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    Pcdh15 protocadherin 15 [ Mus musculus (house mouse) ]

    Gene ID: 11994, updated on 5-Jul-2015
    Official Symbol
    Pcdh15provided by MGI
    Official Full Name
    protocadherin 15provided by MGI
    Primary source
    MGI:MGI:1891428
    See related
    Ensembl:ENSMUSG00000052613; Vega:OTTMUSG00000021142
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    av; Ush1f; nmf19; Gm9815; BB078305; ENSMUSG00000046980
    Orthologs
    See Pcdh15 in Epigenomics, MapViewer
    Location:
    10 B5.3; 10 37.43 cM
    Exon count:
    46
    Annotation release Status Assembly Chr Location
    105 current GRCm38.p3 (GCF_000001635.23) 10 NC_000076.6 (73100028..74649737)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 10 NC_000076.5 (73284615..74112482)

    Chromosome 10 - NC_000076.6Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA A330049N07 gene Neighboring gene predicted gene, 34776 Neighboring gene heterogeneous nuclear ribonucleoprotein A2/B1 pseudogene Neighboring gene TPX2, microtubule-associated protein homolog pseudogene Neighboring gene ferritin light chain 1 pseudogene Neighboring gene predicted gene, 40691 Neighboring gene high mobility group box 1-like pseudogene Neighboring gene predicted gene 6419

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    protein N-terminus binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    actin filament organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    adult locomotory behavior IMP
    Inferred from Mutant Phenotype
    more info
     
    adult walking behavior IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    auditory receptor cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    auditory receptor cell stereocilium organization IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    auditory receptor cell stereocilium organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cell adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    detection of mechanical stimulus involved in equilibrioception IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    detection of mechanical stimulus involved in sensory perception of sound IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    equilibrioception ISO
    Inferred from Sequence Orthology
    more info
     
    homophilic cell adhesion via plasma membrane adhesion molecules IEA
    Inferred from Electronic Annotation
    more info
     
    inner ear development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    inner ear receptor stereocilium organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    locomotory behavior IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    morphogenesis of an epithelium IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    multicellular organism growth IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    nonmotile primary cilium assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    photoreceptor cell maintenance ISO
    Inferred from Sequence Orthology
    more info
     
    response to calcium ion ISO
    Inferred from Sequence Orthology
    more info
     
    righting reflex IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    sensory perception of light stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    sensory perception of sound IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    sensory perception of sound IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    sensory perception of sound ISO
    Inferred from Sequence Orthology
    more info
     
    startle response IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    visual perception IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular exosome ISO
    Inferred from Sequence Orthology
    more info
     
    extracellular region IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular space ISO
    Inferred from Sequence Orthology
    more info
     
    integral component of membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    membrane IEA
    Inferred from Electronic Annotation
    more info
     
    photoreceptor outer segment IDA
    Inferred from Direct Assay
    more info
    PubMed 
    photoreceptor outer segment ISO
    Inferred from Sequence Orthology
    more info
     
    plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    stereocilium IDA
    Inferred from Direct Assay
    more info
    PubMed 
    synapse ISO
    Inferred from Sequence Orthology
    more info
     
    Preferred Names
    protocadherin-15
    Names
    Ames waltzer
    protocadherin 15 CD2
    protocadherin 15 CD3 isoform

