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Pcdha6 Gene Detail
Summary
  • Symbol
    Pcdha6
  • Name
    protocadherin alpha 6
  • Synonyms
    Cnr2, Crnr2
  • Feature Type
    protein coding gene
  • IDs
    MGI:1298367
    NCBI Gene: 12937
  • Member of
    Pcdha cluster
  • Alliance
    gene page
  • Transcription Start Sites
    1 TSS
Location &
Maps
more
  • Sequence Map
    Chr18:37100684-37320710 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
    1700 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1298367
 protein coding gene Chr18:37100678-37321950 (+)
129S1/SvImJ MGP_129S1SvImJ_G0024300
 protein coding gene Chr18:35380864-35583235 (+)
A/J MGP_AJ_G0024266
 protein coding gene Chr18:34143652-34357515 (+)
AKR/J MGP_AKRJ_G0024234
 protein coding gene Chr18:35114584-35313391 (+)
BALB/cJ MGP_BALBcJ_G0024266
 protein coding gene Chr18:34191694-34406362 (+)
C3H/HeJ MGP_C3HHeJ_G0024033
 protein coding gene Chr18:35162068-35358175 (+)
C57BL/6NJ MGP_C57BL6NJ_G0024707
 protein coding gene Chr18:36629695-36867648 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0022147
 protein coding gene Chr18:34238886-34436126 (+)
CAST/EiJ MGP_CASTEiJ_G0023508
 protein coding gene Chr18:35163321-35356123 (+)
CBA/J MGP_CBAJ_G0024001
 protein coding gene Chr18:37710533-37945878 (+)
DBA/2J MGP_DBA2J_G0024133
 protein coding gene Chr18:33758418-33963728 (+)
FVB/NJ MGP_FVBNJ_G0024099
 protein coding gene Chr18:33472430-33689539 (+)
LP/J MGP_LPJ_G0024213
 protein coding gene Chr18:35415090-35425472 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0024128
 protein coding gene Chr18:38959666-39218915 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0024756
 protein coding gene Chr18:34967904-35180644 (+)
PWK/PhJ MGP_PWKPhJ_G0023252
 protein coding gene Chr18:34000941-34203479 (+)
SPRET/EiJ MGP_SPRETEiJ_G0023067
 protein coding gene Chr18:35395716-35441752 (+)
WSB/EiJ MGP_WSBEiJ_G0023571
 protein coding gene Chr18:34878267-35081773 (+)



Homology
more
  • Human Ortholog
    PCDHA6, protocadherin alpha 6
  • Vertebrate Orthologs
    11
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    PCDHA6, protocadherin alpha 6
  • Synonyms
    CNR2, CNRN2, CNRS2, CRNR2, PCDH-ALPHA6
  • Links
    NCBI Gene ID: 56142
    neXtProt AC: NX_Q9UN73
    UniProt: Q9UN73

  • Chr Location
    5q31.3; chr5:140827958-141012347 (+)  GRCh38
  • Human Ortholog
    PCDHA8, protocadherin alpha 8
  • Synonyms
    PCDH-ALPHA8
  • Links
    NCBI Gene ID: 56140
    neXtProt AC: NX_Q9Y5H6
    UniProt: Q9Y5H6

  • Chr Location
    5q31.3; chr5:140841187-141012347 (+)  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
non-membrane-bounded 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
    724
  • Tissues
    14
  • cDNA Data
    3
  • Literature Summary
    8
Sequences &
Gene Models
less
Representative SequencesLengthStrain/SpeciesFlank
genomic ENSMUSG00000103707 Ensembl Gene Model | MGI Sequence Detail 220027 C57BL/6J ±  kb
transcript ENSMUST00000193777 Ensembl | MGI Sequence Detail 5367 Not Applicable  
polypeptide ENSMUSP00000141587 Ensembl | MGI Sequence Detail 946 Not Applicable  
For the selected sequence
Protein
Information
less
Molecular
Reagents
less
  • All nucleic 8
    Genomic 2
    cDNA 3
    Primer pair 2
    Other 1

    Microarray probesets 1
References
more
  • Summaries
    All 28
    Developmental Gene Expression 8
    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
04/16/2024
MGI 6.23 		The Jackson Laboratory