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    pabpc1b poly A binding protein, cytoplasmic 1 b [ Danio rerio (zebrafish) ]

    Gene ID: 393856, updated on 9-Dec-2024

    Summary

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    Official Symbol
    pabpc1bprovided by ZNC
    Official Full Name
    poly A binding protein, cytoplasmic 1 bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050308-1
    See related
    Ensembl:ENSDARG00000021140 AllianceGenome:ZFIN:ZDB-GENE-050308-1
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    pabpc1; zgc:77608
    Summary
    Predicted to enable RNA binding activity. Predicted to act upstream of or within mRNA processing. Predicted to be located in cytoplasm. Is expressed in several structures, including alar plate midbrain region; nervous system; notochord; pronephric duct; and yolk syncytial layer. Orthologous to several human genes including PABPC1 (poly(A) binding protein cytoplasmic 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See pabpc1b in Genome Data Viewer
    Location:
    chromosome: 19
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (12121944..12145730, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (12202416..12226202, complement)

    Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137488482 Neighboring gene ring finger protein 19A, RBR E3 ubiquitin protein ligase Neighboring gene small nucleolar RNA SNORA5 Neighboring gene small nucleolar RNA SNORA5 Neighboring gene tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide Neighboring gene zinc finger protein 706

    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. Translational inhibition by deadenylation-independent mechanisms is central to microRNA-mediated silencing in zebrafish. Mishima Y, et al. Proc Natl Acad Sci U S A, 2012 Jan 24. PMID 22232654, Free PMC Article
    2. Oncogenic Role of THOR, a Conserved Cancer/Testis Long Non-coding RNA. Hosono Y, et al. Cell, 2017 Dec 14. PMID 29245011, Free PMC Article
    3. Cpeb1b-mediated cytoplasmic polyadenylation of shha mRNA modulates zebrafish definitive hematopoiesis. Heng J, et al. Proc Natl Acad Sci U S A, 2023 Feb 14. PMID 36745802, Free PMC Article
    4. An evolutionary approach to recover genes predominantly expressed in the testes of the zebrafish, chicken and mouse. Fouchécourt S, et al. BMC Evol Biol, 2019 Jul 3. PMID 31269894, Free PMC Article
    5. Pigmentation pathway evolution after whole-genome duplication in fish. Braasch I, et al. Genome Biol Evol, 2009 Nov 25. PMID 20333216, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC77608

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    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
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    polyadenylate-binding protein 1b

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_200882.1 → NP_957176.1  polyadenylate-binding protein 1b

      See identical proteins and their annotated locations for NP_957176.1

      Status: PROVISIONAL

      Source sequence(s)
      BC063948
      UniProtKB/TrEMBL
      Q6P3L1, Q6PBL8
      Related
      ENSDARP00000034822.9, ENSDART00000032474.11
      Conserved Domains (6) summary
      TIGR01628
      Location:11 → 613
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
      cd12378
      Location:12 → 91
      RRM1_I_PABPs; RNA recognition motif 1 in type I polyadenylate-binding proteins
      cd12379
      Location:97 → 172
      RRM2_I_PABPs; RNA recognition motif 2 found in type I polyadenylate-binding proteins
      cd12380
      Location:190 → 269
      RRM3_I_PABPs; RNA recognition motif 3 found in type I polyadenylate-binding proteins
      cd12381
      Location:293 → 370
      RRM4_I_PABPs; RNA recognition motif 4 in type I polyadenylate-binding proteins
      pfam00658
      Location:545 → 612
      PABP; Poly-adenylate binding protein, unique domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007130.7 Reference GRCz11 Primary Assembly

      Range
      12121944..12145730 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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