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Aliases for PDPN Gene

Aliases for PDPN Gene

  • Podoplanin 2 3 3 5
  • Lung Type I Cell Membrane Associated Glycoprotein 2 3
  • Glycoprotein 36 3 4
  • PA2.26 Antigen 3 4
  • T1-Alpha 3 4
  • AGGRUS 3 4
  • GP36 3 4
  • T1A 3 4
  • Lung Type-I Cell Membrane-Associated Glycoprotein (T1A-2) 3
  • Glycoprotein, 36-KD 3
  • HT1alpha-1 3
  • HT1alpha-2 3
  • HT1A-1 3
  • PA2.26 3
  • T1A-2 3
  • GP40 3
  • Gp38 3
  • OTS8 3
  • T1A2 3
  • TI1A 3

External Ids for PDPN Gene

Previous GeneCards Identifiers for PDPN Gene

  • GC01P013782
  • GC01P013909
  • GC01P012427

Summaries for PDPN Gene

Entrez Gene Summary for PDPN Gene

  • This gene encodes a type-I integral membrane glycoprotein with diverse distribution in human tissues. The physiological function of this protein may be related to its mucin-type character. The homologous protein in other species has been described as a differentiation antigen and influenza-virus receptor. The specific function of this protein has not been determined but it has been proposed as a marker of lung injury. Alternatively spliced transcript variants encoding different isoforms have been identified. [provided by RefSeq, Jul 2008]

GeneCards Summary for PDPN Gene

PDPN (Podoplanin) is a Protein Coding gene. Diseases associated with PDPN include Lymphangioma and Subglottis Neoplasm. Among its related pathways are G beta-gamma signalling through PI3Kgamma and Response to elevated platelet cytosolic Ca2+. GO annotations related to this gene include amino acid transmembrane transporter activity and folic acid transporter activity.

UniProtKB/Swiss-Prot for PDPN Gene

  • May be involved in cell migration and/or actin cytoskeleton organization. When expressed in keratinocytes, induces changes in cell morphology with transfected cells showing an elongated shape, numerous membrane protrusions, major reorganization of the actin cytoskeleton, increased motility and decreased cell adhesion. Required for normal lung cell proliferation and alveolus formation at birth. Induces platelet aggregation. Does not have any effect on folic acid or amino acid transport. Does not function as a water channel or as a regulator of aquaporin-type water channels.

Gene Wiki entry for PDPN Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PDPN Gene

Genomics for PDPN Gene

Regulatory Elements for PDPN Gene

Enhancers for PDPN Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01G013604 1.5 FANTOM5 Ensembl ENCODE dbSUPER 14.1 +21.8 21843 1.0 ZNF217 CTBP1 GATA3 RFX1 ZSCAN4 FOS FOXA1 PDPN LRRC38 PRDM2 RNA5SP41
GH01G013617 0.5 Ensembl ENCODE 20.3 +34.4 34439 0.7 PDPN RNA5SP41
GH01G013618 0.4 ENCODE 24.5 +36.3 36348 2.2 CREB1 ATF2 PDPN LRRC38 PRAMEF36P RNA5SP41
GH01G013583 1.4 Ensembl ENCODE dbSUPER 6.8 +1.8 1763 4.4 ZSCAN4 KLF17 ZNF2 ZNF121 GLIS2 ZSCAN5C SCRT2 EGR2 ZNF263 ZEB2 PDPN RNA5SP41
GH01G013592 0.9 Ensembl ENCODE dbSUPER 5.6 +10.3 10338 1.8 TEAD4 EZH2 PDPN RNA5SP41
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PDPN on UCSC Golden Path with GeneCards custom track

Promoters for PDPN Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000001611 835 1401 ZSCAN4 KLF17 ZNF2 ZNF121 GLIS2 ZSCAN5C SCRT2 EGR2 ZNF263 ZEB2

Genomic Location for PDPN Gene

Chromosome:
1
Start:
13,583,465 bp from pter
End:
13,617,957 bp from pter
Size:
34,493 bases
Orientation:
Plus strand

Genomic View for PDPN Gene

Genes around PDPN on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for PDPN Gene

Proteins for PDPN Gene

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

    Protein Symbol:
    Q86YL7-PDPN_HUMAN
    Recommended name:
    Podoplanin
    Protein Accession:
    Q86YL7
    Secondary Accessions:
    • A9Z1Y2
    • B2R6J8
    • E9PB68
    • F6QWX5
    • O60836
    • O95128
    • Q7L375
    • Q8NBQ8
    • Q8NBR3

    Protein attributes for PDPN Gene

    Size:
    162 amino acids
    Molecular mass:
    16698 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAM73655.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAO22143.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAC11550.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAC11557.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAG35495.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for PDPN Gene

