U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    Pcdh20 protocadherin 20 [ Mus musculus (house mouse) ]

    Gene ID: 219257, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Pcdh20 in Genome Data Viewer
    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

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Olfactory sensory neuron-specific and sexually dimorphic expression of protocadherin 20. Lee W, et al. J Comp Neurol, 2008 Mar 1. PMID 18095321
    2. Expression of protocadherin-20 in mouse taste buds. Hirose F, et al. Sci Rep, 2020 Feb 6. PMID 32029864, Free PMC Article
    3. Secreted TARSH regulates olfactory mitral cell dendritic complexity. Cheng TW, et al. Eur J Neurosci, 2009 Mar. PMID 19302145, Free PMC Article
    4. 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
    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 (23) 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

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    General gene information

    Go to the top of the page Help

    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
    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

    Go to the top of the page Help
    Preferred Names
    protocadherin-20
    Names
    protocadherin 13

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools