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Pcdha4 Gene Detail
Summary
  • Symbol
    Pcdha4
  • Name
    protocadherin alpha 4
  • Synonyms
    Cnr1, Crnr1
  • Feature Type
    protein coding gene
  • IDs
    MGI:1298406
    NCBI Gene: 12936
  • Member of
    Pcdha cluster
  • Alliance
    gene page
  • Transcription Start Sites
    1 TSS
Location &
Maps
more
  • Sequence Map
    Chr18:37085742-37320710 bp, + strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 18, 19.46 cM
  • Mapping Data
    5 experiments
Strain
Comparison
more
  • SNPs within 2kb
    6179 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1298406
 protein coding gene Chr18:37085701-37320714 (+)
129S1/SvImJ MGP_129S1SvImJ_G0024297
 protein coding gene Chr18:35360932-35583239 (+)
A/J MGP_AJ_G0024263
 protein coding gene Chr18:34128739-34357519 (+)
AKR/J MGP_AKRJ_G0024231
 protein coding gene Chr18:35099637-35313395 (+)
BALB/cJ MGP_BALBcJ_G0024263
 protein coding gene Chr18:34176741-34406366 (+)
C3H/HeJ MGP_C3HHeJ_G0024030
 protein coding gene Chr18:35147133-35358179 (+)
C57BL/6NJ MGP_C57BL6NJ_G0024704
 protein coding gene Chr18:36611092-36867652 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0022144
 protein coding gene Chr18:34223850-34436130 (+)
CAST/EiJ MGP_CASTEiJ_G0023505
 protein coding gene Chr18:35146902-35356127 (+)
CBA/J MGP_CBAJ_G0023998
 protein coding gene Chr18:37691405-37945882 (+)
DBA/2J MGP_DBA2J_G0024130
 protein coding gene Chr18:33743421-33963732 (+)
FVB/NJ MGP_FVBNJ_G0024096
 protein coding gene Chr18:33457550-33689543 (+)
LP/J MGP_LPJ_G0024212
 protein coding gene Chr18:35415035-35676926 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0024125
 protein coding gene Chr18:38941141-39218919 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0024753
 protein coding gene Chr18:34952975-35180648 (+)
PWK/PhJ MGP_PWKPhJ_G0023249
 protein coding gene Chr18:33985565-34203483 (+)
SPRET/EiJ MGP_SPRETEiJ_G0023057
 protein coding gene Chr18:35231712-35441756 (+)
WSB/EiJ MGP_WSBEiJ_G0023568
 protein coding gene Chr18:34861725-35081777 (+)



Homology
more
  • Human Ortholog
    PCDHA4, protocadherin alpha 4
  • Vertebrate Orthologs
    12
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    PCDHA4, protocadherin alpha 4
  • Synonyms
    CNR1, CNRN1, CRNR1, PCDH-ALPHA4
  • Links
    NCBI Gene ID: 56144
    neXtProt AC: NX_Q9UN74
    UniProt: Q9UN74

  • Chr Location
    5q31.3; chr5:140807037-141012347 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    6 phenotype references
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    17
  • GO References
    7
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
    770
  • Tissues
    26
  • cDNA Data
    11
  • Literature Summary
    11
Sequences &
Gene Models
less
Representative SequencesLengthStrain/SpeciesFlank
genomic 12936 NCBI Gene Model | MGI Sequence Detail 234969 C57BL/6J ±  kb
transcript NM_007766 RefSeq | MGI Sequence Detail 5367 C57BL/6  
polypeptide O88689 UniProt | EBI | MGI Sequence Detail 947 Not Applicable  
For the selected sequence
Protein
Information
less
Molecular
Reagents
less
  • All nucleic 21
    Genomic 2
    cDNA 12
    Primer pair 6
    Other 1

    Microarray probesets 1
Other
Accession IDs
less
MGI:2147421
References
more
  • Summaries
    All 43
    Developmental Gene Expression 11
    Gene Ontology 7
    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
11/12/2024
MGI 6.24 		The Jackson Laboratory