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Gpcpd1 glycerophosphocholine phosphodiesterase 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 362219, updated on 27-Nov-2024

Summary

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Official Symbol
Gpcpd1provided by RGD
Official Full Name
glycerophosphocholine phosphodiesterase 1provided by RGD
Primary source
RGD:735140
See related
EnsemblRapid:ENSRNOG00000053201 AllianceGenome:RGD:735140
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Gde5; Prei4; RGD735140
Summary
Predicted to enable glycerophosphocholine phosphodiesterase activity. Predicted to be involved in glycerophospholipid catabolic process. Predicted to act upstream of or within skeletal muscle tissue development. Predicted to be located in cytoplasm. Orthologous to human GPCPD1 (glycerophosphocholine phosphodiesterase 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Muscle (RPKM 395.7), Spleen (RPKM 257.7) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Gpcpd1 in Genome Data Viewer
Location:
3q36
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (140240574..140285469, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (119787681..119832550, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (125169131..125213598, complement)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene U2 spliceosomal RNA Neighboring gene prokineticin receptor 2 Neighboring gene uncharacterized LOC120101670 Neighboring gene uncharacterized LOC102552951 Neighboring gene U6 spliceosomal RNA Neighboring gene shieldin complex subunit 1

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. Blood-brain barrier genomics. Li JY, et al. J Cereb Blood Flow Metab, 2001 Jan. PMID 11149669
  2. A novel glycerophosphodiester phosphodiesterase, GDE5, controls skeletal muscle development via a non-enzymatic mechanism. Okazaki Y, et al. J Biol Chem, 2010 Sep 3. PMID 20576599, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables glycerophosphocholine phosphodiesterase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables glycerophosphocholine phosphodiesterase activity IEA
Inferred from Electronic Annotation
more info
  
enables glycerophosphocholine phosphodiesterase activity ISO
Inferred from Sequence Orthology
more info
  
enables phosphoric diester hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables starch binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
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 skeletal muscle tissue development IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within skeletal muscle tissue development ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
glycerophosphocholine phosphodiesterase GPCPD1
Names
glycerophosphocholine phosphodiesterase GDE1 homolog
glycerophosphodiester phosphodiesterase 5
hypothetical protein LK44
preimplantation protein 4
putative glycerophosphocholine phosphodiesterase GPCPD1
putative glycerophosphodiester phosphodiesterase 5
NP_942074.1
XP_038961393.1
XP_038961394.1
XP_063140236.1
XP_063140237.1

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_198779.2 → NP_942074.1  glycerophosphocholine phosphodiesterase GPCPD1

    See identical proteins and their annotated locations for NP_942074.1

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000003
    UniProtKB/Swiss-Prot
    Q80VJ4
    UniProtKB/TrEMBL
    A0A8I6GDY1, A6HQG6
    Related
    ENSRNOP00000107576.1, ENSRNOT00000167844.1
    Conserved Domains (4) summary
    cd05814
    Location:4 → 125
    CBM20_Prei4; Prei4, N-terminal CBM20 (carbohydrate-binding module, family 20) domain. Preimplantation protein 4 (Prei4) is a protein of unknown function that is expressed during mouse preimplantation embryogenesis. In addition to the N-terminal CBM20 domain, Prei4 ...
    cd08607
    Location:319 → 611
    GDPD_GDE5; Glycerophosphodiester phosphodiesterase domain of putative mammalian glycerophosphodiester phosphodiesterase GDE5 and similar proteins
    pfam03009
    Location:323 → 611
    GDPD; Glycerophosphoryl diester phosphodiesterase family
    cl21461
    Location:607 → 632
    Globin_like; Globin-like 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_086021.1 Reference GRCr8

    Range
    140240574..140285469 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063284166.1 → XP_063140236.1  glycerophosphocholine phosphodiesterase GPCPD1 isoform X2

    UniProtKB/Swiss-Prot
    Q80VJ4
    UniProtKB/TrEMBL
    A6HQG6

  2. XM_039105465.2 → XP_038961393.1  glycerophosphocholine phosphodiesterase GPCPD1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K9B2, A0A8I6GDY1
    Related
    ENSRNOP00000074931.2, ENSRNOT00000078070.3
    Conserved Domains (2) summary
    cd05814
    Location:4 → 125
    CBM20_Prei4; Prei4, N-terminal CBM20 (carbohydrate-binding module, family 20) domain. Preimplantation protein 4 (Prei4) is a protein of unknown function that is expressed during mouse preimplantation embryogenesis. In addition to the N-terminal CBM20 domain, Prei4 ...
    cd08607
    Location:319 → 618
    GDPD_GDE5; Glycerophosphodiester phosphodiesterase domain of putative mammalian glycerophosphodiester phosphodiesterase GDE5 and similar proteins

  3. XM_039105466.2 → XP_038961394.1  glycerophosphocholine phosphodiesterase GPCPD1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K9B2, A0A8I6GDY1
    Conserved Domains (2) summary
    cd05814
    Location:4 → 125
    CBM20_Prei4; Prei4, N-terminal CBM20 (carbohydrate-binding module, family 20) domain. Preimplantation protein 4 (Prei4) is a protein of unknown function that is expressed during mouse preimplantation embryogenesis. In addition to the N-terminal CBM20 domain, Prei4 ...
    cd08607
    Location:319 → 618
    GDPD_GDE5; Glycerophosphodiester phosphodiesterase domain of putative mammalian glycerophosphodiester phosphodiesterase GDE5 and similar proteins

  4. XM_063284167.1 → XP_063140237.1  glycerophosphocholine phosphodiesterase GPCPD1 isoform X3

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q80VJ4.1 GenPept UniProtKB/Swiss-Prot:Q80VJ4

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