Aliases for PLCXD3 Gene

Aliases for PLCXD3 Gene

  • Phosphatidylinositol Specific Phospholipase C X Domain Containing 3 2 3 5
  • PI-PLC X Domain-Containing Protein 3 3 4
  • Phosphatidylinositol-Specific Phospholipase C, X Domain Containing 3 2
  • PLCXD3 5

External Ids for PLCXD3 Gene

Previous GeneCards Identifiers for PLCXD3 Gene

  • GC05M041342

Summaries for PLCXD3 Gene

GeneCards Summary for PLCXD3 Gene

PLCXD3 (Phosphatidylinositol Specific Phospholipase C X Domain Containing 3) is a Protein Coding gene. Diseases associated with PLCXD3 include Creutzfeldt-Jakob Disease. Among its related pathways are Ectoderm Differentiation. Gene Ontology (GO) annotations related to this gene include obsolete signal transducer activity and phosphoric diester hydrolase activity. An important paralog of this gene is PLCXD2.

Tocris Summary for PLCXD3 Gene

  • Phospholipases are a group of enzymes that hydrolyze phospholipids into fatty acids and other lipophilic molecules. There are four major classes; phospholipase A, phospholipase B, phosphoinositide-specific phospholipase C and phospholipase D.

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for PLCXD3 Gene

Genomics for PLCXD3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for PLCXD3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05J041509 Promoter/Enhancer 1.4 EPDnew FANTOM5 Ensembl ENCODE 256.4 +1.7 1727 4.6 JUND NR2F6 GATA2 HNRNPL FOS CTCF RAD21 PRDM10 EP300 EZH2 PLCXD3 HSALNG0041415 piR-57176-524 C6
GH05J040832 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 4.8 +676.1 676149 4.7 BCLAF1 SP1 ZNF207 MYC NCOR1 ZNF600 SIX5 JUND ZNF580 ZNF592 SNORD72 RPL37 lnc-RPL37-1 PRKAA1 CARD6 PLCXD3 TTC33 RF00017-4142 RF00017-4138 RF00017-4137
GH05J040840 Promoter/Enhancer 1.5 EPDnew Ensembl ENCODE 6.3 +668.3 668302 3 IKZF1 ZNF592 YY1 BHLHE40 FEZF1 MNT MAX ZNF513 EP300 TAF9B CARD6 PRKAA1 PLCXD3 piR-32214-544 RF00017-4142 RF00017-4138 C7 RF00017-4137
GH05J040802 Enhancer 1.1 Ensembl ENCODE 4.1 +708.1 708128 1.8 MYC NCOR1 IKZF1 ZNF592 NFIC REST SMAD5 HES1 BHLHE40 MBD2 piR-31432-542 piR-55650-532 piR-55650-533 piR-46662-529 piR-56759-451 piR-53431-552 RPL37 SNORD72 CARD6 PRKAA1
GH05J041263 Enhancer 0.6 Ensembl ENCODE 6.6 +246.6 246583 1.9 RAD21 ATF2 GATA2 POLR2A CHD2 NR2F2 C7 PLCXD3 C6 HSALNG0041406-004 HSALNG0041406-001
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PLCXD3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for PLCXD3

Top Transcription factor binding sites by QIAGEN in the PLCXD3 gene promoter:
  • AML1a
  • AP-1
  • HNF-3beta
  • Nkx3-1
  • Nkx3-1 v1
  • Nkx3-1 v2
  • Nkx3-1 v3
  • Nkx3-1 v4
  • S8
  • YY1

Genomic Locations for PLCXD3 Gene

Latest Assembly
chr5:41,306,952-41,510,628
(GRCh38/hg38)
Size:
203,677 bases
Orientation:
Minus strand

Previous Assembly
chr5:41,307,054-41,510,703
(GRCh37/hg19 by Entrez Gene)
Size:
203,650 bases
Orientation:
Minus strand

chr5:41,307,056-41,510,730
(GRCh37/hg19 by Ensembl)
Size:
203,675 bases
Orientation:
Minus strand

