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Pcdha5 Gene Detail
Summary
  • Symbol
    Pcdha5
  • Name
    protocadherin alpha 5
  • Synonyms
    Cnr6, Crnr6
  • Feature Type
    protein coding gene
  • IDs
    MGI:1298371
    NCBI Gene: 12941
  • Member of
    Pcdha cluster
  • Alliance
    gene page
  • Transcription Start Sites
    1 TSS
Location &
Maps
more
  • Sequence Map
    Chr18:37093493-37320710 bp, + strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 18, 19.46 cM
  • Mapping Data
    2 experiments
Strain
Comparison
more
  • SNPs within 2kb
    5911 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1298371
 protein coding gene Chr18:37093329-37320716 (+)
129S1/SvImJ MGP_129S1SvImJ_G0024299
 protein coding gene Chr18:35373735-35583235 (+)
A/J MGP_AJ_G0024265
 protein coding gene Chr18:34136539-34357515 (+)
AKR/J MGP_AKRJ_G0024233
 protein coding gene Chr18:35107437-35313391 (+)
BALB/cJ MGP_BALBcJ_G0024265
 protein coding gene Chr18:34184557-34406362 (+)
C3H/HeJ MGP_C3HHeJ_G0024032
 protein coding gene Chr18:35154937-35358175 (+)
C57BL/6NJ MGP_C57BL6NJ_G0024706
 protein coding gene Chr18:36619213-36867648 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0022146
 protein coding gene Chr18:34231684-34436126 (+)
CAST/EiJ MGP_CASTEiJ_G0023507
 protein coding gene Chr18:35156182-35356123 (+)
CBA/J MGP_CBAJ_G0024000
 protein coding gene Chr18:37702352-37945878 (+)
DBA/2J MGP_DBA2J_G0024132
 protein coding gene Chr18:33751265-33963728 (+)
FVB/NJ MGP_FVBNJ_G0024098
 protein coding gene Chr18:33465330-33689539 (+)
LP/J MGP_LPJ_G0024215
 protein coding gene Chr18:35422823-35676922 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0024127
 protein coding gene Chr18:38951334-39218915 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0024755
 protein coding gene Chr18:34960775-35180644 (+)
PWK/PhJ MGP_PWKPhJ_G0023251
 protein coding gene Chr18:33993492-34203479 (+)
SPRET/EiJ MGP_SPRETEiJ_G0023059
 protein coding gene Chr18:35235106-35441752 (+)
WSB/EiJ MGP_WSBEiJ_G0023570
 protein coding gene Chr18:34871116-35081773 (+)



Homology
more
  • Human Ortholog
    PCDHA5, protocadherin alpha 5
  • Vertebrate Orthologs
    14
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    PCDHA5, protocadherin alpha 5
  • Synonyms
    CNR6, CNRN6, CNRS6, CRNR6, PCDH-ALPHA5
  • Links
    NCBI Gene ID: 56143
    neXtProt AC: NX_Q9Y5H7
    UniProt: Q9Y5H7

  • Chr Location
    5q31.3; chr5:140821604-141012347 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    6 phenotype references
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    3
  • GO References
    2
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    726
  • Tissues
    14
  • cDNA Data
    4
  • Literature Summary
    7
Sequences &
Gene Models
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Representative SequencesLengthStrain/SpeciesFlank
genomic ENSMUSG00000103092 Ensembl Gene Model | MGI Sequence Detail 227218 C57BL/6J ±  kb
transcript ENSMUST00000192168 Ensembl | MGI Sequence Detail 5206 Not Applicable  
polypeptide ENSMUSP00000142293 Ensembl | MGI Sequence Detail 934 Not Applicable  
For the selected sequence
Protein
Information
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  • UniProt
    2 Sequences
  • InterPro Domains
    IPR020894 Cadherin conserved site
    IPR031904 Cadherin, C-terminal catenin-binding domain
    IPR002126 Cadherin-like
    IPR015919 Cadherin-like superfamily
    IPR013164 Cadherin, N-terminal
    IPR050174 Protocadherin/Cadherin-related Cell Adhesion
  • GlyGen
    Q91Y15 2 sites, 2 N-linked glycans (2 sites)
Molecular
Reagents
less
  • All nucleic 11
    Genomic 2
    cDNA 4
    Primer pair 4
    Other 1

    Microarray probesets 1
References
more
  • Summaries
    All 28
    Developmental Gene Expression 7
    Gene Ontology 2
    Phenotypes 6
  • Earliest
    J:48282 Kohmura N, et al., Diversity revealed by a novel family of cadherins expressed in neurons at a synaptic complex. Neuron. 1998 Jun;20(6):1137-51
  • Latest
    J:332241 Kobayashi H, et al., Isoform requirement of clustered protocadherin for preventing neuronal apoptosis and neonatal lethality. iScience. 2023 Jan 20;26(1):105766
Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources
Funding Information
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Send questions and comments to User Support. 		last database update
12/10/2024
MGI 6.24 		The Jackson Laboratory