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    rnp-6 Poly(U)-binding-splicing factor rnp-6 [ Caenorhabditis elegans ]

    Gene ID: 171922, updated on 2-Nov-2024

    Summary

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    Official Symbol
    rnp-6
    Official Full Name
    Poly(U)-binding-splicing factor rnp-6
    Primary source
    WormBase:WBGene00004389
    Locus tag
    CELE_Y47G6A.20
    See related
    AllianceGenome:WB:WBGene00004389
    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 DNA binding activity and RNA binding activity. Predicted to be involved in alternative mRNA splicing, via spliceosome; mRNA splice site recognition; and regulation of alternative mRNA splicing, via spliceosome. Predicted to be located in nucleus. Predicted to be part of ribonucleoprotein complex. Orthologous to human PUF60 (poly(U) binding splicing factor 60). [provided by Alliance of Genome Resources, Nov 2024]
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    Genomic context

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    See rnp-6 in Genome Data Viewer
    Location:
    chromosome: I
    Exon count:
    10
    Sequence:
    Chromosome: I; NC_003279.8 (3539553..3546910, complement)

    Chromosome I - NC_003279.8Genomic Context describing neighboring genes Neighboring gene Peptidase M14 carboxypeptidase A domain-containing protein;ShKT domain-containing protein Neighboring gene 40S ribosomal protein S19-binding protein 1 Neighboring gene ncRNA Neighboring gene Tyrosine-protein kinase Neighboring gene RNA interference defective protein 10 Neighboring gene DeHydrogenases, Short chain Neighboring gene ncRNA

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003279.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Evolutionarily conserved regulation of immunity by the splicing factor RNP-6/PUF60. Kew C, et al. Elife, 2020 Jun 15. PMID 32538777, Free PMC Article
    2. PUF60: a novel U2AF65-related splicing activity. Page-McCaw PS, et al. RNA, 1999 Dec. PMID 10606266, Free PMC Article
    3. The Caenorhabditis elegans pericentriolar material components SPD-2 and SPD-5 are monomeric in the cytoplasm before incorporation into the PCM matrix. Wueseke O, et al. Mol Biol Cell, 2014 Oct 1. PMID 25103243, Free PMC Article
    4. Decreased spliceosome fidelity and egl-8 intron retention inhibit mTORC1 signaling to promote longevity. Huang W, et al. Nat Aging, 2022 Sep. PMID 37118503, Free PMC Article
    5. Sm protein down-regulation leads to defects in nuclear pore complex disassembly and distribution in C. elegans embryos. Joseph-Strauss D, et al. Dev Biol, 2012 May 15. PMID 22426005, Free PMC Article

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Evolutionarily conserved regulation of immunity by the splicing factor RNP-6/PUF60.
      Title: Evolutionarily conserved regulation of immunity by the splicing factor RNP-6/PUF60.
    Submit: New GeneRIF Correction

    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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    Markers

    Homology

    Gene Ontology Provided by WormBase

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in alternative mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA splice site recognition IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of alternative mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of alternative mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of ribonucleoprotein complex IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    Poly(U)-binding-splicing factor rnp-6
    NP_001360094.1
    • Confirmed by transcript evidence
    NP_491176.1
    • Confirmed by transcript evidence
    NP_740829.1
    • 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_003279.8 Reference assembly

      Range
      3539553..3546910 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_058775.8 → NP_491176.1  Poly(U)-binding-splicing factor rnp-6 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_491176.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8MXS9, Q9N3S3, Q9N3S4
      Conserved Domains (1) summary
      TIGR01645
      Location:5 → 749
      half-pint; poly-U binding splicing factor, half-pint family

    2. NM_001373813.2 → NP_001360094.1  Poly(U)-binding-splicing factor rnp-6 [Caenorhabditis elegans]

      Status: REVIEWED

      Conserved Domains (1) summary
      TIGR01645
      Location:5 → 338
      half-pint; poly-U binding splicing factor, half-pint family

    3. NM_170843.5 → NP_740829.1  Poly(U)-binding-splicing factor rnp-6 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_740829.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q8MXS9
      Conserved Domains (2) summary
      cd12370
      Location:102 → 177
      RRM1_PUF60; RNA recognition motif 1 in (U)-binding-splicing factor PUF60 and similar proteins
      cd12371
      Location:207 → 279
      RRM2_PUF60; RNA recognition motif 2 in (U)-binding-splicing factor PUF60 and similar proteins
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9N3S4.1

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