About   Help   FAQ
Gpcpd1 Gene Detail
Summary
  • Symbol
    Gpcpd1
  • Name
    glycerophosphocholine phosphodiesterase 1
  • Synonyms
    2310004G06Rik, 2310032D16Rik, mKIAA1434, Prei4
  • Feature Type
    protein coding gene
  • IDs
    MGI:104898
    NCBI Gene: 74182
  • Alliance
    genome feature page
  • Transcription Start Sites
    4 TSS
Location &
Maps
more
  • Sequence Map
    Chr2:132371002-132420173 bp, - strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 2, 64.57 cM, cytoband F3
  • Mapping Data
    4 experiments
Strain
Comparison
more
  • SNPs within 2kb
    982 from dbSNP Build 142
  • Strain Annotations
    19
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_104898
 protein coding gene Chr2:132371002-132429649 (-)
129S1/SvImJ ENSMUSG00200046029
 protein coding gene Chr2:129413501-129457705 (-)
A/J ENSMUSG00195027773
 protein coding gene Chr2:129447426-129491652 (-)
AKR/J ENSMUSG00220043385
 protein coding gene Chr2:129209205-129253647 (-)
BALB/cJ ENSMUSG00180044971
 protein coding gene Chr2:129265944-129310165 (-)
C3H/HeJ ENSMUSG00175039940
 protein coding gene Chr2:129799552-129843725 (-)
C57BL/6NJ ENSMUSG00215021328
 protein coding gene Chr2:129295366-129339584 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0024341
 protein coding gene Chr2:125310943-125365161 (-)
CAST/EiJ ENSTCUG00005038939
 protein coding gene Chr2:128575127-128619174 (-)
CBA/J ENSMUSG00210029248
 protein coding gene Chr2:129656023-129700194 (-)
DBA/2J ENSMUSG00185034099
 protein coding gene Chr2:129307234-129351452 (-)
FVB/NJ ENSMUSG00205030644
 protein coding gene Chr2:128474538-128518715 (-)
JF1/MsJ ENSUMUG00000012302
 protein coding gene Chr2:129110556-129154830 (-)
LP/J ENSMUSG00230038517
 protein coding gene Chr2:131048556-131092766 (-)
NOD/ShiLtJ ENSMUSG00190013024
 protein coding gene Chr2:129388449-129432666 (-)
NZO/HlLtJ ENSMUSG00225026768
 protein coding gene Chr2:138959459-139003631 (-)
PWK/PhJ ENSLUMG00010040383
 protein coding gene Chr2:129117046-129160947 (-)
SPRET/EiJ ENSMSPG00010025726
 protein coding gene Chr2:131486455-131537094 (-)
WSB/EiJ ENSIUOG00005039930
 protein coding gene Chr2:129229330-129273759 (-)



Homology
more
  • Human Ortholog
    GPCPD1, glycerophosphocholine phosphodiesterase 1
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    GPCPD1, glycerophosphocholine phosphodiesterase 1
  • Synonyms
    EDI3, GDE5, GDPD6, PREI4
  • Links
    NCBI Gene ID: 56261
    UniProt: Q9NPB8

  • Chr Location
    20p12.3; chr20:5544404-5611045 (-)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    19 phenotypes from 2 alleles in 4 genetic backgrounds
    14 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.
Mice with loss of expression in muscles display age-related impaired glucose tolerance, accumulation of glycerophosphocholine in muslces, and increased glucose uptake by muscles.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    15
  • GO References
    7
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
    612
  • Tissues
    6
  • cDNA Data
    23
  • Literature Summary
    3
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 74182 NCBI Gene Model | MGI Sequence Detail 49172 C57BL/6J ±  kb
    transcript NM_001355649 RefSeq | MGI Sequence Detail 3725 C57BL/6  
    polypeptide Q8C0L9 UniProt | EBI | MGI Sequence Detail 675 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    • UniProt
      8 Sequences
    • Protein Ontology
      PR:000031695 glycerophosphocholine phosphodiesterase GPCPD1
      (term hierarchy)
    • EC
      3.1.4.2
    • InterPro Domains
      IPR013784 Carbohydrate-binding-like fold
      IPR002044 Carbohydrate binding module family 20
      IPR034839 Glycerophosphocholine phosphodiesterase GPCPD1, CBM20 domain
      IPR051578 Glycerophosphodiester Phosphodiesterase
      IPR030395 Glycerophosphodiester phosphodiesterase domain
      IPR057506 GPCPD1-like, C2 domain
      IPR013783 Immunoglobulin-like fold
      IPR017946 PLC-like phosphodiesterase, TIM beta/alpha-barrel domain superfamily
    • GlyGen
      Q8C0L9 1 site, 1 O-linked glycan (1 site)
    Molecular
    Reagents
    less
    • All nucleic 27
      cDNA 24
      Primer pair 2
      Other 1

      Microarray probesets 6
    Other
    Accession IDs
    less
    MGD-MRK-29051, MGI:1916759, MGI:1921432
    References
    more
    • Summaries
      All 52
      Developmental Gene Expression 3
      Gene Ontology 7
      Phenotypes 14
    • Earliest
      J:109968 Roderick TH, et al., Nineteen paracentric chromosomal inversions in mice. Genetics. 1974 Jan;76(1):109-17
    • Latest
      J:371358 Chen S, et al., Role of Gpcpd1 in intestinal alpha-glycerophosphocholine metabolism and trimethylamine N-oxide production. J Biol Chem. 2024 Nov 5;300(12):107965
    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
    Warranty Disclaimer, Privacy Notice, Licensing, & Copyright
    Send questions and comments to User Support.     		last database update
    09/01/2026
    MGI 6.24     		The Jackson Laboratory