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    rbm-5 RNA-binding protein 5 [ Caenorhabditis elegans ]

    Gene ID: 172312, updated on 9-Dec-2024

    Summary

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    Official Symbol
    rbm-5
    Official Full Name
    RNA-binding protein 5
    Primary source
    WormBase:WBGene00020346
    Locus tag
    CELE_T08B2.5
    See related
    AllianceGenome:WB:WBGene00020346
    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 mRNA splicing, via spliceosome. Predicted to be active in nucleus. Is expressed in CAN; head neurons; intestinal cell; muscle cell; and ventral nerve cord. Human ortholog(s) of this gene implicated in TARP syndrome; colorectal cancer; lung adenocarcinoma; and lung cancer. Orthologous to human RBM10 (RNA binding motif protein 10) and RBM5 (RNA binding motif protein 5). [provided by Alliance of Genome Resources, Dec 2024]
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    Genomic context

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    See rbm-5 in Genome Data Viewer
    Location:
    chromosome: I
    Exon count:
    15
    Sequence:
    Chromosome: I; NC_003279.8 (6215727..6219912)

    Chromosome I - NC_003279.8Genomic Context describing neighboring genes Neighboring gene Large ribosomal subunit protein uL23m Neighboring gene phenylalanine--tRNA ligase Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene tRNA Neighboring gene Activin_recp domain-containing protein Neighboring gene Small ribosomal subunit protein eS17 Neighboring gene HUN domain-containing protein

    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. RBM-5 modulates U2AF large subunit-dependent alternative splicing in C. elegans. Zhou C, et al. RNA Biol, 2018. PMID 30295127, Free PMC Article
    2. In Vivo Interaction Proteomics in Caenorhabditis elegans Embryos Provides New Insights into P Granule Dynamics. Chen JX, et al. Mol Cell Proteomics, 2016 May. PMID 26912668, Free PMC Article
    3. Defect-buffering cellular plasticity increases robustness of metazoan embryogenesis. Xiao L, et al. Cell Syst, 2022 Aug 17. PMID 35882226
    4. Novel LOTUS-domain proteins are organizational hubs that recruit C. elegans Vasa to germ granules. Cipriani PG, et al. Elife, 2021 Jul 5. PMID 34223818, Free PMC Article
    5. A map of the interactome network of the metazoan C. elegans. Li S, et al. Science, 2004 Jan 23. PMID 14704431, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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 RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion 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 mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    RNA-binding protein 5
    NP_001379814.1
    • Partially confirmed by transcript evidence
    NP_001379815.1
    • Partially confirmed by transcript evidence
    NP_491793.1
    • Confirmed by transcript evidence
    NP_491794.1
    • 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
      6215727..6219912
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001392416.1 → NP_001379814.1  RNA-binding protein 5 [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q8MNW1

    2. NM_059392.5 → NP_491793.1  RNA-binding protein 5 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_491793.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9BIC2
      Conserved Domains (7) summary
      smart00443
      Location:852 → 898
      G_patch; glycine rich nucleic binding domain
      smart00547
      Location:318 → 340
      ZnF_RBZ; Zinc finger domain
      COG0724
      Location:218 → 308
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      sd00025
      Location:320 → 339
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam07808
      Location:784 → 849
      RED_N; RED-like protein N-terminal region
      cd16162
      Location:554 → 608
      OCRE_RBM5_like; OCRE domain found in RNA-binding protein RBM5, RBM10, and similar proteins
      cl17169
      Location:222 → 305
      RRM_SF; RNA recognition motif (RRM) superfamily

    3. NM_059393.5 → NP_491794.1  RNA-binding protein 5 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_491794.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9GYS7
      Conserved Domains (7) summary
      smart00443
      Location:851 → 897
      G_patch; glycine rich nucleic binding domain
      smart00547
      Location:317 → 339
      ZnF_RBZ; Zinc finger domain
      COG0724
      Location:217 → 307
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      sd00025
      Location:319 → 338
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam07808
      Location:783 → 848
      RED_N; RED-like protein N-terminal region
      cd16162
      Location:553 → 607
      OCRE_RBM5_like; OCRE domain found in RNA-binding protein RBM5, RBM10, and similar proteins
      cl17169
      Location:221 → 304
      RRM_SF; RNA recognition motif (RRM) superfamily

    4. NM_001392414.1 → NP_001379815.1  RNA-binding protein 5 [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q86NK1
    Nucleotide Protein
    Heading Accession and Version

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