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Pcdh15 protocadherin 15 [ Mus musculus (house mouse) ]

Gene ID: 11994, updated on 28-May-2016
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; roda; Ush1f; nmf19; Gm9815; BB078305; ENSMUSG00000046980
Orthologs
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 bundle assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
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 
stereocilium bundle 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
    Related
    ENSMUSP00000101064, OTTMUSP00000058289, ENSMUST00000105424, OTTMUST00000104199
    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
    Related
    ENSMUSP00000122911, OTTMUSP00000023314, ENSMUST00000131321, OTTMUST00000050064
    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
    ENSMUSP00000101069, OTTMUSP00000058292, ENSMUST00000105429, OTTMUST00000104202
    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
    Related
    ENSMUSP00000122940, OTTMUSP00000058288, ENSMUST00000147189, OTTMUST00000104198
    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
    Related
    ENSMUSP00000121939, OTTMUSP00000058281, ENSMUST00000126920, OTTMUST00000104187
    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
    Related
    ENSMUSP00000090076, OTTMUSP00000058290, ENSMUST00000092420, OTTMUST00000104200
    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
    Related
    ENSMUSP00000117731, OTTMUSP00000023312, ENSMUST00000129404, OTTMUST00000050061
    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
    Related
    ENSMUSP00000135501, OTTMUSP00000058295, ENSMUST00000177107, OTTMUST00000104208
    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 details...

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
    Related
    ENSMUSP00000142173, OTTMUSP00000069008, ENSMUST00000193739, OTTMUST00000128229
    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
    Conserved Domains (1) summary
    cd11304
    Location:727820
    Cadherin_repeat; Cadherin tandem repeat domain
  5. XM_006513148.2XP_006513211.1  

    Conserved Domains (1) summary
    cd11304
    Location:727820
    Cadherin_repeat; Cadherin tandem repeat domain
  6. XM_006513149.2XP_006513212.1  

    Conserved Domains (1) summary
    cd11304
    Location:727820
    Cadherin_repeat; Cadherin tandem repeat domain
  7. XM_006513151.2XP_006513214.1  

    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)