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    Pcdh17 protocadherin 17 [ Mus musculus (house mouse) ]

    Gene ID: 219228, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Pcdh17provided by MGI
    Official Full Name
    protocadherin 17provided by MGI
    Primary source
    MGI:MGI:2684924
    See related
    Ensembl:ENSMUSG00000035566 AllianceGenome:MGI:2684924
    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
    Gm78; C030033F14Rik
    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 the establishment and function of specific cell-cell connections in the brain. [provided by RefSeq, Sep 2009]
    Expression
    Broad expression in CNS E18 (RPKM 7.2), whole brain E14.5 (RPKM 5.3) and 18 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Pcdh17 in Genome Data Viewer
    Location:
    14 D3; 14 43.54 cM
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (84680626..84775005)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (84443563..84537565)

    Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 32455 Neighboring gene STARR-seq mESC enhancer starr_37315 Neighboring gene STARR-seq mESC enhancer starr_37316 Neighboring gene predicted gene, 29800 Neighboring gene STARR-seq mESC enhancer starr_37317 Neighboring gene STARR-seq mESC enhancer starr_37318 Neighboring gene predicted gene, 32498 Neighboring gene RIKEN cDNA 9630013A20 gene Neighboring gene STARR-seq mESC enhancer starr_37319 Neighboring gene SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1 pseudogene Neighboring gene STARR-seq mESC enhancer starr_37320 Neighboring gene STARR-seq mESC enhancer starr_37321 Neighboring gene STARR-seq mESC enhancer starr_37322 Neighboring gene ribosomal protein L17 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. PCDH17 restricts dendritic spine morphogenesis by regulating ROCK2-dependent control of the actin cytoskeleton, modulating emotional behavior. Yu L, et al. Zool Res, 2024 May 18. PMID 38747058, Free PMC Article
    2. Genome-wide analyses of human perisylvian cerebral cortical patterning. Abrahams BS, et al. Proc Natl Acad Sci U S A, 2007 Nov 6. PMID 17978184, Free PMC Article
    3. SP1-induced SNHG14 aggravates hypertrophic response in in vitro model of cardiac hypertrophy via up-regulation of PCDH17. Long Y, et al. J Cell Mol Med, 2020 Jul. PMID 32436661, Free PMC Article
    4. Cloning and characterization of zebrafish protocadherin-17. Biswas S, et al. Dev Genes Evol, 2009 May. PMID 19449025
    5. Protocadherin 17 regulates presynaptic assembly in topographic corticobasal Ganglia circuits. Hoshina N, et al. Neuron, 2013 Jun 5. PMID 23684785

    See all (30) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. PCDH17 restricts dendritic spine morphogenesis by regulating ROCK2-dependent control of the actin cytoskeleton, modulating emotional behavior.
      Title: PCDH17 restricts dendritic spine morphogenesis by regulating ROCK2-dependent control of the actin cytoskeleton, modulating emotional behavior.
    2. SP1-induced SNHG14 aggravates hypertrophic response in in vitro model of cardiac hypertrophy via up-regulation of PCDH17.
      Title: SP1-induced SNHG14 aggravates hypertrophic response in in vitro model of cardiac hypertrophy via up-regulation of PCDH17.
    3. Pcdh17 recruits the WAVE complex, Lamellipodin, and Ena/VASP to cell-cell contacts, converting these sites into motile structures.
      Title: Protocadherin-17 mediates collective axon extension by recruiting actin regulator complexes to interaxonal contacts.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (2)  1 citation

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    acts_upstream_of_or_within adult behavior IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within negative regulation of synaptic transmission IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within presynaptic active zone assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of synaptic vesicle clustering IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in synaptic membrane adhesion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in synaptic membrane adhesion IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in GABA-ergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in GABA-ergic synapse IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    is_active_in GABA-ergic synapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in postsynaptic membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in postsynaptic membrane IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    is_active_in presynaptic membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in presynaptic membrane IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    protocadherin-17
    Names
    protocadherin 68

    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_001013753.2 → NP_001013775.2  protocadherin-17 precursor

      Status: REVIEWED

      Source sequence(s)
      AK045478, AK046505, AK139275, AK142358, AK147265, BC089004
      Consensus CDS
      CCDS27304.1
      UniProtKB/TrEMBL
      E9PXF0, Q5HZI5
      Related
      ENSMUSP00000071325.6, ENSMUST00000071370.7
      Conserved Domains (2) summary
      cd11304
      Location:248 → 348
      Cadherin_repeat; Cadherin tandem repeat domain
      cl09101
      Location:21 → 113
      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_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
      84680626..84775005
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006518905.3 → XP_006518968.1  protocadherin-17 isoform X1

      UniProtKB/TrEMBL
      Q5HZI5
      Conserved Domains (2) summary
      cd11304
      Location:248 → 348
      Cadherin_repeat; Cadherin tandem repeat domain
      pfam08266
      Location:21 → 112
      Cadherin_2; Cadherin-like

    2. XM_006518906.5 → XP_006518969.1  protocadherin-17 isoform X2

      UniProtKB/TrEMBL
      Q5HZI5
      Conserved Domains (2) summary
      cd11304
      Location:248 → 348
      Cadherin_repeat; Cadherin tandem repeat domain
      pfam08266
      Location:21 → 112
      Cadherin_2; Cadherin-like

    3. XM_017315983.3 → XP_017171472.1  protocadherin-17 isoform X3

      UniProtKB/TrEMBL
      Q5HZI5
      Conserved Domains (2) summary
      cd11304
      Location:248 → 348
      Cadherin_repeat; Cadherin tandem repeat domain
      pfam08266
      Location:21 → 112
      Cadherin_2; Cadherin-like

    RNA

    1. XR_001781111.3 RNA Sequence

    2. XR_003950846.2 RNA Sequence

    3. XR_004938388.1 RNA Sequence

    4. XR_003950845.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

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