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

Gene ID: 393856, updated on 27-Mar-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 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 human PABPC1 (poly(A) binding protein cytoplasmic 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 19
Exon count:
15
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (12121944..12145764, 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 sperm associated antigen 1a Neighboring gene ring finger protein 19A, RBR E3 ubiquitin protein ligase 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. 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
  4. Pigmentation pathway evolution after whole-genome duplication in fish. Braasch I, et al. Genome Biol Evol, 2009 Nov 25. PMID 20333216, Free PMC Article
  5. Evolution of gene function and regulatory control after whole-genome duplication: comparative analyses in vertebrates. Kassahn KS, et al. Genome Res, 2009 Aug. PMID 19439512, Free PMC Article

See all (9) 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
  
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 1; 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: 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_007130.7 Reference GRCz11 Primary Assembly

    Range
    12121944..12145764 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021468020.1 → XP_021323695.1  polyadenylate-binding protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A8M9PRE3
    Conserved Domains (1) summary
    cl25887
    Location:15 → 459
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
Nucleotide Protein Strain
Heading Accession and Version

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