Genomic View for PLCXD3 Gene

Genes around PLCXD3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PLCXD3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PLCXD3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PLCXD3 Gene

Proteins for PLCXD3 Gene

  • Protein details for PLCXD3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q63HM9-PLCX3_HUMAN
    Recommended name:
    PI-PLC X domain-containing protein 3
    Protein Accession:
    Q63HM9
    Secondary Accessions:
    • A6NL04

    Protein attributes for PLCXD3 Gene

    Size:
    321 amino acids
    Molecular mass:
    36313 Da
    Quaternary structure:
    No Data Available

neXtProt entry for PLCXD3 Gene

Post-translational modifications for PLCXD3 Gene

  • Glycosylation at Asn83
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect
    • PLCX3_HUMAN (1606)

Other Protein References for PLCXD3 Gene

No data available for DME Specific Peptides for PLCXD3 Gene

Domains & Families for PLCXD3 Gene

Gene Families for PLCXD3 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for PLCXD3 Gene

Suggested Antigen Peptide Sequences for PLCXD3 Gene

GenScript: Design optimal peptide antigens:
  • PI-PLC X domain-containing protein 3 (PLCX3_HUMAN)
genes like me logo Genes that share domains with PLCXD3: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for PLCXD3 Gene

Function for PLCXD3 Gene

Phenotypes From GWAS Catalog for PLCXD3 Gene

Gene Ontology (GO) - Molecular Function for PLCXD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 32296183
GO:0008081 phosphoric diester hydrolase activity IEA --
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with PLCXD3: view
genes like me logo Genes that share phenotypes with PLCXD3: view

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PLCXD3

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PLCXD3 Gene

Localization for PLCXD3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PLCXD3 Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PLCXD3 gene
Compartment Confidence
nucleus 2
cytosol 2
plasma membrane 1
extracellular 1
mitochondrion 1
peroxisome 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PLCXD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with PLCXD3: view

Pathways & Interactions for PLCXD3 Gene

PathCards logo

SuperPathways for PLCXD3 Gene

SuperPathway Contained pathways
1 Ectoderm Differentiation
genes like me logo Genes that share pathways with PLCXD3: view

Pathways by source for PLCXD3 Gene

1 BioSystems pathway for PLCXD3 Gene

Gene Ontology (GO) - Biological Process for PLCXD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006629 lipid metabolic process IEA --
GO:0007165 signal transduction IEA --
GO:0016042 lipid catabolic process IEA --
genes like me logo Genes that share ontologies with PLCXD3: view

No data available for SIGNOR curated interactions for PLCXD3 Gene

Drugs & Compounds for PLCXD3 Gene

(2) Drugs for PLCXD3 Gene - From: DrugBank and Tocris

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
carbocisteine Approved, Investigational Pharma Target, inhibitor 0
AACOCF3 Pharma Inhibitor of cPLA2/anandamide hydrolysis/FAAH, Phospholipase A2 inhibitor 0

