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

Summary

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

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_086028.1 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: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

BF390199 (e-PCR)
- UniSTS:249403

RH135006 (e-PCR)
- UniSTS:218283

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

EC 3.1.4.39

XP_038941976.1

EC 3.1.4.39

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_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

NC_086028.1 Reference GRCr8

Range

72318716..72381143 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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