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Pcdha12 Gene Detail
Summary
  • Symbol
    Pcdha12
  • Name
    protocadherin alpha 12
  • Synonyms
    Cnr5, Crnr5, Pcdha13
  • Feature Type
    protein coding gene
  • IDs
    MGI:1298370
    NCBI Gene: 192164
  • Member of
    Pcdha cluster
  • Alliance
    gene page
  • Transcription Start Sites
    1 TSS
Location &
Maps
more
  • Sequence Map
    Chr18:37153283-37320710 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
    2 experiments
Strain
Comparison
more
  • SNPs within 2kb
    4251 from dbSNP Build 142
  • Strain Annotations
    16
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1298370
 protein coding gene Chr18:37153202-37320710 (+)
129S1/SvImJ MGP_129S1SvImJ_G0024307
 protein coding gene Chr18:35426236-35583235 (+)
A/J MGP_AJ_G0024274
 protein coding gene Chr18:34197835-34357515 (+)
AKR/J MGP_AKRJ_G0024242
 protein coding gene Chr18:35159250-35313391 (+)
BALB/cJ MGP_BALBcJ_G0024273
 protein coding gene Chr18:34247142-34406362 (+)
C3H/HeJ MGP_C3HHeJ_G0024040
 protein coding gene Chr18:35211552-35358175 (+)
C57BL/6NJ MGP_C57BL6NJ_G0024715
 protein coding gene Chr18:36694064-36867648 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0022154
 protein coding gene Chr18:34284393-34436126 (+)
CAST/EiJ MGP_CASTEiJ_G0023515
 protein coding gene Chr18:35214054-35356123 (+)
CBA/J MGP_CBAJ_G0024009
 protein coding gene Chr18:37780234-37945878 (+)
DBA/2J no annotation
FVB/NJ MGP_FVBNJ_G0024106
 protein coding gene Chr18:33527965-33689539 (+)
LP/J MGP_LPJ_G0024223
 protein coding gene Chr18:35501079-35676922 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0024135
 protein coding gene Chr18:39029473-39218915 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0024764
 protein coding gene Chr18:35031001-35180644 (+)
PWK/PhJ no annotation
SPRET/EiJ MGP_SPRETEiJ_G0023064
 protein coding gene Chr18:35280553-35441752 (+)
WSB/EiJ MGP_WSBEiJ_G0023578
 protein coding gene Chr18:34932616-35081773 (+)



Homology
more
  • Human Ortholog
    PCDHA13, protocadherin alpha 13
  • Vertebrate Orthologs
    9
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    PCDHA13, protocadherin alpha 13
  • Synonyms
    CNR5, CNRN5, CNRS5, CRNR5, PCDH-ALPHA13
  • Links
    NCBI Gene ID: 56136
    neXtProt AC: NX_Q9Y5I0
    UniProt: Q9Y5I0

  • Chr Location
    5q31.3; chr5:140882124-141012347 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    8 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
    727
  • Tissues
    15
  • cDNA Data
    4
  • Literature Summary
    8
Sequences &
Gene Models
less
Representative SequencesLengthStrain/SpeciesFlank
genomic 192164 NCBI Gene Model | MGI Sequence Detail 167428 C57BL/6J ±  kb
transcript NM_138663 RefSeq | MGI Sequence Detail 5254 Not Specified  
polypeptide NP_619604 RefSeq | MGI Sequence Detail 950 Not Specified  
For the selected sequence
Protein
Information
less
  • 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
    Q91Y18 1 site, 1 N-linked glycan (1 site)
Molecular
Reagents
less
  • All nucleic 12
    Genomic 3
    cDNA 4
    Primer pair 4
    Other 1

    Microarray probesets 2
References
more
  • Summaries
    All 32
    Developmental Gene Expression 8
    Gene Ontology 2
    Phenotypes 8
  • 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: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
11/12/2024
MGI 6.24 		The Jackson Laboratory