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    Pcdh19 protocadherin 19 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 317183, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Pcdh19provided by RGD
    Official Full Name
    protocadherin 19provided by RGD
    Primary source
    RGD:1565392
    See related
    Ensembl:ENSRNOG00000003929 AllianceGenome:RGD:1565392
    Gene type
    protein coding
    RefSeq status
    INFERRED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1565392
    Summary
    Predicted to enable calcium ion binding activity. Predicted to be involved in cell adhesion. Predicted to be integral component of plasma membrane. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy 9. Orthologous to human PCDH19 (protocadherin 19). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Adrenal (RPKM 69.3), Heart (RPKM 67.9) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Pcdh19 in Genome Data Viewer
    Location:
    Xq32
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (101061002..101166777, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (96767686..96873477, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (104387346..104493914, complement)

    Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein S27a, pseudogene 4 Neighboring gene heat shock protein 90 alpha family class B member 1, pseudogene 11 Neighboring gene uncharacterized LOC134484183 Neighboring gene U6 spliceosomal RNA

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. The Epilepsy-Related Protein PCDH19 Regulates Tonic Inhibition, GABA(A)R Kinetics, and the Intrinsic Excitability of Hippocampal Neurons. Serratto GM, et al. Mol Neurobiol, 2020 Dec. PMID 32880860, Free PMC Article
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The Epilepsy-Related Protein PCDH19 Regulates Tonic Inhibition, GABAAR Kinetics, and the Intrinsic Excitability of Hippocampal Neurons.
      Title: The Epilepsy-Related Protein PCDH19 Regulates Tonic Inhibition, GABA(A)R Kinetics, and the Intrinsic Excitability of Hippocampal Neurons.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in homophilic cell adhesion via plasma membrane adhesion molecules IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protocadherin-19

    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_001169129.1 → NP_001162600.1  protocadherin-19 precursor

      See identical proteins and their annotated locations for NP_001162600.1

      Status: INFERRED

      Source sequence(s)
      CH473969
      UniProtKB/TrEMBL
      A6IVD4, D3ZG18
      Related
      ENSRNOP00000062902.2, ENSRNOT00000064458.4
      Conserved Domains (2) summary
      cd11304
      Location:242 → 342
      Cadherin_repeat; Cadherin tandem repeat domain
      cl09101
      Location:25 → 106
      E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086039.1 Reference GRCr8

      Range
      101061002..101166777 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006257222.4 → XP_006257284.1  protocadherin-19 isoform X2

      UniProtKB/TrEMBL
      A0A0G2K8I5
      Related
      ENSRNOP00000074621.1
      Conserved Domains (2) summary
      cd11304
      Location:242 → 342
      Cadherin_repeat; Cadherin tandem repeat domain
      cl09101
      Location:25 → 106
      E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

    2. XM_008773420.3 → XP_008771642.1  protocadherin-19 isoform X5

      Conserved Domains (2) summary
      cd11304
      Location:242 → 342
      Cadherin_repeat; Cadherin tandem repeat domain
      cl09101
      Location:25 → 106
      E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

    3. XM_039099722.2 → XP_038955650.1  protocadherin-19 isoform X4

      Conserved Domains (2) summary
      cd11304
      Location:242 → 342
      Cadherin_repeat; Cadherin tandem repeat domain
      pfam08266
      Location:27 → 106
      Cadherin_2; Cadherin-like

    4. XM_006257224.4 → XP_006257286.1  protocadherin-19 isoform X3

      Conserved Domains (2) summary
      cd11304
      Location:242 → 342
      Cadherin_repeat; Cadherin tandem repeat domain
      cl09101
      Location:25 → 106
      E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

    5. XM_006257223.4 → XP_006257285.1  protocadherin-19 isoform X1

      Conserved Domains (2) summary
      cd11304
      Location:242 → 342
      Cadherin_repeat; Cadherin tandem repeat domain
      cl09101
      Location:25 → 106
      E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus
    Nucleotide Protein Strain
    Heading Accession and Version

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