    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_001142735.1NP_001136207.1  protocadherin-15 isoform CD1-2 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (B) lacks an alternate in-frame exon in the 5' coding region, compared to variant A. The resulting isoform (CD1-2), also known as protocadherin-15-CD1 isoform 2, lacks a 5-aa segment near the N-terminus, compared to isoform CD1-1.
      Source sequence(s)
      AC153858, AK139154, CJ166718, DQ354396
      Consensus CDS
      CCDS56715.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Conserved Domains (1) summary
      cd11304
      Location:722815
      Cadherin_repeat; Cadherin tandem repeat domain
    2. NM_001142736.1NP_001136208.1  protocadherin-15 isoform CD1-4 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (C) lacks two alternate in-frame exons in the 5' and 3' coding region, compared to variant A. The resulting isoform (CD1-4), also known as protocadherin-15-CD1 isoform 4, lacks a 5-aa segment near the N-terminus and a 2-aa segment near the C-terminus, compared to isoform CD1-1.
      Source sequence(s)
      AC153858, AK139154, CJ166718, DQ354398
      Consensus CDS
      CCDS56718.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Conserved Domains (1) summary
      cd11304
      Location:722815
      Cadherin_repeat; Cadherin tandem repeat domain
    3. NM_001142737.1NP_001136209.1  protocadherin-15 isoform CD1-6 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (D) lacks an alternate in-frame exon in the 5' coding region and two alternate in-frame exons in the central coding region, compared to variant A. The resulting isoform (CD1-6), also known as protocadherin-15-CD1 isoform 6, lacks a 5-aa segment near the N-terminus and a 71-aa segment in the central protein, compared to isoform CD1-1.
      Source sequence(s)
      AC153858, AK139154, CJ166718, DQ354400
      Consensus CDS
      CCDS56719.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Related
      ENSMUSP00000068561, ENSMUST00000064562
      Conserved Domains (1) summary
      cd11304
      Location:651744
      Cadherin_repeat; Cadherin tandem repeat domain
    4. NM_001142738.1NP_001136210.1  protocadherin-15 isoform CD1-8 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (F) lacks 4 alternate in-frame exons, compared to variant A. The resulting isoform (CD1-8), also known as protocadherin-15-CD1 isoform 8, has the same N- and C-termini but lacks four internal segments, compared to isoform CD1-1.
      Source sequence(s)
      AC153858, AK139154, CJ166718, DQ354401
      Consensus CDS
      CCDS48595.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Conserved Domains (1) summary
      cd11304
      Location:685778
      Cadherin_repeat; Cadherin tandem repeat domain
    5. NM_001142739.1NP_001136211.1  protocadherin-15 isoform CD1-9 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (G) lacks two alternate in-frame exons in the 5' coding region, compared to variant A. The resulting isoform (CD1-9), also known as protocadherin-15-CD1 isoform 9, lacks a 27-aa segment near the N-terminus, compared to isoform CD1-1.
      Source sequence(s)
      AC153858, AK139154, CJ166718, DQ354402
      Consensus CDS
      CCDS56720.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Conserved Domains (1) summary
      cd11304
      Location:700793
      Cadherin_repeat; Cadherin tandem repeat domain
    6. NM_001142740.1NP_001136212.1  protocadherin-15 isoform CD1-7 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (E) lacks three alternate in-frame exons, compared to variant A. The resulting isoform (CD1-7), also known as protocadherin-15-CD1 isoform 7, has the same N- and C-termini but lacks three internal segments, compared to isoform CD1-1.
      Source sequence(s)
      AC153858, AK139154, CJ166718, DQ354403
      Consensus CDS
      CCDS48594.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Conserved Domains (1) summary
      cd11304
      Location:722815
      Cadherin_repeat; Cadherin tandem repeat domain
    7. NM_001142741.1NP_001136213.1  protocadherin-15 isoform CD1-10 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (H) lacks three alternate in-frame exons, compared to variant A. The resulting isoform (CD1-10), also known as protocadherin-15-CD1 isoform 10, has the same N- and C-termini but lacks two internal segments, compared to isoform CD1-10.
      Source sequence(s)
      AC153858, AK139154, CJ166718, DQ354404
      Consensus CDS
      CCDS56721.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Conserved Domains (1) summary
      cd11304
      Location:700793
      Cadherin_repeat; Cadherin tandem repeat domain
    8. NM_001142742.1NP_001136214.1  protocadherin-15 isoform CD2-1 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (I) includes an alternate in-frame exon in the central coding region and has a distinct 3' splice pattern, compared to variant A. The resulting isoform (CD2-1), also known as protocadherin-15-CD2 isoform 1, includes an alternate 7-aa segment in the central coding region and has a distinct and longer C-terminus, compared to isoform CD1-1.
      Source sequence(s)
      AK139154, CJ166718, DQ354405
      Consensus CDS
      CCDS56711.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Related
      ENSMUSP00000119662, OTTMUSP00000023311, ENSMUST00000151116, OTTMUST00000050059
      Conserved Domains (1) summary
      cd11304
      Location:734827
      Cadherin_repeat; Cadherin tandem repeat domain
    9. NM_001142743.1NP_001136215.1  protocadherin-15 isoform CD2-2 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (J) lacks an alternate in-frame exon in the 5' coding region and has a distinct 3' splice pattern, compared to variant A. The resulting isoform (CD2-2), also known as protocadherin-15-CD2 isoform 2, lacks a 5-aa segment in the 5' coding region and has a distinct and longer C-terminus, compared to isoform CD1-1.
      Source sequence(s)
      AK139154, CJ166718, DQ354406
      Consensus CDS
      CCDS56716.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Related
      ENSMUSP00000122466, OTTMUSP00000023307, ENSMUST00000131724, OTTMUST00000050055
      Conserved Domains (1) summary
      cd11304
      Location:722815
      Cadherin_repeat; Cadherin tandem repeat domain
    10. NM_001142746.1NP_001136218.1  protocadherin-15 isoform CD3-1 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (K) has a distinct 3' splice pattern, compared to variant A. The resulting isoform (CD3-1), also known as protocadherin-15-CD3 isoform 1, has a distinct and longer C-terminus, compared to isoform CD1-1.
      Source sequence(s)
      AC153858, AK139154, CJ166718, CO433511, DQ354413
      Consensus CDS
      CCDS56713.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Conserved Domains (1) summary
      cd11304
      Location:727820
      Cadherin_repeat; Cadherin tandem repeat domain
    11. NM_001142747.1NP_001136219.1  protocadherin-15 isoform SI-1 precursor

