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Aliases for GDPD3 Gene

Aliases for GDPD3 Gene

  • Glycerophosphodiester Phosphodiesterase Domain Containing 3 2 3 5
  • EC 3.1.-.- 4
  • GDE7 3

External Ids for GDPD3 Gene

Previous GeneCards Identifiers for GDPD3 Gene

  • GC16M030024
  • GC16M027777

Summaries for GDPD3 Gene

GeneCards Summary for GDPD3 Gene

GDPD3 (Glycerophosphodiester Phosphodiesterase Domain Containing 3) is a Protein Coding gene. Among its related pathways are Metabolism and PI Metabolism. GO annotations related to this gene include phosphoric diester hydrolase activity and glycerophosphodiester phosphodiesterase activity. An important paralog of this gene is GDPD1.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for GDPD3 Gene

Genomics for GDPD3 Gene

Regulatory Elements for GDPD3 Gene

Enhancers for GDPD3 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around GDPD3 on UCSC Golden Path with GeneCards custom track

Genomic Location for GDPD3 Gene

30,104,810 bp from pter
30,113,943 bp from pter
9,134 bases
Minus strand

Genomic View for GDPD3 Gene

Genes around GDPD3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
GDPD3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for GDPD3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for GDPD3 Gene

Proteins for GDPD3 Gene

  • Protein details for GDPD3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Glycerophosphodiester phosphodiesterase domain-containing protein 3
    Protein Accession:
    Secondary Accessions:
    • Q9H652

    Protein attributes for GDPD3 Gene

    318 amino acids
    Molecular mass:
    36596 Da
    Quaternary structure:
    No Data Available
    • Sequence=AAH02714.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for GDPD3 Gene


neXtProt entry for GDPD3 Gene

Proteomics data for GDPD3 Gene at MOPED

Post-translational modifications for GDPD3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for GDPD3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for GDPD3 Gene

Domains & Families for GDPD3 Gene

Suggested Antigen Peptide Sequences for GDPD3 Gene

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 GP-PDE domain.
  • Belongs to the glycerophosphoryl diester phosphodiesterase family.
  • Contains 1 GP-PDE domain.
  • Belongs to the glycerophosphoryl diester phosphodiesterase family.
genes like me logo Genes that share domains with GDPD3: view

No data available for Gene Families for GDPD3 Gene

Function for GDPD3 Gene

Enzyme Numbers (IUBMB) for GDPD3 Gene

Gene Ontology (GO) - Molecular Function for GDPD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008081 phosphoric diester hydrolase activity IEA --
genes like me logo Genes that share ontologies with GDPD3: view
genes like me logo Genes that share phenotypes with GDPD3: view

Animal Model Products

No data available for Molecular function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for GDPD3 Gene

Localization for GDPD3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for GDPD3 Gene

Membrane; Multi-pass membrane protein.

Subcellular locations from

Jensen Localization Image for GDPD3 Gene COMPARTMENTS Subcellular localization image for GDPD3 gene
Compartment Confidence
extracellular 5
cytosol 2
mitochondrion 2
nucleus 2
golgi apparatus 1
lysosome 1
vacuole 1

No data available for Gene Ontology (GO) - Cellular Components for GDPD3 Gene

Pathways & Interactions for GDPD3 Gene

genes like me logo Genes that share pathways with GDPD3: view

Interacting Proteins for GDPD3 Gene

Gene Ontology (GO) - Biological Process for GDPD3 Gene


No data available for SIGNOR curated interactions for GDPD3 Gene

Drugs & Compounds for GDPD3 Gene

No Compound Related Data Available

Transcripts for GDPD3 Gene

Unigene Clusters for GDPD3 Gene

Glycerophosphodiester phosphodiesterase domain containing 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for GDPD3 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b · 10c
SP1: -
SP4: -

Relevant External Links for GDPD3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for GDPD3 Gene

mRNA expression in normal human tissues for GDPD3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for GDPD3 Gene

This gene is overexpressed in Esophagus - Mucosa (x5.9).

