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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
    gene 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
    18
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 MGP_129S1SvImJ_G0026543
 protein coding gene Chr2:136123518-136189605 (-)
A/J MGP_AJ_G0026507
 protein coding gene Chr2:130578696-130637689 (-)
AKR/J MGP_AKRJ_G0026481
 protein coding gene Chr2:134349071-134411619 (-)
BALB/cJ MGP_BALBcJ_G0026519
 protein coding gene Chr2:130977023-131037302 (-)
C3H/HeJ MGP_C3HHeJ_G0026262
 protein coding gene Chr2:134786453-134844988 (-)
C57BL/6NJ MGP_C57BL6NJ_G0026964
 protein coding gene Chr2:140251282-140317725 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0024341
 protein coding gene Chr2:125310943-125365161 (-)
CAST/EiJ MGP_CASTEiJ_G0025723
 protein coding gene Chr2:135127350-135187091 (-)
CBA/J MGP_CBAJ_G0026242
 protein coding gene Chr2:145531366-145599898 (-)
DBA/2J MGP_DBA2J_G0026376
 protein coding gene Chr2:129970134-130028941 (-)
FVB/NJ MGP_FVBNJ_G0026340
 protein coding gene Chr2:128597716-128657220 (-)
LP/J MGP_LPJ_G0026480
 protein coding gene Chr2:136343811-136408555 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0026360
 protein coding gene Chr2:149278100-149339556 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0027019
 protein coding gene Chr2:134311482-134370389 (-)
PWK/PhJ MGP_PWKPhJ_G0025459
 protein coding gene Chr2:129569509-129629125 (-)
SPRET/EiJ MGP_SPRETEiJ_G0025261
 protein coding gene Chr2:133466451-133525449 (-)
WSB/EiJ MGP_WSBEiJ_G0025797
 protein coding gene Chr2:135227377-135295531 (-)



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
    neXtProt AC: NX_Q9NPB8
    UniProt: Q9NPB8

  • Chr Location
    20p12.3; chr20:5544404-5611006 (-)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    19 phenotypes from 2 alleles in 4 genetic backgrounds
    12 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
    8
  • GO References
    3
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
    721
  • 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
      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 43
      Developmental Gene Expression 3
      Gene Ontology 3
      Phenotypes 12
    • Earliest
      J:109968 Roderick TH, et al., Nineteen paracentric chromosomal inversions in mice. Genetics. 1974 Jan;76(1):109-17
    • Latest
      J:345630 Cikes D, et al., Gpcpd1-GPC metabolic pathway is dysfunctional in aging and its deficiency severely perturbs glucose metabolism. Nat Aging. 2024 Jan;4(1):80-94
    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)
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    Funding Information
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    Send questions and comments to User Support.     		last database update
    12/17/2024
    MGI 6.24     		The Jackson Laboratory