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GDPD3 glycerophosphodiester phosphodiesterase domain containing 3 [ Homo sapiens (human) ]

Gene ID: 79153, updated on 22-Sep-2022

Summary

Official Symbol
GDPD3provided by HGNC
Official Full Name
glycerophosphodiester phosphodiesterase domain containing 3provided by HGNC
Primary source
HGNC:HGNC:28638
See related
Ensembl:ENSG00000102886 MIM:616318; AllianceGenome:HGNC:28638
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
GDE7
Summary
Enables phosphoric diester hydrolase activity. Involved in N-acylethanolamine metabolic process. Located in endoplasmic reticulum. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in esophagus (RPKM 15.4), colon (RPKM 11.2) and 22 other tissues See more
Orthologs
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Genomic context

See GDPD3 in Genome Data Viewer
Location:
16p11.2
Exon count:
10
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (30104810..30113537, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (30387452..30396184, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (30116131..30124858, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene T-box transcription factor 6 Neighboring gene YPEL3 divergent transcript Neighboring gene yippee like 3 Neighboring gene mitogen-activated protein kinase 3 Neighboring gene translation initiation factor IF-2-like Neighboring gene coronin 1A

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC4171, FLJ22603

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables lysophospholipase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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
PubMed 
enables phosphoric diester hydrolase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
Process Evidence Code Pubs
involved_in N-acylethanolamine metabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in glycerophospholipid catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in phosphatidylcholine catabolic process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in endoplasmic reticulum IMP
Inferred from Mutant Phenotype
more info
PubMed 
is_active_in endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in endoplasmic reticulum membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in extracellular exosome HDA PubMed 
located_in perinuclear region of cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

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_024307.3NP_077283.2  lysophospholipase D GDPD3

    See identical proteins and their annotated locations for NP_077283.2

    Status: VALIDATED

    Source sequence(s)
    BC002714
    Consensus CDS
    CCDS10671.2
    UniProtKB/Swiss-Prot
    Q7L5L3, Q9H652
    Related
    ENSP00000384363.3, ENST00000406256.8
    Conserved Domains (2) summary
    cd08612
    Location:13310
    GDPD_GDE4; Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE4 and similar proteins
    pfam03009
    Location:44301
    GDPD; Glycerophosphoryl diester phosphodiesterase family

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    30104810..30113537 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_007064912.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    30387452..30396184 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)