Protein differential expression in normal tissues from HIPED for GDPD3 Gene

This gene is overexpressed in Urine (27.7), Cervix (22.2), and Lung (7.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for GDPD3 Gene

SOURCE GeneReport for Unigene cluster for GDPD3 Gene Hs.289015

genes like me logo Genes that share expression patterns with GDPD3: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for GDPD3 Gene

Orthologs for GDPD3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for GDPD3 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia GDPD3 35
  • 84.7 (n)
  • 83.02 (a)
GDPD3 36
  • 83 (a)
(Canis familiaris)
Mammalia GDPD3 35
  • 83.86 (n)
  • 80.5 (a)
GDPD3 36
  • 80 (a)
(Mus musculus)
Mammalia Gdpd3 35
  • 81.49 (n)
  • 78.93 (a)
Gdpd3 16
Gdpd3 36
  • 74 (a)
(Pan troglodytes)
Mammalia GDPD3 35
  • 99.48 (n)
  • 99.06 (a)
GDPD3 36
  • 100 (a)
(Rattus norvegicus)
Mammalia Gdpd3 35
  • 80.71 (n)
  • 76.92 (a)
(Monodelphis domestica)
Mammalia GDPD3 36
  • 73 (a)
(Ornithorhynchus anatinus)
Mammalia GDPD3 36
  • 59 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100125107 35
  • 56.32 (n)
  • 50.33 (a)
(Danio rerio)
Actinopterygii gdpd3b 35
  • 55.18 (n)
  • 49.83 (a)
gdpd3a 36
  • 47 (a)
gdpd3b 36
  • 48 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 33 (a)
Species with no ortholog for GDPD3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for GDPD3 Gene

Gene Tree for GDPD3 (if available)
Gene Tree for GDPD3 (if available)

Paralogs for GDPD3 Gene

Paralogs for GDPD3 Gene

(1) SIMAP similar genes for GDPD3 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with GDPD3: view

Variants for GDPD3 Gene

Sequence variations from dbSNP and Humsavar for GDPD3 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type
rs61757860 -- 30,104,661(-) CCTGC(C/T)ACACC downstream-variant-500B
rs61764618 -- 30,113,526(-) GTCCC(A/G)CGGAC nc-transcript-variant, utr-variant-5-prime
rs61764619 -- 30,112,743(-) GACAC(A/G)GGACA nc-transcript-variant, reference, missense
rs61764620 -- 30,112,193(-) TGACC(A/C/G)TAATG nc-transcript-variant, reference, missense
rs61764621 -- 30,108,503(-) GGGGC(A/C)CTACC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for GDPD3 Gene

Variant ID Type Subtype PubMed ID
dgv2668n71 CNV Loss 21882294
nsv833187 CNV Loss 17160897
nsv905720 CNV Loss 21882294
dgv846e1 CNV Complex 17122850

Variation tolerance for GDPD3 Gene

Residual Variation Intolerance Score: 81.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.76; 47.00% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for GDPD3 Gene

Disorders for GDPD3 Gene

Relevant External Links for GDPD3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for GDPD3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for GDPD3 Gene

Publications for GDPD3 Gene

  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 67
  2. Biological insights from 108 schizophrenia-associated genetic loci. (PMID: 25056061) (Nature 2014) 3
  3. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. (PMID: 23376485) Prunotto M. … Moll S. (J Proteomics 2013) 3
  4. In-depth proteomic analyses of exosomes isolated from expressed prostatic secretions in urine. (PMID: 23533145) Principe S. … Drake R.R. (Proteomics 2013) 3
  5. Dynamics of cullin-RING ubiquitin ligase network revealed by systematic quantitative proteomics. (PMID: 21145461) Bennett E.J. … Harper J.W. (Cell 2010) 3

Products for GDPD3 Gene

Sources for GDPD3 Gene