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Gdpd1 glycerophosphodiester phosphodiesterase domain containing 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 303407, updated on 2-May-2024

Summary

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Official Symbol
Gdpd1provided by RGD
Official Full Name
glycerophosphodiester phosphodiesterase domain containing 1provided by RGD
Primary source
RGD:1311813
See related
Ensembl:ENSRNOG00000060561 AllianceGenome:RGD:1311813
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1311813
Summary
Predicted to enable lysophospholipase activity and phosphoric diester hydrolase activity. Predicted to be involved in N-acylethanolamine metabolic process and glycerophospholipid catabolic process. Predicted to act upstream of or within phospholipid metabolic process. Predicted to be located in endoplasmic reticulum; membrane; and perinuclear region of cytoplasm. Predicted to be active in endoplasmic reticulum membrane. Orthologous to human GDPD1 (glycerophosphodiester phosphodiesterase domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Testes (RPKM 221.0), Brain (RPKM 186.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Gdpd1 in Genome Data Viewer
Location:
10q26
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (72318716..72381143, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (71840497..71883936, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (74334972..74376332, complement)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene uncharacterized histidine-rich protein DDB_G0274557-like Neighboring gene yippee-like 2 Neighboring gene interferon induced transmembrane protein 1, pseudogene 1 Neighboring gene uncharacterized LOC120095167 Neighboring gene SMG8 nonsense mediated mRNA decay factor Neighboring gene proline rich 11 Neighboring gene microRNA 301a Neighboring gene spindle and kinetochore associated complex subunit 2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. New members of the mammalian glycerophosphodiester phosphodiesterase family: GDE4 and GDE7 produce lysophosphatidic acid by lysophospholipase D activity. Ohshima N, et al. J Biol Chem, 2015 Feb 13. PMID 25528375, Free PMC Article
  2. Glycerophosphodiesterase GDE4 as a novel lysophospholipase D: a possible involvement in bioactive N-acylethanolamine biosynthesis. Tsuboi K, et al. Biochim Biophys Acta, 2015 May. PMID 25596343
  3. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC125217

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables lysophospholipase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables lysophospholipase activity IEA
Inferred from Electronic Annotation
more info
  
enables lysophospholipase activity ISO
Inferred from Sequence Orthology
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 IEA
Inferred from Electronic Annotation
more info
  
enables phosphoric diester hydrolase activity ISO
Inferred from Sequence Orthology
more info
  
enables phosphoric diester hydrolase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in N-acylethanolamine metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in N-acylethanolamine metabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within N-acylethanolamine metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in N-acylethanolamine metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in N-acylethanolamine metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in glycerophospholipid catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in lipid metabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in phospholipid metabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within phospholipid metabolic process ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
  
located_in endoplasmic reticulum ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
located_in membrane ISO
Inferred from Sequence Orthology
more info
  
located_in perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in perinuclear region of cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
lysophospholipase D GDPD1
Names
glycerophosphodiester phosphodiesterase 4
glycerophosphodiester phosphodiesterase domain-containing protein 1
NP_001037703.1
XP_038941976.1

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_001044238.2 → NP_001037703.1  lysophospholipase D GDPD1

    See identical proteins and their annotated locations for NP_001037703.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000010
    UniProtKB/Swiss-Prot
    Q0VGK4
    UniProtKB/TrEMBL
    A0A0G2K8E7, A6HHS4
    Related
    ENSRNOP00000074578.2, ENSRNOT00000079311.2
    Conserved Domains (1) summary
    cd08612
    Location:14 → 311
    GDPD_GDE4; Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE4 and similar proteins

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086028.1 Reference GRCr8

    Range
    72318716..72381143 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039086048.2 → XP_038941976.1  lysophospholipase D GDPD1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K8E7, A0A8I6G3R9
    Related
    ENSRNOP00000079803.1
    Conserved Domains (1) summary
    cd08612
    Location:14 → 320
    GDPD_GDE4; Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE4 and similar proteins

RNA

  1. XR_010055185.1 RNA Sequence

  2. XR_010055186.1 RNA Sequence

  3. XR_005489841.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q0VGK4.1 GenPept UniProtKB/Swiss-Prot:Q0VGK4

Gene LinkOut

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

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