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Pcdh1 Gene Detail
Summary
  • Symbol
    Pcdh1
  • Name
    protocadherin 1
  • Synonyms
    2010005A06Rik
  • Feature Type
    protein coding gene
  • IDs
    MGI:104692
    NCBI Gene: 75599
  • Alliance
    gene page
  • Transcription Start Sites
    10 TSS
Location &
Maps
more
  • Sequence Map
    Chr18:38318967-38345023 bp, - strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 18, 20.08 cM
  • Mapping Data
    3 experiments
Strain
Comparison
more
  • SNPs within 2kb
    409 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_104692
 protein coding gene Chr18:38318967-38345106 (-)
129S1/SvImJ MGP_129S1SvImJ_G0024359
 protein coding gene Chr18:36619556-36645687 (-)
A/J MGP_AJ_G0024326
 protein coding gene Chr18:35357051-35383184 (-)
AKR/J MGP_AKRJ_G0024295
 protein coding gene Chr18:36320702-36346822 (-)
BALB/cJ MGP_BALBcJ_G0024326
 protein coding gene Chr18:35422307-35448443 (-)
C3H/HeJ MGP_C3HHeJ_G0024092
 protein coding gene Chr18:36390441-36416578 (-)
C57BL/6NJ MGP_C57BL6NJ_G0024768
 protein coding gene Chr18:37926839-37952483 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0022207
 protein coding gene Chr18:35377106-35403325 (-)
CAST/EiJ MGP_CASTEiJ_G0023567
 protein coding gene Chr18:36341387-36369986 (-)
CBA/J MGP_CBAJ_G0024062
 protein coding gene Chr18:39049523-39075643 (-)
DBA/2J MGP_DBA2J_G0024192
 protein coding gene Chr18:34956717-34982888 (-)
FVB/NJ MGP_FVBNJ_G0024158
 protein coding gene Chr18:34677491-34704910 (-)
LP/J MGP_LPJ_G0024276
 protein coding gene Chr18:36686277-36712367 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0024189
 protein coding gene Chr18:40294002-40320109 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0024817
 protein coding gene Chr18:36193589-36219701 (-)
PWK/PhJ MGP_PWKPhJ_G0023311
 protein coding gene Chr18:35171097-35205936 (-)
SPRET/EiJ MGP_SPRETEiJ_G0023116
 protein coding gene Chr18:36405110-36433237 (-)
WSB/EiJ MGP_WSBEiJ_G0023630
 protein coding gene Chr18:36093259-36119455 (-)



Homology
more
  • Human Ortholog
    PCDH1, protocadherin 1
  • Vertebrate Orthologs
    4
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    PCDH1, protocadherin 1
  • Synonyms
    PC42, PCDH42
  • Links
    NCBI Gene ID: 5097
    neXtProt AC: NX_Q08174
    UniProt: Q08174

  • Chr Location
    5q31.3; chr5:141853090-141879246 (-)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    1 phenotype from 1 allele in 1 genetic background
    8 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    11
  • GO References
    4
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
    847
  • Tissues
    112
  • cDNA Data
    5
  • Literature Summary
    7
Sequences &
Gene Models
less
Representative SequencesLengthStrain/SpeciesFlank
genomic 75599 NCBI Gene Model | MGI Sequence Detail 26057 C57BL/6J ±  kb
transcript NM_001403795 RefSeq | MGI Sequence Detail 7490 ZRU/MplStud  
polypeptide NP_001390724 RefSeq | MGI Sequence Detail 1216 ZRU/MplStud  
For the selected sequence
Protein
Information
less
Molecular
Reagents
less
  • All nucleic 8
    cDNA 5
    Primer pair 2
    Other 1

    Microarray probesets 4
Other
Accession IDs
less
MGD-MRK-27055, MGI:1922849, MGI:2147243
References
more
  • Summaries
    All 34
    Developmental Gene Expression 7
    Gene Ontology 4
    Phenotypes 8
  • Earliest
    J:29362 Sago H, et al., Cloning, expression, and chromosomal localization of a novel cadherin-related protein, protocadherin-3. Genomics. 1995 Oct 10;29(3):631-40
  • Latest
    J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136
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