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    pkp1b plakophilin 1b [ Danio rerio (zebrafish) ]

    Gene ID: 797838, updated on 2-Nov-2024

    Summary

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    Official Symbol
    pkp1bprovided by ZNC
    Official Full Name
    plakophilin 1bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-417
    See related
    Ensembl:ENSDARG00000052705 AllianceGenome:ZFIN:ZDB-GENE-030131-417
    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
    pkp1; fb30d08; wu:fb30d08
    Summary
    Predicted to enable cadherin binding activity. Predicted to be involved in cell-cell adhesion. Predicted to act upstream of or within cell adhesion. Predicted to be active in several cellular components, including adherens junction; nucleus; and plasma membrane. Is expressed in EVL; otic vesicle; peripheral olfactory organ; and pharyngeal arch. Human ortholog(s) of this gene implicated in ectodermal dysplasia. Orthologous to human PKP1 (plakophilin 1). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    all
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    Genomic context

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    See pkp1b in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (54711321..54754044)
    105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (54703092..54745935)

    Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene TEA domain family member 3 b Neighboring gene sphingomyelin phosphodiesterase 2b Neighboring gene troponin T type 2b (cardiac) Neighboring gene troponin I type 1b (skeletal, slow)

    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 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. Transcriptional response to cardiac injury in the zebrafish: systematic identification of genes with highly concordant activity across in vivo models. Rodius S, et al. BMC Genomics, 2014 Oct 3. PMID 25280539, Free PMC Article
    2. Molecular evolution and functional divergence of zebrafish (Danio rerio) cryptochrome genes. Liu C, et al. Sci Rep, 2015 Jan 29. PMID 25630924, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. 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 cadherin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in animal organ development IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cell-cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within cell-cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in adherens junction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    plakophilin-1
    Names
    plakophilin 1

    NCBI Reference Sequences (RefSeq)

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    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_007117.7 Reference GRCz11 Primary Assembly

      Range
      54711321..54754044
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_001338263.7 → XP_001338299.2  plakophilin-1

      UniProtKB/TrEMBL
      A0A8M1PSA0, E7FBR0
      Related
      ENSDARP00000069093.5, ENSDART00000074605.6
      Conserved Domains (2) summary
      cd00020
      Location:257 → 364
      ARM; Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, ...
      sd00043
      Location:286 → 322
      ARM; armadillo repeat [structural motif]
    Nucleotide Protein Strain
    Heading Accession and Version

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