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

Gene ID: 172312, updated on 23-Nov-2023

Summary

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Gene symbol
rbm-5
Gene description
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. Orthologous to several human genes including RBM10 (RNA binding motif protein 10) and RBM5 (RNA binding motif protein 5). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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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 types I and II receptor 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. 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
  4. A map of the interactome network of the metazoan C. elegans. Li S, et al. Science, 2004 Jan 23. PMID 14704431, Free PMC Article
  5. OrthoList: a compendium of C. elegans genes with human orthologs. Shaye DD, et al. PLoS One, 2011. PMID 21647448, 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
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