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Pcdha1 Gene Detail
Summary
  • Symbol
    Pcdha1
  • Name
    protocadherin alpha 1
  • Feature Type
    protein coding gene
  • IDs
    MGI:2150982
    NCBI Gene: 116731
  • Member of
    Pcdha cluster
  • Gene Overview
    MyGene.info: PCDHA1
  • Alliance
Location &
Maps
more
  • Sequence Map
    Chr18:36930285-37187657 bp, + strand
  • From NCBI annotation of GRCm38

    View this region in JBrowse

  • Genome Browsers
  • Genetic Map
    Chromosome 18, 19.46 cM, cytoband B3
  • Mapping Data
    2 experiments
Strain
Comparison
more
  • SNPs within 2kb
    2196 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_2150982
protein coding gene Chr18:36930184-37187661 (.)
129S1/SvImJ MGP_129S1SvImJ_G0024294
protein coding gene Chr18:35337896-35583239 (+)
A/J MGP_AJ_G0024260
protein coding gene Chr18:34106284-34357519 (+)
AKR/J MGP_AKRJ_G0024228
protein coding gene Chr18:35077175-35313395 (+)
BALB/cJ MGP_BALBcJ_G0024260
protein coding gene Chr18:34149355-34406366 (+)
C3H/HeJ MGP_C3HHeJ_G0024027
protein coding gene Chr18:35124668-35358179 (+)
C57BL/6NJ MGP_C57BL6NJ_G0024701
protein coding gene Chr18:36588628-36867652 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0022141
protein coding gene Chr18:34201108-34436130 (+)
CAST/EiJ MGP_CASTEiJ_G0023502
protein coding gene Chr18:35121109-35356127 (+)
CBA/J MGP_CBAJ_G0023995
protein coding gene Chr18:37667465-37945882 (+)
DBA/2J MGP_DBA2J_G0024127
protein coding gene Chr18:33721011-33963732 (+)
FVB/NJ MGP_FVBNJ_G0024094
protein coding gene Chr18:33433724-33689543 (+)
LP/J MGP_LPJ_G0024209
protein coding gene Chr18:35392573-35676926 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0024122
protein coding gene Chr18:38911096-39218919 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0024750
protein coding gene Chr18:34929727-35180648 (+)
PWK/PhJ MGP_PWKPhJ_G0023246
protein coding gene Chr18:33961625-34203483 (+)
SPRET/EiJ MGP_SPRETEiJ_G0023054
protein coding gene Chr18:35200071-35441756 (+)
WSB/EiJ MGP_WSBEiJ_G0023565
protein coding gene Chr18:34837837-35081777 (+)



Homology
more
  • Human Ortholog
    PCDHA1, protocadherin alpha 1
  • Vertebrate Orthologs
    4
  • Human Ortholog
    PCDHA1, protocadherin alpha 1
    Orthology source: HomoloGene
  • Synonyms
    PCDH-ALPHA1
  • Links
    NCBI Gene ID: 56147
    neXtProt AC: NX_Q9Y5I3
    UniProt: Q9Y5I3

  • Chr Location
    5q31.3; chr5:140786136-141012344 (+)  GRCh38.p7

Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    1 phenotype from 1 allele in 1 genetic background
    2 phenotype references
Mice homozygous for a null allele are viable and fertile.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
  • GO References
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 death
cell differentiation
cell proliferation
cellular component organization
establishment of localization
homeostatic process
immune system process
lipid metabolic process
nucleic acid-templated transcription
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
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
  • Tissues
  • cDNA Data
  • Literature Summary
Interactions
less
Sequences &
Gene Models
less
Representative SequencesLengthStrain/SpeciesFlank
genomic 116731 NCBI Gene Model | MGI Sequence Detail 257373 C57BL/6J ±  kb
transcript NM_054072 RefSeq | MGI Sequence Detail 5248 Not Specified  
polypeptide NP_473413 RefSeq | MGI Sequence Detail 948 Not Specified  
For the selected sequence
Protein
Information
less
Molecular
Reagents
less
  • All nucleic 6
    cDNA 5
    Primer pair 1

    Microarray probesets 1
References
more
  • Summaries
    All 24
    Developmental Gene Expression 6
    Gene Ontology 4
    Phenotypes 2
  • Earliest
    J:67989 Wu Q, et al., Comparative dna sequence analysis of mouse and human protocadherin gene clusters. Genome Res. 2001 Mar;11(3):389-404
  • Latest
    J:264145 Fan L, et al., Alpha protocadherins and Pyk2 kinase regulate cortical neuron migration and cytoskeletal dynamics via Rac1 GTPase and WAVE complex in mice. Elife. 2018 Jun 18;7

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
Citing These Resources
Funding Information
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Send questions and comments to User Support.
last database update
11/06/2018
MGI 6.13
The Jackson Laboratory