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    Gdpd3 glycerophosphodiester phosphodiesterase domain containing 3 [ Mus musculus (house mouse) ]

    Gene ID: 68616, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Gdpd3provided by MGI
    Official Full Name
    glycerophosphodiester phosphodiesterase domain containing 3provided by MGI
    Primary source
    MGI:MGI:1915866
    See related
    Ensembl:ENSMUSG00000030703 AllianceGenome:MGI:1915866
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    1110015E22Rik
    Summary
    Enables lysophospholipase activity and phosphoric diester hydrolase activity. Involved in N-acylethanolamine metabolic process and phosphatidylcholine catabolic process. Located in endoplasmic reticulum membrane and perinuclear region of cytoplasm. Orthologous to human GDPD3 (glycerophosphodiester phosphodiesterase domain containing 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in subcutaneous fat pad adult (RPKM 24.7), kidney adult (RPKM 15.0) and 16 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    7 F3; 7 69.25 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (126365586..126374817)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (126766414..126775645)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene U1 small nuclear ribonucleoprotein 1C, pseudogene 1 Neighboring gene STARR-seq mESC enhancer starr_20155 Neighboring gene mitogen-activated protein kinase 3 Neighboring gene STARR-positive B cell enhancer ABC_E6602 Neighboring gene yippee like 3 Neighboring gene T-box 6

    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. The lysophospholipase D enzyme Gdpd3 is required to maintain chronic myelogenous leukaemia stem cells. Naka K, et al. Nat Commun, 2020 Sep 17. PMID 32943626, Free PMC Article
    2. Characterization of recombinant murine GDE4 and GDE7, enzymes producing lysophosphatidic acid and/or cyclic phosphatidic acid. Tserendavga B, et al. J Biochem, 2022 Jan 7. PMID 34523685
    3. Deficiency of the Endocytic Protein Hip1 Leads to Decreased Gdpd3 Expression, Low Phosphocholine, and Kypholordosis. Wijayatunge R, et al. Mol Cell Biol, 2018 Dec 1. PMID 30224518, Free PMC Article
    4. Calcium-dependent generation of N-acylethanolamines and lysophosphatidic acids by glycerophosphodiesterase GDE7. Rahman IA, et al. Biochim Biophys Acta, 2016 Dec. PMID 27637550
    5. CD4 memory T cells develop and acquire functional competence by sequential cognate interactions and stepwise gene regulation. Kaji T, et al. Int Immunol, 2016 Jun. PMID 26714588, Free PMC Article

    See all (23) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Characterization of recombinant murine GDE4 and GDE7, enzymes producing lysophosphatidic acid and/or cyclic phosphatidic acid.
      Title: Characterization of recombinant murine GDE4 and GDE7, enzymes producing lysophosphatidic acid and/or cyclic phosphatidic acid.
    2. The lysophospholipase D enzyme Gdpd3 is required to maintain chronic myelogenous leukaemia stem cells.
      Title: The lysophospholipase D enzyme Gdpd3 is required to maintain chronic myelogenous leukaemia stem cells.
    3. this study identified Gdpd3 as a candidate genetic marker for memory T cells
      Title: CD4 memory T cells develop and acquire functional competence by sequential cognate interactions and stepwise gene regulation.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Chemically induced (ENU) (1) 
    • Endonuclease-mediated (3)  1 citation

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables lysophospholipase activity EXP
    Inferred from Experiment
    more info
    		 PubMed 
    enables lysophospholipase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphoric diester hydrolase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables phosphoric diester hydrolase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables phosphoric diester hydrolase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in N-acylethanolamine metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in N-acylethanolamine metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in glycerophospholipid catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within lipid metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in lipid metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in phosphatidylcholine catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in phospholipid metabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endoplasmic reticulum membrane TAS
    Traceable Author Statement
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in perinuclear region of cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    lysophospholipase D GDPD3
    Names
    glycerophosphodiester phosphodiesterase 7
    glycerophosphodiester phosphodiesterase domain-containing protein 3

    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_024228.2 → NP_077190.2  lysophospholipase D GDPD3

      See identical proteins and their annotated locations for NP_077190.2

      Status: VALIDATED

      Source sequence(s)
      AK003726, AW045753, BY101331
      Consensus CDS
      CCDS40130.1
      UniProtKB/Swiss-Prot
      Q99LY2, Q9D1C0
      Related
      ENSMUSP00000032944.8, ENSMUST00000032944.9
      Conserved Domains (2) summary
      cd08612
      Location:13 → 310
      GDPD_GDE4; Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE4 and similar proteins
      COG0584
      Location:34 → 311
      UgpQ; Glycerophosphoryl diester phosphodiesterase [Lipid transport and metabolism]

    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_000073.7 Reference GRCm39 C57BL/6J

      Range
      126365586..126374817
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q99LY2.2 GenPept UniProtKB/Swiss-Prot:Q99LY2

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
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