U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

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

    Gene ID: 303407, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Gdpd1provided by RGD
    Official Full Name
    glycerophosphodiester phosphodiesterase domain containing 1provided by RGD
    Primary source
    RGD:1311813
    See related
    EnsemblRapid: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, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 221.0), Brain (RPKM 186.9) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    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

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    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

    Go to the top of the page Help

    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

    Go to the top of the page Help
    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)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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, ENSRNOT00000079311.3
      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
      ENSRNOP00000071339.3, ENSRNOT00000088182.3
      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

      Related
      ENSRNOT00000113855.2

    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.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools