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Pcdh20 protocadherin 20 [ Mus musculus (house mouse) ]

Gene ID: 219257, updated on 11-Apr-2024

Summary

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Official Symbol
Pcdh20provided by MGI
Official Full Name
protocadherin 20provided by MGI
Primary source
MGI:MGI:2443376
See related
Ensembl:ENSMUSG00000050505 AllianceGenome:MGI:2443376
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Pcdh13; C630015B17Rik
Summary
This gene belongs to the protocadherin gene family, a subfamily of the cadherin superfamily. The encoded protein contains six extracellular cadherin domains, a transmembrane domain, and a cytoplasmic tail differing from those of the classical cadherins. The encoded protein may play a role in cell adhesion in the nervous system and has been shown to be specifically expressed in newly differentiated olfactory sensory neurons and their axons during development. In adult mice, the expression of this protein in the olfactory system is more restricted but shows a gender difference with higher expression in the male than in the female. [provided by RefSeq, Sep 2009]
Expression
Biased expression in frontal lobe adult (RPKM 3.1), cortex adult (RPKM 2.1) and 7 other tissues See more
Orthologs
human all
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Genomic context

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Location:
14 E1; 14 44.43 cM
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (88702183..88708832, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (88464743..88471396, complement)

Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_37355 Neighboring gene ribosomal protein S10 pseudogene Neighboring gene sorbitol dehydrogenase pseudogene Neighboring gene STARR-seq mESC enhancer starr_37356 Neighboring gene predicted gene, 41225 Neighboring gene STARR-seq mESC enhancer starr_37357 Neighboring gene STARR-seq mESC enhancer starr_37358 Neighboring gene STARR-seq mESC enhancer starr_37359 Neighboring gene TSPY-like 2 pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Expression of protocadherin-20 in mouse taste buds. Hirose F, et al. Sci Rep, 2020 Feb 6. PMID 32029864, Free PMC Article
  2. Olfactory sensory neuron-specific and sexually dimorphic expression of protocadherin 20. Lee W, et al. J Comp Neurol, 2008 Mar 1. PMID 18095321
  3. Molecular and Neural Functions of Rai1, the Causal Gene for Smith-Magenis Syndrome. Huang WH, et al. Neuron, 2016 Oct 19. PMID 27693255, Free PMC Article
  4. Secreted TARSH regulates olfactory mitral cell dendritic complexity. Cheng TW, et al. Eur J Neurosci, 2009 Mar. PMID 19302145, Free PMC Article
  5. Sensory Neuron Diversity in the Inner Ear Is Shaped by Activity. Shrestha BR, et al. Cell, 2018 Aug 23. PMID 30078709, Free PMC Article

See all (20) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Expression of protocadherin-20 in mouse taste buds.
    Title: Expression of protocadherin-20 in mouse taste buds.
  2. The gender difference in PCDH20 expression may reflect olfactory receptor expression differences for gender-specific social discrimination
    Title: Olfactory sensory neuron-specific and sexually dimorphic expression of protocadherin 20.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (3) 

General gene information

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Homology

Gene Ontology Provided by MGI

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
located_in membrane IEA
Inferred from Electronic Annotation
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
protocadherin-20
Names
protocadherin 13

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_178685.5 → NP_848800.3  protocadherin-20 precursor

    See identical proteins and their annotated locations for NP_848800.3

    Status: REVIEWED

    Source sequence(s)
    AC164553, AK083114, BC079605
    Consensus CDS
    CCDS27306.1
    UniProtKB/Swiss-Prot
    E9QK76, Q8BIV2, Q8BIZ0
    UniProtKB/TrEMBL
    B2RWR1
    Related
    ENSMUSP00000054774.6, ENSMUST00000061628.7
    Conserved Domains (3) summary
    cd11304
    Location:541 → 636
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08266
    Location:70 → 153
    Cadherin_2; Cadherin-like
    cl29226
    Location:490 → 534
    Cadherin; Cadherin domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000080.7 Reference GRCm39 C57BL/6J

    Range
    88702183..88708832 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036158574.1 → XP_036014467.1  protocadherin-20 isoform X1

    UniProtKB/Swiss-Prot
    E9QK76, Q8BIV2, Q8BIZ0
    UniProtKB/TrEMBL
    B2RWR1
    Related
    ENSMUSP00000141860.2, ENSMUST00000192557.2
    Conserved Domains (3) summary
    cd11304
    Location:541 → 636
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08266
    Location:70 → 153
    Cadherin_2; Cadherin-like
    cl29226
    Location:490 → 534
    Cadherin; Cadherin domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8BIZ0.3 GenPept UniProtKB/Swiss-Prot:Q8BIZ0

Gene LinkOut

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