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    Pdpn podoplanin [ Rattus norvegicus (Norway rat) ]

    Gene ID: 54320, updated on 12-Aug-2018

    Summary

    Official Symbol
    Pdpnprovided by RGD
    Official Full Name
    podoplaninprovided by RGD
    Primary source
    RGD:61819
    See related
    Ensembl:ENSRNOG00000014961
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    E11; Gp38; OTS-8; RTI40; T1-alpha
    Summary
    membrane glycoprotein that may function in lung development [RGD, Feb 2006]
    Expression
    Biased expression in Lung (RPKM 909.0), Kidney (RPKM 63.3) and 2 other tissues See more
    Orthologs

    Genomic context

    See Pdpn in Genome Data Viewer
    Location:
    5q36
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (161947137..161981441, complement)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 5 NC_005104.3 (165646114..165679595, complement)

    Chromosome 5 - NC_005104.4Genomic Context describing neighboring genes Neighboring gene ribosomal protein S20-like Neighboring gene alpha-tubulin pseudogene and flanks Neighboring gene uncharacterized LOC108351056 Neighboring gene leucine rich repeat containing 38 Neighboring gene PRAME family member 18-like

    Genomic regions, transcripts, and products

    Expression

    • Project title: 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    NOT amino acid transmembrane transporter activity ISO
    Inferred from Sequence Orthology
    more info
     
    NOT amino acid transmembrane transporter activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    chaperone binding ISO
    Inferred from Sequence Orthology
    more info
     
    chemokine binding ISO
    Inferred from Sequence Orthology
    more info
     
    NOT folic acid transmembrane transporter activity ISO
    Inferred from Sequence Orthology
    more info
     
    NOT folic acid transmembrane transporter activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    molecular_function ND
    No biological Data available
    more info
     
    signaling receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    signaling receptor binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    NOT water channel activity ISO
    Inferred from Sequence Orthology
    more info
     
    NOT water channel activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    NOT water transmembrane transporter activity ISO
    Inferred from Sequence Orthology
    more info
     
    NOT water transmembrane transporter activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    Rho protein signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    Rho protein signal transduction ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    actin-mediated cell contraction ISO
    Inferred from Sequence Orthology
    more info
     
    actin-mediated cell contraction ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    amino acid transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
     
    NOT amino acid transport ISO
    Inferred from Sequence Orthology
    more info
     
    NOT amino acid transport ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cell adhesion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cell morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    cell morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    cell-cell adhesion ISO
    Inferred from Sequence Orthology
    more info
     
    NOT folic acid transport ISO
    Inferred from Sequence Orthology
    more info
     
    NOT folic acid transport ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    inflammatory response IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    invadopodium organization ISO
    Inferred from Sequence Orthology
    more info
     
    invadopodium organization ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    lung alveolus development ISO
    Inferred from Sequence Orthology
    more info
     
    lung development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    lung development ISO
    Inferred from Sequence Orthology
    more info
     
    lung development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    lymph node development ISO
    Inferred from Sequence Orthology
    more info
     
    lymph node development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    lymphangiogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    lymphangiogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    lymphatic endothelial cell fate commitment ISO
    Inferred from Sequence Orthology
    more info
     
    lymphatic endothelial cell fate commitment ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of apoptotic process ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of cell proliferation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    nervous system development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    positive regulation of cell migration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of cellular component movement ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of cellular component movement ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of epithelial to mesenchymal transition ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of epithelial to mesenchymal transition ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of extracellular matrix disassembly ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of extracellular matrix disassembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of platelet activation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of platelet aggregation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of platelet aggregation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    prostaglandin metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of G1/S transition of mitotic cell cycle ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of cell adhesion ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of cell adhesion ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of cell shape IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of lamellipodium morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of lamellipodium morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of myofibroblast contraction ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of myofibroblast contraction ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of substrate adhesion-dependent cell spreading ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of substrate adhesion-dependent cell spreading ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    response to hyperoxia IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    tube morphogenesis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NOT water transport ISO
    Inferred from Sequence Orthology
    more info
     
    NOT water transport ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    wound healing, spreading of cells ISO
    Inferred from Sequence Orthology
    more info
     
    wound healing, spreading of cells ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    apical plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    apical plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    basolateral plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    basolateral plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cell junction IEA
    Inferred from Electronic Annotation
    more info
     
    cell projection ISO
    Inferred from Sequence Orthology
    more info
     
    cell projection ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cytoplasmic vesicle ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasmic vesicle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    cytosol ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    external side of plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    filopodium ISO
    Inferred from Sequence Orthology
    more info
     
    filopodium ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    filopodium membrane ISO
    Inferred from Sequence Orthology
    more info
     
    filopodium membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    invadopodium ISO
    Inferred from Sequence Orthology
    more info
     
    invadopodium ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    lamellipodium ISO
    Inferred from Sequence Orthology
    more info
     
    lamellipodium ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    lamellipodium membrane ISO
    Inferred from Sequence Orthology
    more info
     
    lamellipodium membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    leading edge of lamellipodium ISO
    Inferred from Sequence Orthology
    more info
     
    leading edge of lamellipodium ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    membrane ISO
    Inferred from Sequence Orthology
    more info
     
    membrane raft ISO
    Inferred from Sequence Orthology
    more info
     
    membrane raft ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    microvillus membrane ISO
    Inferred from Sequence Orthology
    more info
     
    microvillus membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    ruffle ISO
    Inferred from Sequence Orthology
    more info
     
    ruffle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    ruffle membrane ISO
    Inferred from Sequence Orthology
    more info
     
    ruffle membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    tetraspanin-enriched microdomain ISO
    Inferred from Sequence Orthology
    more info
     
    tetraspanin-enriched microdomain ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    podoplanin
    Names
    E11 antigen epitope
    RTI140
    T1A
    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)

    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_019358.1NP_062231.1  podoplanin precursor

      See identical proteins and their annotated locations for NP_062231.1

      Status: PROVISIONAL

      Source sequence(s)
      U07797
      UniProtKB/Swiss-Prot
      Q64294
      Related
      ENSRNOP00000020316.4, ENSRNOT00000020316.5
      Conserved Domains (1) summary
      pfam05808
      Location:1165
      Podoplanin; Podoplanin

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005104.4 Reference Rnor_6.0 Primary Assembly

      Range
      161947137..161981441 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006239338.3XP_006239400.1  podoplanin isoform X1

      Conserved Domains (1) summary
      pfam05808
      Location:1165
      Podoplanin; Podoplanin

    Alternate Rn_Celera

    Genomic

    1. AC_000073.1 Alternate Rn_Celera

      Range
      153929730..153964026 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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