Pdpn podoplanin [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pdpnprovided by RGD
Official Full Name: podoplaninprovided by RGD
Primary source: RGD:61819
See related: EnsemblRapid:ENSRNOG00000014961 AllianceGenome:RGD:61819
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: E11; T1A; Gp38; OTS-8; RTI40; RTI140; T1-alpha
Summary: Predicted to enable chemokine binding activity; protein-folding chaperone binding activity; and signaling receptor binding activity. Involved in several processes, including lung development; positive regulation of platelet activation; and response to hyperoxia. Acts upstream of or within cell adhesion; positive regulation of cell migration; and tube morphogenesis. Located in apical plasma membrane. Biomarker of adult respiratory distress syndrome; bacterial pneumonia; nephrosis; and oligohydramnios. Orthologous to human PDPN (podoplanin). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Lung (RPKM 909.0), Kidney (RPKM 63.3) and 2 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q36

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (160884995..160919112, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (155601691..155635656, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (161947137..161981441, complement)

Chromosome 5 - NC_086023.1 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 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?

the binding epitope of PMab-2 remains to be determined. Herein, we investigated the epitope of PMab-2 using enzyme-linked immunosorbent assay, immunohistochemical analysis, and flow cytometry. The results revealed that the critical epitope of PMab-2 is Leu46 and Glu47 of rPDPN.
Title: Elucidation of Critical Epitope of Anti-Rat Podoplanin Monoclonal Antibody PMab-2.
Four genes are expressed significantly higher in basal bone than in alveolar bone: SOST, E-11, DMP-1, and MEPE. Three of the proteins (SOST, MEPE, and DMP-1) are associated with mature osteocytes, indicating that basal bone has more mature osteocyte phenotypes because the immature osteocyte converts to a mature osteocyte as a result of bone mineralization.
Title: Inherent physical characteristics and gene expression differences between alveolar and basal bones.
In rats treated with MGO, peritoneal fibrous thickening with the appearance of basophilic spindle cells with podoplanin, cytokeratin, and alpha-smooth muscle actin at the surface of the peritoneum was observed
Title: Methylglyoxal Induced Basophilic Spindle Cells with Podoplanin at the Surface of Peritoneum in Rat Peritoneal Dialysis Model.
There was a significant increase in the expression of both TTF-1 and T1alpha mRNA in the IGF-2 group, in comparison to the control group after 48 h of culture.
Title: Effect of insulin-like growth factors on lung development in a nitrofen-induced CDH rat model.
Decreased expression of podoplanin plays a role in the decrease of glomerular permselectivity.
Title: Selective loss of podoplanin protein expression accompanies proteinuria and precedes alterations in podocyte morphology in a spontaneous proteinuric rat model.
Albuminuria in male and female rats is preceded by glomerular hypertrophy and accompanied by focal and segmental loss of podoplanin when focal segmental glomerulosclerosis is not yet present.
Title: Glomerular hypertrophy precedes albuminuria and segmental loss of podoplanin in podocytes in Munich-Wistar-Frömter rats.
RTI(40)/MMC4/RTII(70)- and RTI(40)/MMC4-positive cells are intermediates in the ATII-to-ATI cell transformation.
Title: Coexpression of RTI40 with alveolar epithelial type II cell proteins in lungs following injury: identification of alveolar intermediate cell types.
aminopeptidase p and podoplanin are expressed in endothelial cells of blood and lymphatic vessels
Title: Lymphatic microvessels in the rat remnant kidney model of renal fibrosis: aminopeptidase p and podoplanin are discriminatory markers for endothelial cells of blood and lymphatic vessels.
podoplanin may have a role in tumor progression
Title: Up-regulation of the lymphatic marker podoplanin, a mucin-type transmembrane glycoprotein, in human squamous cell carcinomas and germ cell tumors.
Aggrus is a platelet aggregation-inducing factor expressed in colorectal tumors
Title: Molecular identification of Aggrus/T1alpha as a platelet aggregation-inducing factor expressed in colorectal tumors.

