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    Pcdh17 protocadherin 17 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 306055, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Pcdh17provided by RGD
    Official Full Name
    protocadherin 17provided by RGD
    Primary source
    RGD:1304753
    See related
    EnsemblRapid:ENSRNOG00000008970 AllianceGenome:RGD:1304753
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable calcium ion binding activity. Predicted to be involved in synaptic membrane adhesion. Predicted to act upstream of or within several processes, including negative regulation of synaptic transmission; presynaptic active zone assembly; and regulation of synaptic vesicle clustering. Predicted to be active in GABA-ergic synapse; glutamatergic synapse; and synaptic membrane. Orthologous to human PCDH17 (protocadherin 17). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 99.4), Brain (RPKM 89.2) and 7 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Pcdh17 in Genome Data Viewer
    Location:
    15q12
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (66631549..66725007)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (60222088..60316172)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (67555835..67647990)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA17 Neighboring gene small nucleolar RNA U3 Neighboring gene uncharacterized LOC108352949 Neighboring gene uncharacterized LOC120097053 Neighboring gene U6 spliceosomal RNA

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Protocadherin 17 regulates presynaptic assembly in topographic corticobasal Ganglia circuits. Hoshina N, et al. Neuron, 2013 Jun 5. PMID 23684785
    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

    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
    acts_upstream_of_or_within adult behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    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
    		  
    acts_upstream_of_or_within negative regulation of synaptic transmission ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within presynaptic active zone assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of synaptic vesicle clustering ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in synaptic membrane adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in GABA-ergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in postsynaptic membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in presynaptic membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    protocadherin-17

    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_001431447.1 → NP_001418376.1  protocadherin-17 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015
      UniProtKB/TrEMBL
      A6HU20, D3ZPN0

    2. NM_001431448.1 → NP_001418377.1  protocadherin-17 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015
      UniProtKB/TrEMBL
      A6HU20, D3ZPN0

    3. NM_001431449.1 → NP_001418378.1  protocadherin-17 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015
      UniProtKB/TrEMBL
      A6HU20, D3ZPN0

    4. NM_001431450.1 → NP_001418379.1  protocadherin-17 isoform 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015
      UniProtKB/TrEMBL
      A0A8I5ZPT5, A6HU20, D3ZPN0

    5. NM_001431451.1 → NP_001418380.1  protocadherin-17 isoform 5

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015
      UniProtKB/TrEMBL
      A6HU20, D3ZPN0

    6. NM_001431452.1 → NP_001418381.1  protocadherin-17 isoform 6

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015
      UniProtKB/TrEMBL
      A6HU20, D3ZPN0

    7. NM_001431453.1 → NP_001418382.1  protocadherin-17 isoform 7

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015
      UniProtKB/TrEMBL
      A0A8I5ZZ04, A6HU20, D3ZPN0

    RNA

    1. NR_197215.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015

    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_086033.1 Reference GRCr8

      Range
      66631549..66725007
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063274313.1 → XP_063130383.1  protocadherin-17 isoform X10

    2. XM_006252377.5 → XP_006252439.1  protocadherin-17 isoform X1

      Related
      ENSRNOP00000084215.2, ENSRNOT00000103578.2
      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

    3. XM_006252379.4 → XP_006252441.1  protocadherin-17 isoform X3

      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

    4. XM_006252378.5 → XP_006252440.1  protocadherin-17 isoform X2

      UniProtKB/TrEMBL
      A6HU20, D3ZPN0
      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

    5. XM_063274309.1 → XP_063130379.1  protocadherin-17 isoform X4

    6. XM_063274310.1 → XP_063130380.1  protocadherin-17 isoform X5

      UniProtKB/TrEMBL
      A6HU20, D3ZPN0

    7. XM_063274311.1 → XP_063130381.1  protocadherin-17 isoform X6

    8. XM_063274312.1 → XP_063130382.1  protocadherin-17 isoform X8

    9. XM_006252381.5 → XP_006252443.1  protocadherin-17 isoform X7

      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

    10. XM_039093360.2 → XP_038949288.1  protocadherin-17 isoform X9

      UniProtKB/TrEMBL
      A6HU20, D3ZPN0
      Conserved Domains (2) summary
      cd11304
      Location:248 → 348
      Cadherin_repeat; Cadherin tandem repeat domain
      pfam08266
      Location:21 → 113
      Cadherin_2; Cadherin-like

    11. XM_063274314.1 → XP_063130384.1  protocadherin-17 isoform X11

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001107279.1: Suppressed sequence

      Description
      NM_001107279.1: This RefSeq was removed because currently there is insufficient support for the transcript.
    Nucleotide Protein Strain
    Heading Accession and Version

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