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Pcdhga9 Gene Detail
Summary
  • Symbol
    Pcdhga9
  • Name
    protocadherin gamma subfamily A, 9
  • Feature Type
    protein coding gene
  • IDs
    MGI:1935226
    NCBI Gene: 93717
  • Member of
    Pcdhg cluster
  • Alliance
    gene page
  • Transcription Start Sites
    1 TSS
Location &
Maps
more
  • Sequence Map
    Chr18:37869989-37974916 bp, + strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 18, 19.60 cM
  • Mapping Data
    2 experiments
Strain
Comparison
more
  • SNPs within 2kb
    3142 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1935226
 protein coding gene Chr18:37869989-37974923 (+)
129S1/SvImJ MGP_129S1SvImJ_G0024345
 protein coding gene Chr18:36140932-36259974 (+)
A/J MGP_AJ_G0024313
 protein coding gene Chr18:34905053-35011791 (+)
AKR/J MGP_AKRJ_G0024281
 protein coding gene Chr18:35862113-35972567 (+)
BALB/cJ MGP_BALBcJ_G0024312
 protein coding gene Chr18:34971235-35077406 (+)
C3H/HeJ MGP_C3HHeJ_G0024078
 protein coding gene Chr18:35927155-36038766 (+)
C57BL/6NJ MGP_C57BL6NJ_G0024754
 protein coding gene Chr18:37440761-37559699 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0022193
 protein coding gene Chr18:34921742-35028288 (+)
CAST/EiJ MGP_CASTEiJ_G0023554
 protein coding gene Chr18:35863895-35977831 (+)
CBA/J MGP_CBAJ_G0024048
 protein coding gene Chr18:38548901-38667940 (+)
DBA/2J MGP_DBA2J_G0024178
 protein coding gene Chr18:34506251-34611337 (+)
FVB/NJ MGP_FVBNJ_G0024144
 protein coding gene Chr18:34214801-34321588 (+)
LP/J MGP_LPJ_G0024262
 protein coding gene Chr18:36214335-36321810 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0024175
 protein coding gene Chr18:39816802-39929362 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0024803
 protein coding gene Chr18:35717240-35837201 (+)
PWK/PhJ MGP_PWKPhJ_G0023298
 protein coding gene Chr18:34709704-34819111 (+)
SPRET/EiJ MGP_SPRETEiJ_G0023103
 protein coding gene Chr18:35944863-36054327 (+)
WSB/EiJ MGP_WSBEiJ_G0023616
 protein coding gene Chr18:35620129-35737851 (+)



Homology
more
  • Human Ortholog
    PCDHGA9, protocadherin gamma subfamily A, 9
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    PCDHGA9, protocadherin gamma subfamily A, 9
  • Synonyms
    PCDH-GAMMA-A9
  • Links
    NCBI Gene ID: 56107
    neXtProt AC: NX_Q9Y5G4
    UniProt: Q9Y5G4

  • Chr Location
    5q31.3; chr5:141402778-141512975 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    4 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
    1067
  • Tissues
    16
  • cDNA Data
    4
  • Literature Summary
    4
Sequences &
Gene Models
less
Representative SequencesLengthStrain/SpeciesFlank
genomic 93717 NCBI Gene Model | MGI Sequence Detail 104928 C57BL/6J ±  kb
transcript NM_033592 RefSeq | MGI Sequence Detail 4717 C57BL/6  
polypeptide NP_291070 RefSeq | MGI Sequence Detail 932 C57BL/6  
For the selected sequence
Protein
Information
less
  • UniProt
    2 Sequences
  • PDB
    5SZN
  • InterPro Domains
    IPR020894 Cadherin conserved site
    IPR031904 Cadherin, C-terminal catenin-binding domain
    IPR032455 Cadherin, cytoplasmic C-terminal domain
    IPR002126 Cadherin-like
    IPR015919 Cadherin-like superfamily
    IPR013164 Cadherin, N-terminal
    IPR050174 Protocadherin/Cadherin-related Cell Adhesion
  • GlyGen
    Q91XX9 6 sites, 3 N-linked glycans (3 sites)
Molecular
Reagents
less
  • All nucleic 8
    Genomic 2
    cDNA 4
    Primer pair 2
References
more
  • Summaries
    All 19
    Developmental Gene Expression 4
    Gene Ontology 2
    Phenotypes 4
  • 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: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
12/10/2024
MGI 6.24 		The Jackson Laboratory