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Gdpd2 glycerophosphodiester phosphodiesterase domain containing 2 [ Mus musculus (house mouse) ]

Gene ID: 71584, updated on 21-Apr-2024

Summary

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Official Symbol
Gdpd2provided by MGI
Official Full Name
glycerophosphodiester phosphodiesterase domain containing 2provided by MGI
Primary source
MGI:MGI:1918834
See related
Ensembl:ENSMUSG00000019359 AllianceGenome:MGI:1918834
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Gde3; Obdpf; 9130017L10Rik
Summary
This gene encodes a member of the glycerophosphodiester phosphodiesterase enzyme family. The encoded protein hydrolyzes glycerophosphoinositol to produce inositol 1-phosphate and glycerol. Overexpression of this gene is associated with activity-dependent actin cytoskeleton disorganization. The encoded protein may negatively regulate growth rate and induce differentiation of osteoblasts. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2015]
Expression
Biased expression in spleen adult (RPKM 33.6), duodenum adult (RPKM 20.7) and 13 other tissues See more
Orthologs
human all
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Genomic context

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Location:
X C3; X 43.72 cM
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (99773442..99782507)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (100729836..100738901)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene PDZ domain containing 11 Neighboring gene kinesin family member 4 Neighboring gene predicted gene, 52438 Neighboring gene STARR-seq mESC enhancer starr_47636 Neighboring gene STARR-seq mESC enhancer starr_47637 Neighboring gene predicted gene 14866 Neighboring gene predicted gene 14902 Neighboring gene CapStarr-seq enhancer MGSCv37_chrX:97972350-97972459 Neighboring gene discs large MAGUK scaffold protein 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Nitric oxide hinders club cell proliferation through Gdpd2 during allergic airway inflammation. Yue Q, et al. FEBS Open Bio, 2023 Jun. PMID 37078963, Free PMC Article
  2. Glycerophosphodiesterase 3 (GDE3) is a lysophosphatidylinositol-specific ectophospholipase C acting as an endocannabinoid signaling switch. Briand-Mésange F, et al. J Biol Chem, 2020 Nov 13. PMID 32917725, Free PMC Article
  3. The developmentally regulated osteoblast phosphodiesterase GDE3 is glycerophosphoinositol-specific and modulates cell growth. Corda D, et al. J Biol Chem, 2009 Sep 11. PMID 19596859, Free PMC Article
  4. Mammalian glycerophosphodiester phosphodiesterases. Yanaka N. Biosci Biotechnol Biochem, 2007 Aug. PMID 17690467
  5. Isolation and characterization of two serpentine membrane proteins containing glycerophosphodiester phosphodiesterase, GDE2 and GDE6. Nogusa Y, et al. Gene, 2004 Aug 4. PMID 15276213

See all (22) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Nitric oxide hinders club cell proliferation through Gdpd2 during allergic airway inflammation.
    Title: Nitric oxide hinders club cell proliferation through Gdpd2 during allergic airway inflammation.
  2. These studies uncover new physiological roles for GDE3 in gliogenesis and identify GDE3 as a key regulator of CNTF-dependent regulation of oligodendrocyte precursor proliferation through release of CNTFRalpha.
    Title: GDE3 regulates oligodendrocyte precursor proliferation via release of soluble CNTFRα.
  3. The results establish GDE3 as a negative regulator of the uPAR signaling network and, furthermore, highlight GPI-anchor hydrolysis as a cell-intrinsic mechanism to alter cell behavior.
    Title: Negative regulation of urokinase receptor activity by a GPI-specific phospholipase C in breast cancer cells.
  4. GDE3 substrate GroPIns is a candidate mediator for osteoblast proliferation
    Title: The developmentally regulated osteoblast phosphodiesterase GDE3 is glycerophosphoinositol-specific and modulates cell growth.
  5. GDE3 is a novel seven-transmembrane protein with a GP-PDE-like extracellular motif expressed during osteoblast differentiation that accelerates the program of osteoblast differentiation and is involved in morphological change of cells
    Title: Novel membrane protein containing glycerophosphodiester phosphodiesterase motif is transiently expressed during osteoblast differentiation.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (4)  1 citation
  • Endonuclease-mediated (2) 

General gene information

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Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables glycerophosphodiester phosphodiesterase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables glycerophosphoinositol inositolphosphodiesterase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables phosphoric diester hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within actin filament organization IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in lipid metabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within positive regulation of osteoblast differentiation IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within positive regulation of osteoblast differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in actin filament IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
  
located_in lamellipodium IDA
Inferred from Direct Assay
more info
 PubMed 
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
glycerophosphoinositol inositolphosphodiesterase GDPD2
Names
glycerophosphodiester phosphodiesterase 3
osteoblast differentiation promoting factor
NP_001292870.1
NP_001345436.1
NP_076097.1
XP_006528360.1
XP_030107365.1
XP_036017993.1
XP_036017994.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001305941.1 → NP_001292870.1  glycerophosphoinositol inositolphosphodiesterase GDPD2

    See identical proteins and their annotated locations for NP_001292870.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK018634, AK086508, BE948924
    Consensus CDS
    CCDS30306.1
    UniProtKB/Swiss-Prot
    Q9ESM6
    Related
    ENSMUSP00000109373.2, ENSMUST00000113744.2
    Conserved Domains (1) summary
    cl14615
    Location:198 → 500
    PI-PLCc_GDPD_SF; Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily

  2. NM_001358507.1 → NP_001345436.1  glycerophosphoinositol inositolphosphodiesterase GDPD2

    Status: REVIEWED

    Source sequence(s)
    BE948924, BX005480
    Consensus CDS
    CCDS30306.1
    UniProtKB/Swiss-Prot
    Q9ESM6
    Conserved Domains (1) summary
    cl14615
    Location:198 → 500
    PI-PLCc_GDPD_SF; Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily

  3. NM_023608.4 → NP_076097.1  glycerophosphoinositol inositolphosphodiesterase GDPD2

    See identical proteins and their annotated locations for NP_076097.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK018634, BB844010, BE948924, BX005480
    Consensus CDS
    CCDS30306.1
    UniProtKB/Swiss-Prot
    Q9ESM6
    Related
    ENSMUSP00000019503.8, ENSMUST00000019503.14
    Conserved Domains (1) summary
    cl14615
    Location:198 → 500
    PI-PLCc_GDPD_SF; Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000086.8 Reference GRCm39 C57BL/6J

    Range
    99773442..99782507
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036162101.1 → XP_036017994.1  glycerophosphoinositol inositolphosphodiesterase GDPD2 isoform X2

    Conserved Domains (1) summary
    cl14615
    Location:4 → 296
    PI-PLCc_GDPD_SF; Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily

  2. XM_006528297.5 → XP_006528360.1  glycerophosphoinositol inositolphosphodiesterase GDPD2 isoform X2

    Conserved Domains (1) summary
    cl14615
    Location:4 → 296
    PI-PLCc_GDPD_SF; Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily

  3. XM_030251505.1 → XP_030107365.1  glycerophosphoinositol inositolphosphodiesterase GDPD2 isoform X2

    Conserved Domains (1) summary
    cl14615
    Location:4 → 296
    PI-PLCc_GDPD_SF; Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily

  4. XM_036162100.1 → XP_036017993.1  glycerophosphoinositol inositolphosphodiesterase GDPD2 isoform X1

    UniProtKB/Swiss-Prot
    Q9ESM6
    Conserved Domains (1) summary
    cl14615
    Location:198 → 500
    PI-PLCc_GDPD_SF; Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9ESM6.1 GenPept UniProtKB/Swiss-Prot:Q9ESM6

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