    Alternative splice isoforms for PDPN Gene

neXtProt entry for PDPN Gene

Post-translational modifications for PDPN Gene

  • Extensively O-glycosylated. Contains sialic acid residues. O-glycosylation is necessary for platelet aggregation activity.
  • The N-terminus is blocked.
  • Glycosylation at posLast=2525, Thr32, posLast=3434, Thr35, posLast=5252, Thr55, posLast=6565, posLast=6666, posLast=7676, Thr85, Ser86, Ser88, posLast=8989, Ser96, posLast=9898, Thr100, posLast=102102, Thr106, posLast=107107, posLast=109109, posLast=110110, posLast=117117, posLast=119119, and Thr120
  • Modification sites at PhosphoSitePlus

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for PDPN (PDPN)

Protein Products

No data available for DME Specific Peptides for PDPN Gene

Domains & Families for PDPN Gene

Protein Domains for PDPN Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for PDPN Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q86YL7

UniProtKB/Swiss-Prot:

PDPN_HUMAN :
  • Belongs to the podoplanin family.
Family:
  • Belongs to the podoplanin family.
genes like me logo Genes that share domains with PDPN: view

No data available for Gene Families for PDPN Gene

Function for PDPN Gene

Molecular function for PDPN Gene

UniProtKB/Swiss-Prot Function:
May be involved in cell migration and/or actin cytoskeleton organization. When expressed in keratinocytes, induces changes in cell morphology with transfected cells showing an elongated shape, numerous membrane protrusions, major reorganization of the actin cytoskeleton, increased motility and decreased cell adhesion. Required for normal lung cell proliferation and alveolus formation at birth. Induces platelet aggregation. Does not have any effect on folic acid or amino acid transport. Does not function as a water channel or as a regulator of aquaporin-type water channels.

Gene Ontology (GO) - Molecular Function for PDPN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005102 receptor binding IDA 18215137
GO:0005372 NOT water transmembrane transporter activity ISS --
GO:0005515 protein binding IPI 18215137
GO:0008517 NOT folic acid transporter activity ISS --
GO:0015171 NOT amino acid transmembrane transporter activity ISS --
genes like me logo Genes that share ontologies with PDPN: view
genes like me logo Genes that share phenotypes with PDPN: view

Animal Models for PDPN Gene

MGI Knock Outs for PDPN:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PDPN Gene

Localization for PDPN Gene

Subcellular locations from UniProtKB/Swiss-Prot for PDPN Gene

Membrane; Single-pass type I membrane protein. Cell projection, filopodium membrane; Single-pass type I membrane protein. Cell projection, lamellipodium membrane; Single-pass type I membrane protein. Cell projection, microvillus membrane; Single-pass type I membrane protein. Cell projection, ruffle membrane; Single-pass type I membrane protein. Note=Localized to actin-rich microvilli and plasma membrane projections such as filopodia, lamellipodia and ruffles. {ECO:0000250}.

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 PDPN gene
Compartment Confidence
plasma membrane 5
extracellular 2
cytoskeleton 2
nucleus 2
mitochondrion 1
cytosol 1

Gene Ontology (GO) - Cellular Components for PDPN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001726 ruffle ISS --
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane TAS 10393083
GO:0009897 external side of plasma membrane IEA --
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with PDPN: view

Pathways & Interactions for PDPN Gene

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

Pathways by source for PDPN Gene

1 Cell Signaling Technology pathway for PDPN Gene

Interacting Proteins for PDPN Gene

Gene Ontology (GO) - Biological Process for PDPN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000902 cell morphogenesis ISS --
GO:0001946 lymphangiogenesis ISS --
GO:0006693 prostaglandin metabolic process IEA --
GO:0006833 NOT water transport ISS --
GO:0006865 NOT amino acid transport ISS --
genes like me logo Genes that share ontologies with PDPN: view

No data available for SIGNOR curated interactions for PDPN Gene

Drugs & Compounds for PDPN Gene

(2) Drugs for PDPN Gene - From: ClinicalTrials and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Analgesics Pharma 11733

(7) Additional Compounds for PDPN Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with PDPN: view

Transcripts for PDPN Gene

Unigene Clusters for PDPN Gene

Podoplanin:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

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

ExUns: 1 ^ 2a · 2b · 2c · 2d ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8a · 8b
SP1: - - - - -
SP2: - - - - -
SP3:
SP4: - - -
SP5: - -
SP6: - - - -
SP7: - - -
SP8: -

Relevant External Links for PDPN Gene

GeneLoc Exon Structure for
PDPN
ECgene alternative splicing isoforms for
PDPN

Expression for PDPN Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for PDPN Gene

This gene is overexpressed in Fetal Brain (21.6), Prostate (17.6), Testis (15.9), and Oral epithelium (6.5).

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



NURSA nuclear receptor signaling pathways regulating expression of PDPN Gene:

PDPN

SOURCE GeneReport for Unigene cluster for PDPN Gene:

Hs.468675

mRNA Expression by UniProt/SwissProt for PDPN Gene:

Q86YL7-PDPN_HUMAN
Tissue specificity: Highly expressed in placenta, lung, skeletal muscle and brain. Weakly expressed in brain, kidney and liver. In placenta, expressed on the apical plasma membrane of endothelium. In lung, expressed in alveolar epithelium. Up-regulated in colorectal tumors and expressed in 25% of early oral squamous cell carcinomas.

