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    ptbp3 polypyrimidine tract binding protein 3 [ Danio rerio (zebrafish) ]

    Gene ID: 798982, updated on 27-Mar-2024

    Summary

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    Official Symbol
    ptbp3provided by ZNC
    Official Full Name
    polypyrimidine tract binding protein 3provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-091116-1
    See related
    Ensembl:ENSDARG00000043757 AllianceGenome:ZFIN:ZDB-GENE-091116-1
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    si:dkey-27p1.2
    Summary
    Predicted to enable mRNA binding activity. Predicted to be involved in regulation of RNA splicing. Predicted to act upstream of or within mRNA processing. Predicted to be active in nucleus. Orthologous to human PTBP3 (polypyrimidine tract binding protein 3). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See ptbp3 in Genome Data Viewer
    Location:
    chromosome: 10
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (11142857..11261519, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (11184808..11303197, complement)

    Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101885220 Neighboring gene uncharacterized LOC110437817 Neighboring gene hydroxysteroid dehydrogenase like 2 Neighboring gene KIAA1958 ortholog

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Evolution of the vertebrate paralemmin gene family: ancient origin of gene duplicates suggests distinct functions. Hultqvist G, et al. PLoS One, 2012. PMID 22855693, Free PMC Article
    2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    4. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    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
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    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
    regulator of differentiation 1; polypyrimidine tract-binding protein 3
    Names
    ROD1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007121.7 Reference GRCz11 Primary Assembly

      Range
      11142857..11261519 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009305171.3 → XP_009303446.1  polypyrimidine tract-binding protein 3

      See identical proteins and their annotated locations for XP_009303446.1

      UniProtKB/TrEMBL
      A0A8M3AWK2, E7FB37
      Related
      ENSDARP00000118637.1, ENSDART00000146727.2
      Conserved Domains (4) summary
      cd12688
      Location:29 → 109
      RRM1_PTBP1_like; RNA recognition motif 1 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
      cd12784
      Location:148 → 250
      RRM2_ROD1; RNA recognition motif 2 in vertebrate regulator of differentiation 1 (Rod1)
      TIGR01649
      Location:27 → 522
      hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
      cl17169
      Location:329 → 421
      RRM_SF; RNA recognition motif (RRM) superfamily

    2. XM_009305172.3 → XP_009303447.1  polypyrimidine tract-binding protein 3

      See identical proteins and their annotated locations for XP_009303447.1

      UniProtKB/TrEMBL
      A0A8M3AWK2, E7FB37
      Conserved Domains (4) summary
      cd12688
      Location:29 → 109
      RRM1_PTBP1_like; RNA recognition motif 1 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
      cd12784
      Location:148 → 250
      RRM2_ROD1; RNA recognition motif 2 in vertebrate regulator of differentiation 1 (Rod1)
      TIGR01649
      Location:27 → 522
      hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
      cl17169
      Location:329 → 421
      RRM_SF; RNA recognition motif (RRM) superfamily
    Nucleotide Protein Strain
    Heading Accession and Version

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