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Pcdh19 protocadherin 19 [ Rattus norvegicus (Norway rat) ]

Gene ID: 317183, updated on 27-Nov-2024

Summary

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Official Symbol
Pcdh19provided by RGD
Official Full Name
protocadherin 19provided by RGD
Primary source
RGD:1565392
See related
EnsemblRapid: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 active in 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, Nov 2024]
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
  

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, ENSRNOT00000064458.5
    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, ENSRNOT00000080386.3
    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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