Evidence on tissue expression from TISSUES for PDPN Gene

  • Nervous system(4.8)
  • Intestine(3.2)
  • Lymph node(3.1)
  • Lung(2.9)
  • Heart(2.8)
  • Gall bladder(2.7)
  • Muscle(2.6)
  • Kidney(2.2)
  • Skin(2.2)
  • Blood(2)
genes like me logo Genes that share expression patterns with PDPN: view

Primer Products

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for PDPN Gene

Orthologs for PDPN Gene

This gene was present in the common ancestor of chordates.

Orthologs for PDPN Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PDPN 34 35
  • 99.3 (n)
dog
(Canis familiaris)
Mammalia PDPN 34 35
  • 77.57 (n)
rat
(Rattus norvegicus)
Mammalia Pdpn 34
  • 64.69 (n)
mouse
(Mus musculus)
Mammalia Pdpn 34 16 35
  • 63.99 (n)
cow
(Bos Taurus)
Mammalia BOVAGGRUS 35
  • 46 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PDPN 35
  • 45 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PDPN 35
  • 37 (a)
OneToOne
chicken
(Gallus gallus)
Aves PDPN 35
  • 37 (a)
OneToOne
Species where no ortholog for PDPN was found in the sources mined by GeneCards:
  • 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)
  • 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 squirt (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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for PDPN Gene

ENSEMBL:
Gene Tree for PDPN (if available)
TreeFam:
Gene Tree for PDPN (if available)

Paralogs for PDPN Gene

No data available for Paralogs for PDPN Gene

Variants for PDPN Gene

Sequence variations from dbSNP and Humsavar for PDPN Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1000053183 -- 13,587,118(+) AGCCT(C/T)TTAAA intron-variant
rs1000109461 -- 13,586,071(+) CAGGC(A/G)CCACC intron-variant
rs1000166979 -- 13,590,038(+) GGCCA(A/G)GCTGT intron-variant
rs1000247617 -- 13,598,072(+) AGTGC(A/G)TGGCA intron-variant
rs1000279498 -- 13,582,284(+) CATCT(A/G)TTCTC upstream-variant-2KB

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

Variant ID Type Subtype PubMed ID
esv2744064 CNV deletion 23290073
esv3306243 CNV mobile element insertion 20981092
esv3372731 CNV insertion 20981092
esv3892081 CNV loss 25118596
nsv1113080 CNV deletion 24896259
nsv1144354 CNV deletion 24896259
nsv460483 CNV loss 19166990
nsv545567 CNV gain 21841781
nsv545568 CNV loss 21841781
nsv833092 CNV loss 17160897

Variation tolerance for PDPN Gene

Residual Variation Intolerance Score: 67% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.84; 17.62% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PDPN Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PDPN

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PDPN Gene

Disorders for PDPN Gene

MalaCards: The human disease database

(38) MalaCards diseases for PDPN Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
lymphangioma
  • benign lymphangioma
subglottis neoplasm
  • subglottic tumor
atypical neurofibroma
orbital lymphangioma
conjunctival squamous cell carcinoma
  • conjunctival epidermoid carcinoma
- elite association - COSMIC cancer census association via MalaCards
Search PDPN in MalaCards View complete list of genes associated with diseases

Relevant External Links for PDPN

Genetic Association Database (GAD)
PDPN
Human Genome Epidemiology (HuGE) Navigator
PDPN
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PDPN
genes like me logo Genes that share disorders with PDPN: view

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

Publications for PDPN Gene

  1. Cloning and characterization of gp36, a human mucin-type glycoprotein preferentially expressed in vascular endothelium. (PMID: 10393083) Zimmer G. … Herrler G. (Biochem. J. 1999) 2 3 4 22 64
  2. Evidence against a role of mouse, rat, and two cloned human T1alpha isoforms as a water channel or a regulator of aquaporin-type water channels. (PMID: 9651190) Ma T. … Verkman A.S. (Am. J. Respir. Cell Mol. Biol. 1998) 2 3 4 22 64
  3. Characterization of human PA2.26 antigen (T1alpha-2, podoplanin), a small membrane mucin induced in oral squamous cell carcinomas. (PMID: 15515019) Martin-Villar E. … Quintanilla M. (Int. J. Cancer 2005) 3 4 22 64
  4. Functional sialylated O-glycan to platelet aggregation on Aggrus (T1alpha/Podoplanin) molecules expressed in Chinese hamster ovary cells. (PMID: 15231832) Kaneko M. … Osawa M. (J. Biol. Chem. 2004) 3 4 22 64
  5. Tumorigenic role of podoplanin in esophageal squamous-cell carcinoma. (PMID: 20066519) Rahadiani N. … Morii E. (Ann. Surg. Oncol. 2010) 3 22 64

Products for PDPN Gene

  • Addgene plasmids for PDPN

Sources for PDPN Gene

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