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    smg-6 PIN domain-containing protein;PINc domain-containing protein [ Caenorhabditis elegans ]

    Gene ID: 175367, updated on 2-Nov-2024

    Summary

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    Official Symbol
    smg-6
    Official Full Name
    PIN domain-containing protein;PINc domain-containing protein
    Primary source
    WormBase:WBGene00004884
    Locus tag
    CELE_Y54F10AL.2
    See related
    AllianceGenome:WB:WBGene00004884
    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 telomerase RNA binding activity and telomeric DNA binding activity. Involved in embryonic genitalia morphogenesis; nuclear-transcribed mRNA catabolic process, nonsense-mediated decay; and regulatory ncRNA-mediated post-transcriptional gene silencing. Predicted to be located in cytoplasm and nucleus. Predicted to be part of telomerase holoenzyme complex. Is expressed in intestine. Orthologous to human SMG6 (SMG6 nonsense mediated mRNA decay factor). [provided by Alliance of Genome Resources, Nov 2024]
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    Genomic context

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    See smg-6 in Genome Data Viewer
    Location:
    chromosome: III
    Exon count:
    18
    Sequence:
    Chromosome: III; NC_003281.10 (2473854..2486622)

    Chromosome III - NC_003281.10Genomic Context describing neighboring genes Neighboring gene TransThyretin-Related family domain Neighboring gene TransThyretin-Related family domain Neighboring gene GDT1 family protein Neighboring gene Putative phospholipase B-like 3

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003281.10

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. SMG-6 mRNA cleavage stalls ribosomes near premature stop codons in vivo. Kim JH, et al. Nucleic Acids Res, 2022 Aug 26. PMID 35950494, Free PMC Article
    2. mRNA surveillance mitigates genetic dominance in Caenorhabditis elegans. Cali BM, et al. Mol Gen Genet, 1998 Nov. PMID 9862469
    3. Global analysis of alternative splicing uncovers developmental regulation of nonsense-mediated decay in C. elegans. Barberan-Soler S, et al. RNA, 2009 Sep. PMID 19617316, Free PMC Article
    4. Suppressors of the unc-73 gene of Caenorhabditis elegans. Run JQ, et al. Genetics, 1996 May. PMID 8722777, Free PMC Article
    5. 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

    See all (30) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SMG-6 mRNA cleavage stalls ribosomes near premature stop codons in vivo.
      Title: SMG-6 mRNA cleavage stalls ribosomes near premature stop codons in vivo.
    Submit: New GeneRIF Correction

    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 WormBase

    Function Evidence Code Pubs
    enables telomerase RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables telomeric DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in embryonic genitalia morphogenesis 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 regulatory ncRNA-mediated post-transcriptional gene silencing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of telomerase holoenzyme complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    PIN domain-containing protein;PINc domain-containing protein
    NP_001367726.1
    • Confirmed by transcript evidence
    NP_497565.1
    • Confirmed by transcript evidence
    NP_497566.3
    • 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_003281.10 Reference assembly

      Range
      2473854..2486622
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_065164.8 → NP_497565.1  PINc domain-containing protein [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_497565.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9BL69

    2. NM_065165.9 → NP_497566.3  PIN domain-containing protein [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_497566.3

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9BL68
      Conserved Domains (3) summary
      cd09885
      Location:1060 → 1237
      PIN_Smg6-like; VapC-like PIN domain of human telomerase-binding protein EST1, Smg6, and other similar eukaryotic homologs
      pfam10373
      Location:669 → 995
      EST1_DNA_bind; Est1 DNA/RNA binding domain
      pfam10374
      Location:541 → 661
      EST1; Telomerase activating protein Est1

    3. NM_001381779.2 → NP_001367726.1  PIN domain-containing protein [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q1T6W7
      Conserved Domains (3) summary
      cd09885
      Location:1038 → 1215
      PIN_Smg6-like; VapC-like PIN domain of human telomerase-binding protein EST1, Smg6, and other similar eukaryotic homologs
      pfam10373
      Location:669 → 973
      EST1_DNA_bind; Est1 DNA/RNA binding domain
      pfam10374
      Location:540 → 661
      EST1; Telomerase activating protein Est1
    Nucleotide Protein
    Heading Accession and Version

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