Submit: New GeneRIF Correction

General gene information

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Markers

RH142306 (e-PCR)
- UniSTS:231553

AU048611 (e-PCR)
- UniSTS:145061

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
NOT enables amino acid transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
NOT enables amino acid transmembrane transporter activity	ISS Inferred from Sequence or Structural Similarity more info
enables chemokine binding	ISO Inferred from Sequence Orthology more info
NOT enables folic acid transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
NOT enables folic acid transmembrane transporter activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein-folding chaperone binding	ISO Inferred from Sequence Orthology more info
enables signaling receptor binding	ISO Inferred from Sequence Orthology more info
enables signaling receptor binding	ISS Inferred from Sequence or Structural Similarity more info
NOT enables water channel activity	ISO Inferred from Sequence Orthology more info
NOT enables water channel activity	ISS Inferred from Sequence or Structural Similarity more info
NOT enables water transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
NOT enables water transmembrane transporter activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in Rho protein signal transduction	ISO Inferred from Sequence Orthology more info
involved_in Rho protein signal transduction	ISS Inferred from Sequence or Structural Similarity more info
involved_in actin-mediated cell contraction	ISO Inferred from Sequence Orthology more info
involved_in actin-mediated cell contraction	ISS Inferred from Sequence or Structural Similarity more info
NOT involved_in amino acid transport	ISO Inferred from Sequence Orthology more info
NOT involved_in amino acid transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cell adhesion	IDA Inferred from Direct Assay more info	PubMed
involved_in cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell migration	ISO Inferred from Sequence Orthology more info
involved_in cell migration	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell-cell adhesion	ISO Inferred from Sequence Orthology more info
NOT involved_in folic acid transport	ISO Inferred from Sequence Orthology more info
NOT involved_in folic acid transport	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within lung alveolus development	ISO Inferred from Sequence Orthology more info
involved_in lung development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within lung development	ISO Inferred from Sequence Orthology more info
involved_in lung development	ISS Inferred from Sequence or Structural Similarity more info
involved_in lymph node development	ISO Inferred from Sequence Orthology more info
involved_in lymph node development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within lymphangiogenesis	ISO Inferred from Sequence Orthology more info
involved_in lymphangiogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in lymphatic endothelial cell fate commitment	ISO Inferred from Sequence Orthology more info
involved_in lymphatic endothelial cell fate commitment	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell population proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in nervous system development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within positive regulation of cell migration	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of cell migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of cell motility	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of epithelial to mesenchymal transition	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of epithelial to mesenchymal transition	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of extracellular matrix disassembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of extracellular matrix disassembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of platelet activation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of platelet aggregation	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of platelet aggregation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of platelet aggregation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within prostaglandin metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of G1/S transition of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell adhesion	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of cell shape	IEA Inferred from Electronic Annotation more info
involved_in regulation of lamellipodium morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in regulation of lamellipodium morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of myofibroblast contraction	ISO Inferred from Sequence Orthology more info
involved_in regulation of myofibroblast contraction	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of substrate adhesion-dependent cell spreading	ISO Inferred from Sequence Orthology more info
involved_in regulation of substrate adhesion-dependent cell spreading	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to hyperoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in signal transduction	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within tube morphogenesis	IDA Inferred from Direct Assay more info	PubMed
NOT acts_upstream_of_or_within water transport	ISO Inferred from Sequence Orthology more info
NOT involved_in water transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in wound healing, spreading of cells	ISO Inferred from Sequence Orthology more info
involved_in wound healing, spreading of cells	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in anchoring junction	IEA Inferred from Electronic Annotation more info
is_active_in apical plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in apical plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in basolateral plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in basolateral plasma membrane	ISO Inferred from Sequence Orthology more info
located_in basolateral plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in cell junction	ISO Inferred from Sequence Orthology more info
located_in cell projection	ISO Inferred from Sequence Orthology more info
located_in cell projection	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasmic vesicle	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic vesicle	ISS Inferred from Sequence or Structural Similarity more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISS Inferred from Sequence or Structural Similarity more info
located_in external side of plasma membrane	ISO Inferred from Sequence Orthology more info
located_in filopodium	ISO Inferred from Sequence Orthology more info
located_in filopodium	ISS Inferred from Sequence or Structural Similarity more info
located_in filopodium membrane	ISO Inferred from Sequence Orthology more info
located_in filopodium membrane	ISS Inferred from Sequence or Structural Similarity more info
is_active_in lamellipodium	IBA Inferred from Biological aspect of Ancestor more info
located_in lamellipodium	ISO Inferred from Sequence Orthology more info
located_in lamellipodium	ISS Inferred from Sequence or Structural Similarity more info
located_in lamellipodium membrane	ISO Inferred from Sequence Orthology more info
located_in lamellipodium membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in leading edge of lamellipodium	ISO Inferred from Sequence Orthology more info
located_in leading edge of lamellipodium	ISS Inferred from Sequence or Structural Similarity more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in membrane raft	ISO Inferred from Sequence Orthology more info
located_in membrane raft	ISS Inferred from Sequence or Structural Similarity more info
located_in microvillus membrane	ISO Inferred from Sequence Orthology more info
located_in microvillus membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in ruffle	ISO Inferred from Sequence Orthology more info
located_in ruffle	ISS Inferred from Sequence or Structural Similarity more info
located_in ruffle membrane	ISO Inferred from Sequence Orthology more info
located_in ruffle membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in tetraspanin-enriched microdomain	ISO Inferred from Sequence Orthology more info
located_in tetraspanin-enriched microdomain	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: podoplanin

Names: E11 antigen epitope; epithelial cell surface transmembrane protein antigen; glycoprotein 38; pulmonary type I alveolar epithelial cell transmembrane differentiation marker; type I cell 40 kDa protein

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_001429771.1 → NP_001416700.1 podoplanin isoform 2 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005

UniProtKB/TrEMBL

A0A8I6AE24
NM_019358.3 → NP_062231.2 podoplanin isoform 1 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005

UniProtKB/Swiss-Prot

O08731, O55210, Q64294

UniProtKB/TrEMBL

A0A0G2JSN8, A6ITZ5

Related

ENSRNOP00000020316.4, ENSRNOT00000020316.7

Conserved Domains (1) summary

pfam05808
Location:29 → 165

Podoplanin

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_086023.1 Reference GRCr8

Range

160884995..160919112 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006239338.5 → XP_006239400.1 podoplanin isoform X1

UniProtKB/Swiss-Prot

O08731, O55210, Q64294

Conserved Domains (1) summary

pfam05808
Location:1 → 165

Podoplanin; Podoplanin