(383) Additional Compounds for PLCXD3 Gene - From: HMDB and Tocris

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Phosphatidylinositol-3,4,5-trisphosphate
  • Phosphatidylinositol-3,4,5-trisphosphoric acid
  • 1,2-Diacyl-sn-glycero-3-phospho-(1'-myo-inositol-3',4',5'-bisphosphate)
  • 1-Phosphatidyl-1D-myo-inositol 3,4,5-trisphosphate
PI(16:0/16:0)
  • 1,2-Dihexadecanoyl-rac-glycero-3-phospho-(1'-myo-inositol)
  • 1,2-Dipalmitoyl-rac-glycero-3-phosphoinositol
  • Phosphatidylinositol(16:0/16:0)
  • Phosphatidylinositol(32:0)
  • PI(32:0)
PI(16:0/16:1(9Z))
  • 1-Hexadecanoyl-2-(9Z-hexadecenoyl)-sn-glycero-3-phospho-(1'-myo-inositol)
  • 1-Palmitoyl-2-palmitoleoyl-sn-glycero-3-phosphoinositol
  • Phosphatidylinositol(16:0/16:1)
  • Phosphatidylinositol(16:0/16:1n7)
  • Phosphatidylinositol(16:0/16:1W7)
PI(16:0/16:2(9Z,12Z))
  • 1-Hexadecanoyl-2-(9Z,12Z-hexadecadienoate
  • 1-Hexadecanoyl-2-(9Z,12Z-hexadecadienoate)-sn-glycero-3-phospho-(1'-myo-inositol)
  • 1-Hexadecanoyl-2-(9Z,12Z-hexadecadienoic acid
  • 1-Palmitoyl-2-(9Z,12Z-hexadecadienoate
  • 1-Palmitoyl-2-(9Z,12Z-hexadecadienoate)-sn-glycero-3-phosphoinositol
PI(16:0/18:0)
  • 1-Hexadecanoyl-2-octadecanoyl-glycero-3-phospho-(1'-myo-inositol)
  • 1-Palmitoyl-2-stearoyl-sn-glycero-3-phospho-D-myo-inositol
  • 1-Palmitoyl-2-stearoyl-sn-glycero-3-phosphoinositol
  • Phosphatidylinositol(16:0/18:0)
  • Phosphatidylinositol(34:0)
182509-29-1

(5) Tocris Compounds for PLCXD3 Gene

Compound Action Cas Number
AACOCF3 Phospholipase A2 inhibitor 149301-79-1
Edelfosine Selective PI-PLC inhibitor, also PAF receptor agonist 77286-66-9
m-3M3FBS Phospholipase C activator 200933-14-8
o-3M3FBS Inactive analog of m-3M3FBS (Cat. No. 1941) 313981-55-4
U 73122 Phospholipase C inhibitor 112648-68-7
genes like me logo Genes that share compounds with PLCXD3: view

Transcripts for PLCXD3 Gene

mRNA/cDNA for PLCXD3 Gene

1 REFSEQ mRNAs :
4 NCBI additional mRNA sequence :
2 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PLCXD3

Alternative Splicing Database (ASD) splice patterns (SP) for PLCXD3 Gene

No ASD Table

Relevant External Links for PLCXD3 Gene

GeneLoc Exon Structure for
PLCXD3

Expression for PLCXD3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for PLCXD3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PLCXD3 Gene

This gene is overexpressed in Heart - Left Ventricle (x8.1), Brain - Cerebellar Hemisphere (x5.1), and Heart - Atrial Appendage (x5.1).

Protein differential expression in normal tissues from HIPED for PLCXD3 Gene

This gene is overexpressed in Testis (21.9), Ovary (9.5), Fetal heart (8.7), Islet of Langerhans (8.5), and Brain (8.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for PLCXD3 Gene



Protein tissue co-expression partners for PLCXD3 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for PLCXD3

SOURCE GeneReport for Unigene cluster for PLCXD3 Gene:

Hs.145404

mRNA Expression by UniProt/SwissProt for PLCXD3 Gene:

Q63HM9-PLCX3_HUMAN
Tissue specificity: Expressed at highest levels in heart. Also detected in kidney, lung, small intestine and colon. Expressed at very low levels, if any, in leukocytes, thymus and skeletal muscle.

Evidence on tissue expression from TISSUES for PLCXD3 Gene

  • Nervous system(2.5)
genes like me logo Genes that share expression patterns with PLCXD3: view

Primer products for research

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for PLCXD3 Gene

Orthologs for PLCXD3 Gene

This gene was present in the common ancestor of animals.

