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smg-4 UPF3 domain-containing protein [ Caenorhabditis elegans ]

Gene ID: 179371, updated on 2-Nov-2024

Summary

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Official Symbol
smg-4
Official Full Name
UPF3 domain-containing protein
Primary source
WormBase:WBGene00004882
Locus tag
CELE_F46B6.3
See related
AllianceGenome:WB:WBGene00004882
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Caenorhabditis elegans (strain: Bristol N2)
Lineage
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary
Predicted to enable mRNA binding activity. Involved in male genitalia development and nuclear-transcribed mRNA catabolic process, nonsense-mediated decay. Located in nucleus and perinuclear region of cytoplasm. Is expressed in intestinal cell; muscle cell; and neurons. 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, Nov 2024]
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Genomic context

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See smg-4 in Genome Data Viewer
Location:
chromosome: V
Exon count:
4
Sequence:
Chromosome: V; NC_003283.11 (9775935..9777745, complement)

Chromosome V - NC_003283.11Genomic Context describing neighboring genes Neighboring gene Homeobox protein unc-42 Neighboring gene ncRNA Neighboring gene Uncharacterized protein Neighboring gene UPF0587 protein F46B6.12 Neighboring gene Hflx-type G domain-containing protein Neighboring gene LisH domain-containing protein

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003283.11

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Molecular identification of smg-4, required for mRNA surveillance in C. elegans. Aronoff R, et al. Gene, 2001 May 2. PMID 11368911
  2. Suppressors of the unc-73 gene of Caenorhabditis elegans. Run JQ, et al. Genetics, 1996 May. PMID 8722777, Free PMC Article
  3. SMG-1 is a phosphatidylinositol kinase-related protein kinase required for nonsense-mediated mRNA Decay in Caenorhabditis elegans. Grimson A, et al. Mol Cell Biol, 2004 Sep. PMID 15314158, Free PMC Article
  4. smg mutants affect the expression of alternatively spliced SR protein mRNAs in Caenorhabditis elegans. Morrison M, et al. Proc Natl Acad Sci U S A, 1997 Sep 2. PMID 9275202, Free PMC Article
  5. RNA surveillance is required for endoplasmic reticulum homeostasis. Sakaki K, et al. Proc Natl Acad Sci U S A, 2012 May 22. PMID 22562797, Free PMC Article

See all (27) 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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Markers

Homology

Gene Ontology Provided by WormBase

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
involved_in male genitalia development 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
  
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 nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
UPF3 domain-containing protein
NP_741600.1
  • Confirmed by transcript evidence
NP_741601.1
  • Confirmed by transcript evidence

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_003283.11 Reference assembly

    Range
    9775935..9777745 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_171514.6 → NP_741600.1  UPF3 domain-containing protein [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_741600.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q8WQF3
    Conserved Domains (2) summary
    pfam03467
    Location:9 → 171
    Smg4_UPF3; Smg-4/UPF3 family
    pfam15677
    Location:282 → 362
    CEND1; Cell cycle exit and neuronal differentiation protein 1

  2. NM_171515.6 → NP_741601.1  UPF3 domain-containing protein [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_741601.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q20445
    Conserved Domains (1) summary
    pfam03467
    Location:9 → 171
    Smg4_UPF3; Smg-4/UPF3 family
Nucleotide Protein
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