      See identical proteins and their annotated locations for NP_001136219.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (M) has a distinct 3' splice pattern, compared to variant A. The resulting isoform (SI-1), also known as protocadherin-15-secreted isoform 1, has a substantially shorter and distinct C-terminus, compared to isoform CD1-1.
      Source sequence(s)
      AK139154, CJ166718
      Consensus CDS
      CCDS56712.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Related
      ENSMUSP00000135849, OTTMUSP00000058280, ENSMUST00000177420, OTTMUST00000104185
      Conserved Domains (1) summary
      cd11304
      Location:727820
      Cadherin_repeat; Cadherin tandem repeat domain
    12. NM_001142748.1NP_001136220.1  protocadherin-15 isoform SI-2 precursor

      See identical proteins and their annotated locations for NP_001136220.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (N) lacks an alternate in-frame exon in the 5' coding region and has a distinct 3' splice pattern, compared to variant A. The resulting isoform (SI-2), also known as protocadherin-15-secreted isoform 2, lacks a 5-aa segment near the N-terminus and has a substantially shorter and distinct C-terminus, compared to isoform CD1-1.
      Source sequence(s)
      CJ166718, DQ354417
      Consensus CDS
      CCDS56714.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Related
      ENSMUSP00000120056, OTTMUSP00000058282, ENSMUST00000125006, OTTMUST00000104188
      Conserved Domains (1) summary
      cd11304
      Location:722815
      Cadherin_repeat; Cadherin tandem repeat domain
    13. NM_001142760.1NP_001136232.1  protocadherin-15 isoform CD3-2 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (L) lacks an alternate in-frame exon in the 5' coding region and has a distinct 3' splice pattern, compared to variant A. The resulting isoform (CD3-2), also known as protocadherin-15-CD3 isoform 2, lacks a 5-aa segment near the N-terminus and has a distinct and longer C-terminus, compared to isoform CD1-1.
      Source sequence(s)
      AC153858, AK139154, CJ166718, CO433511, DQ354414
      Consensus CDS
      CCDS56717.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Related
      ENSMUSP00000141973, OTTMUSP00000023309, ENSMUST00000191854, OTTMUST00000050057
      Conserved Domains (1) summary
      cd11304
      Location:722815
      Cadherin_repeat; Cadherin tandem repeat domain
    14. NM_023115.3NP_075604.2  protocadherin-15 isoform CD1-1 precursor

      See identical proteins and their annotated locations for NP_075604.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (A) encodes isoform CD1-1, also known as protocadherin-15-CD1 isoform 1.
      Source sequence(s)
      AC121142, AC153858, AF281899, CJ166718
      Consensus CDS
      CCDS35934.1
      UniProtKB/Swiss-Prot
      Q99PJ1
      Related
      ENSMUSP00000141792, OTTMUSP00000023313, ENSMUST00000193361, OTTMUST00000050062
      Conserved Domains (1) summary
      cd11304
      Location:727820
      Cadherin_repeat; Cadherin tandem repeat domain

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 105

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

    Reference GRCm38.p3 C57BL/6J

    Genomic

    1. NC_000076.6 Reference GRCm38.p3 C57BL/6J

      Range
      73100028..74649737
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006513155.2XP_006513218.1  

      Conserved Domains (1) summary
      cd11304
      Location:727820
      Cadherin_repeat; Cadherin tandem repeat domain
    2. XM_006513156.2XP_006513219.1  

      UniProtKB/Swiss-Prot
      Q99PJ1
      Conserved Domains (1) summary
      cd11304
      Location:727820
      Cadherin_repeat; Cadherin tandem repeat domain
    3. XM_011243320.1XP_011241622.1  

      Conserved Domains (1) summary
      cd11304
      Location:734827
      Cadherin_repeat; Cadherin tandem repeat domain
    4. XM_006513143.2XP_006513206.1  

      See identical proteins and their annotated locations for XP_006513206.1

      UniProtKB/Swiss-Prot
      Q99PJ1
      Related
      ENSMUSP00000101064, OTTMUSP00000058289, ENSMUST00000105424, OTTMUST00000104199
      Conserved Domains (1) summary
      cd11304
      Location:727820
      Cadherin_repeat; Cadherin tandem repeat domain
    5. XM_006513148.2XP_006513211.1  

      Related
      ENSMUSP00000122911, OTTMUSP00000023314, ENSMUST00000131321, OTTMUST00000050064
      Conserved Domains (1) summary
      cd11304
      Location:727820
      Cadherin_repeat; Cadherin tandem repeat domain
    6. XM_006513149.2XP_006513212.1  

      Related
      ENSMUSP00000117731, OTTMUSP00000023312, ENSMUST00000129404, OTTMUST00000050061
      Conserved Domains (1) summary
      cd11304
      Location:727820
      Cadherin_repeat; Cadherin tandem repeat domain
    7. XM_006513151.2XP_006513214.1  

      Related
      ENSMUSP00000090076, OTTMUSP00000058290, ENSMUST00000092420, OTTMUST00000104200
      Conserved Domains (1) summary
      cd11304
      Location:727820
      Cadherin_repeat; Cadherin tandem repeat domain

    Alternate Mm_Celera

    Genomic

    1. AC_000032.1 Alternate Mm_Celera

      Range
      74887647..75712367
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)