Orthologs for PLCXD3 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia PLCXD3 29 30
  • 99.9 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia PLCXD3 30
  • 97 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia PLCXD3 29 30
  • 94.7 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia PLCXD3 29 30
  • 94.5 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia PLCXD3 30
  • 94 (a)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Plcxd3 29
  • 92.83 (n)
Mouse
(Mus musculus)
Mammalia Plcxd3 29 16 30
  • 91.69 (n)
OneToOne
Chicken
(Gallus gallus)
Aves PLCXD3 30
  • 92 (a)
OneToOne
LOC100857889 29
  • 82.87 (n)
Lizard
(Anolis carolinensis)
Reptilia PLCXD3 30
  • 89 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia plcxd3 29
  • 80.89 (n)
Zebrafish
(Danio rerio)
Actinopterygii plcxd3 29 30
  • 74.79 (n)
OneToOne
wufc10h08 29
Fruit Fly
(Drosophila melanogaster)
Insecta CG10747 30
  • 28 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea F38E9.1 30
  • 14 (a)
OneToMany
Species where no ortholog for PLCXD3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • 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)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • 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 Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • 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)

Evolution for PLCXD3 Gene

ENSEMBL:
Gene Tree for PLCXD3 (if available)
TreeFam:
Gene Tree for PLCXD3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PLCXD3: view image
Alliance of Genome Resources:
Additional Orthologs for PLCXD3

Paralogs for PLCXD3 Gene

Paralogs for PLCXD3 Gene

(2) SIMAP similar genes for PLCXD3 Gene using alignment to 1 proteins:

  • PLCX3_HUMAN

Pseudogenes.org Pseudogenes for PLCXD3 Gene

genes like me logo Genes that share paralogs with PLCXD3: view

Variants for PLCXD3 Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for PLCXD3 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for PLCXD3 Gene

Variant ID Type Subtype PubMed ID
esv1001467 CNV deletion 20482838
esv1518058 CNV deletion 17803354
esv1936194 CNV deletion 18987734
esv2675815 CNV deletion 23128226
esv2730123 CNV deletion 23290073
esv2730124 CNV deletion 23290073
esv2730125 CNV deletion 23290073
esv3604839 CNV gain 21293372
esv3604840 CNV gain 21293372
esv3604841 CNV loss 21293372
esv3604844 CNV loss 21293372
esv3604845 CNV gain 21293372
nsv1074828 CNV deletion 25765185
nsv1140536 CNV deletion 24896259
nsv327751 CNV deletion 16902084
nsv328702 CNV deletion 16902084
nsv474969 CNV novel sequence insertion 20440878
nsv476576 CNV novel sequence insertion 20440878
nsv482997 CNV loss 15286789
nsv830269 CNV gain 17160897
nsv955836 CNV deletion 24416366

Variation tolerance for PLCXD3 Gene

Residual Variation Intolerance Score: 12.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.93; 19.34% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PLCXD3 Gene

Human Gene Mutation Database (HGMD)
PLCXD3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
PLCXD3
Leiden Open Variation Database (LOVD)
PLCXD3

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for PLCXD3 Gene

Disorders for PLCXD3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for PLCXD3 Gene - From: COP and GCD

Disorder Aliases PubMed IDs
creutzfeldt-jakob disease
  • cjd
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for PLCXD3

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with PLCXD3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PLCXD3 Gene

Publications for PLCXD3 Gene

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 40
  2. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
  3. Genetic Variants of the PLCXD3 Gene Are Associated with Risk of Metabolic Syndrome in the Emirati Population. (PMID: 32570874) Aljaibeji H … Sulaiman N (Genes 2020) 3
  4. Integrated analysis miRNA and mRNA profiling in patients with severe oligozoospermia reveals miR-34c-3p downregulates PLCXD3 expression. (PMID: 27486773) Li Z … Tzeng CM (Oncotarget 2016) 3
  5. Variants of PLCXD3 are not associated with variant or sporadic Creutzfeldt-Jakob disease in a large international study. (PMID: 27055460) Balendra R … Mead S (BMC medical genetics 2016) 3

Products for PLCXD3 Gene

Sources for PLCXD3 Gene