034923
Locus tag
Dmel_CG11184
See related
AllianceGenome:FB:FBgn0034923
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Drosophila melanogaster
Lineage
Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as
CG11184; Dmel\CG11184; dUPF3; upf3; UPF3
Summary
Predicted to enable mRNA binding activity. Involved in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay. Predicted to be active in cytoplasm and nucleolus. Human ortholog(s) of this gene implicated in non-syndromic X-linked intellectual disability 82 and 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, Apr 2022]
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Genomic context

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See Upf3 in Genome Data Viewer
Location:
60A8-60A9; 2-105 cM
Exon count:
3
Annotation release Status Assembly Chr Location
Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) 2R NT_033778.4 (23893066..23894987, complement)
Release 5.57 previous assembly Release 5 (GCF_000001215.2) 2R NT_033778.3 (19780589..19782510, complement)

Chromosome 2R - NT_033778.4Genomic Context describing neighboring genes Neighboring gene Putative homeodomain protein Neighboring gene uncharacterized protein Neighboring gene Decapping protein 1 Neighboring gene DNA ligase 1 Neighboring gene uncharacterized protein Neighboring gene uncharacterized protein Neighboring gene Lost PHDs of trr

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Tau-induced deficits in nonsense-mediated mRNA decay contribute to neurodegeneration. Zuniga G, et al. Alzheimers Dement, 2023 Feb. PMID 35416419, Free PMC Article
  2. Premature termination codon readthrough in Drosophila varies in a developmental and tissue-specific manner. Chen Y, et al. Sci Rep, 2020 May 22. PMID 32444687, Free PMC Article
  3. Reactivation of nonsense-mediated mRNA decay protects against C9orf72 dipeptide-repeat neurotoxicity. Xu W, et al. Brain, 2019 May 1. PMID 30938419, Free PMC Article
  4. The RNA helicase UPF1 associates with mRNAs co-transcriptionally and is required for the release of mRNAs from gene loci. Singh AK, et al. Elife, 2019 Mar 25. PMID 30907728, Free PMC Article
  5. An enemy within: fly reconnaissance deploys an endonuclease to destroy nonsense-containing mRNA. Valencia-Sánchez MA, et al. Trends Cell Biol, 2004 Nov. PMID 15519847

See all (48) citations in PubMed

GeneRIFs: Gene References Into Functions

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 FlyBase

Function Evidence Code Pubs
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
NOT involved_in miRNA-mediated post-transcriptional gene silencing IMP
Inferred from Mutant Phenotype
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 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of translation IBA
Inferred from Biological aspect of Ancestor
more info
  
NOT involved_in regulatory ncRNA-mediated post-transcriptional gene silencing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
Upf3
Names
CG11184-PB
CG11184-PD
Upf3-PB
Upf3-PD

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. NT_033778.4 Reference assembly

    Range
    23893066..23894987 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_166629.2 → NP_726375.1  Upf3, isoform B [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_726375.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q6NN82, Q9W1H3
    Related
    FBpp0072130
    Conserved Domains (1) summary
    pfam03467
    Location:27 → 186
    Smg4_UPF3; Smg-4/UPF3 family

  2. NM_138000.3 → NP_611844.3  Upf3, isoform D [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_611844.3

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q6NN82, Q9W1H3
    Conserved Domains (1) summary
    pfam03467
    Location:27 → 186
    Smg4_UPF3; Smg-4/UPF3 family
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8T994 Q8T994
Q9W1H3 Q9W1H3

Gene LinkOut

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