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    ptb-1 RRM domain-containing protein [ Caenorhabditis elegans ]

    Gene ID: 174647, updated on 2-Nov-2024

    Summary

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    Official Symbol
    ptb-1
    Official Full Name
    RRM domain-containing protein
    Primary source
    WormBase:WBGene00004207
    Locus tag
    CELE_D2089.4
    See related
    AllianceGenome:WB:WBGene00004207
    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 mRNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome and regulation of RNA splicing. Predicted to be active in nucleus. Is expressed in several structures, including enteric muscle; head mesodermal cell; nervous system; pharynx; and reproductive system. Orthologous to human PTBP1 (polypyrimidine tract binding protein 1); PTBP2 (polypyrimidine tract binding protein 2); and PTBP3 (polypyrimidine tract binding protein 3). [provided by Alliance of Genome Resources, Nov 2024]
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    Genomic context

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    See ptb-1 in Genome Data Viewer
    Location:
    chromosome: II
    Exon count:
    15
    Sequence:
    Chromosome: II; NC_003280.10 (10675602..10690282)

    Chromosome II - NC_003280.10Genomic Context describing neighboring genes Neighboring gene Secreted protein Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene putative gamma-butyrobetaine dioxygenase Neighboring gene Glycine receptor subunit beta-type 4 Neighboring gene 2-(3-amino-3-carboxypropyl)histidine synthase subunit 2

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003280.10

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Splicing factors control C. elegans behavioural learning in a single neuron by producing DAF-2c receptor. Tomioka M, et al. Nat Commun, 2016 May 20. PMID 27198602, Free PMC Article
    2. Functional characterization of SR and SR-related genes in Caenorhabditis elegans. Longman D, et al. EMBO J, 2000 Apr 3. PMID 10747030, Free PMC Article
    3. Detection of broadly expressed neuronal genes in C. elegans. Ruvinsky I, et al. Dev Biol, 2007 Feb 15. PMID 17046742
    4. Functional identification of microRNA-centered complexes in C. elegans. Hebbar S, et al. Sci Rep, 2022 May 3. PMID 35504914, Free PMC Article
    5. A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding. Lenfant N, et al. BMC Genomics, 2010 Nov 26. PMID 21110867, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. key role in conferring neuron-class specificity of exon 11.5 inclusion in daf-2 splicing
      Title: Splicing factors control C. elegans behavioural learning in a single neuron by producing DAF-2c receptor.
    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 RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    involved_in regulation of RNA splicing 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
    RRM domain-containing protein
    NP_741041.1
    • Confirmed by transcript evidence
    NP_741042.1
    • 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_003280.10 Reference assembly

      Range
      10675602..10690282
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_171035.7 → NP_741041.1  RRM domain-containing protein [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_741041.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q18999
      Conserved Domains (5) summary
      cd12421
      Location:122 → 195
      RRM1_PTBP1_hnRNPL_like; RNA recognition motif in polypyrimidine tract-binding protein 1 (PTB or hnRNP I), heterogeneous nuclear ribonucleoprotein L (hnRNP-L), and similar proteins
      cd12423
      Location:422 → 495
      RRM3_PTBP1_like; RNA recognition motif 3 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
      cd12425
      Location:539 → 613
      RRM4_PTBP1_like; RNA recognition motif 4 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
      cd12693
      Location:229 → 324
      RRM2_PTBP1_like; RNA recognition motif 2 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
      TIGR01649
      Location:119 → 615
      hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family

    2. NM_171036.7 → NP_741042.1  RRM domain-containing protein [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_741042.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q8T3E6
      Conserved Domains (3) summary
      cd12423
      Location:260 → 333
      RRM3_PTBP1_like; RNA recognition motif 3 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
      cd12425
      Location:377 → 451
      RRM4_PTBP1_like; RNA recognition motif 4 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
      cd12693
      Location:67 → 162
      RRM2_PTBP1_like; RNA recognition motif 2 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
    Nucleotide Protein
    Heading Accession and Version

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