U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    exos-3 Ribosomal RNA-processing protein 40 [ Caenorhabditis elegans ]

    Gene ID: 186604, updated on 4-Jan-2025

    Summary

    Go to the top of the page Help
    Official Symbol
    exos-3
    Official Full Name
    Ribosomal RNA-processing protein 40
    Primary source
    WormBase:WBGene00010325
    Locus tag
    CELE_F59C6.4
    See related
    AllianceGenome:WB:WBGene00010325
    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 RNA binding activity. Predicted to be involved in RNA metabolic process. Located in cytoplasm and nucleus. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 1B. Orthologous to human EXOSC3 (exosome component 3). [provided by Alliance of Genome Resources, Jan 2025]
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See exos-3 in Genome Data Viewer
    Location:
    chromosome: I
    Exon count:
    3
    Sequence:
    Chromosome: I; NC_003279.8 (10518379..10519258)

    Chromosome I - NC_003279.8Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene Transthyretin-like family protein Neighboring gene NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10 Neighboring gene UPF0598 protein F59C6.12

    Genomic regions, transcripts, and products

    Go to the top of the page Help
    Genomic Sequence:
    NC_003279.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. 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
    2. Interaction between quality control systems for ER protein folding and RNA biogenesis. Sakaki K, et al. Worm, 2013 Apr 1. PMID 24058870, Free PMC Article
    3. Processing bodies and germ granules are distinct RNA granules that interact in C. elegans embryos. Gallo CM, et al. Dev Biol, 2008 Nov 1. PMID 18692039
    4. Longevity determined by developmental arrest genes in Caenorhabditis elegans. Chen D, et al. Aging Cell, 2007 Aug. PMID 17521386, Free PMC Article
    5. Identification of conserved pathways of DNA-damage response and radiation protection by genome-wide RNAi. van Haaften G, et al. Curr Biol, 2006 Jul 11. PMID 16824923

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by WormBase

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in CUT catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in TRAMP-dependent tRNA surveillance pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in U4 snRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear polyadenylation-dependent rRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in poly(A)-dependent snoRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of cytoplasmic exosome (RNase complex) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of exosome (RNase complex) IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of nuclear exosome (RNase complex) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    Ribosomal RNA-processing protein 40
    NP_492751.1
    • Confirmed by transcript evidence

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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
      10518379..10519258
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_060350.6 → NP_492751.1  Ribosomal RNA-processing protein 40 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_492751.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q93830
      Conserved Domains (2) summary
      COG1097
      Location:5 → 187
      Rrp4; Exosome complex RNA-binding protein Rrp4, contains S1 and KH domains [Translation, ribosomal structure and biogenesis]
      cd05790
      Location:55 → 140
      S1_Rrp40; Rrp40 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in ...
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous