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

Summary

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

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_000086.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
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.
GDE3 substrate GroPIns is a candidate mediator for osteoblast proliferation
Title: The developmentally regulated osteoblast phosphodiesterase GDE3 is glycerophosphoinositol-specific and modulates cell growth.
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.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2)
Targeted (4) 1 citation

General gene information

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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

EC 3.1.4.43

NP_001345436.1

EC 3.1.4.43

NP_076097.1

EC 3.1.4.43

XP_006528360.1

EC 3.1.4.43

XP_030107365.1

EC 3.1.4.43

XP_036017993.1

EC 3.1.4.43

XP_036017994.1

EC 3.1.4.43

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)

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
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
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

NC_000086.8 Reference GRCm39 C57BL/6J

Range

99773442..99782507

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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
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
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