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    PDPN podoplanin [ Homo sapiens (human) ]

    Gene ID: 10630, updated on 26-Aug-2018

    Summary

    Official Symbol
    PDPNprovided by HGNC
    Official Full Name
    podoplaninprovided by HGNC
    Primary source
    HGNC:HGNC:29602
    See related
    Ensembl:ENSG00000162493 MIM:608863; Vega:OTTHUMG00000007912
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    T1A; GP36; GP40; Gp38; OTS8; T1A2; TI1A; T1A-2; AGGRUS; HT1A-1; PA2.26
    Summary
    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]
    Expression
    Biased expression in placenta (RPKM 41.5), urinary bladder (RPKM 20.1) and 13 other tissues See more
    Orthologs

    Genomic context

    See PDPN in Genome Data Viewer
    Location:
    1p36.21
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    109 current GRCh38.p12 (GCF_000001405.38) 1 NC_000001.11 (13583757..13617957)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (13910252..13944452)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene leucine rich repeat containing 38 Neighboring gene uncharacterized LOC107984918 Neighboring gene bromodomain and WD repeat domain containing 1 pseudogene 1 Neighboring gene uncharacterized LOC107984919 Neighboring gene RNA, 5S ribosomal pseudogene 41 Neighboring gene uncharacterized LOC105378612

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Jun 15 11:32:44 2016

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    • GPVI-mediated activation cascade, organism-specific biosystem (from REACTOME)
      GPVI-mediated activation cascade, organism-specific biosystemThe GPVI receptor is a complex of the GPVI protein with Fc epsilon R1 gamma (FcR). The Src family kinases Fyn and Lyn constitutively associate with the GPVI-FcR complex in platelets and initiate plat...
    • Hemostasis, organism-specific biosystem (from REACTOME)
      Hemostasis, organism-specific biosystemHemostasis is a physiological response that culminates in the arrest of bleeding from an injured vessel. Under normal conditions the vascular endothelium supports vasodilation, inhibits platelet adhe...
    • Platelet activation, signaling and aggregation, organism-specific biosystem (from REACTOME)
      Platelet activation, signaling and aggregation, organism-specific biosystemPlatelet activation begins with the initial binding of adhesive ligands and of the excitatory platelet agonists (released or generated at the sites of vascular trauma) to cognate receptors on the pla...

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    NOT amino acid transmembrane transporter activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    chaperone binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    chemokine binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    NOT folic acid transmembrane transporter activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    signaling receptor binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NOT water channel activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    NOT water transmembrane transporter activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    Rho protein signal transduction IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    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 ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cell morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    NOT folic acid transport ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    invadopodium organization IDA
    Inferred from Direct Assay
    more info
    PubMed 
    lung development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    lymph node development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    lymphangiogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    lymphatic endothelial cell fate commitment ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of apoptotic process ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of cell proliferation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    platelet activation TAS
    Traceable Author Statement
    more info
    PubMed 
    positive regulation of cell migration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of cellular component movement ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of epithelial to mesenchymal transition IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of extracellular matrix disassembly IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of platelet aggregation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of platelet aggregation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of cell shape IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of lamellipodium morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of myofibroblast contraction ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of substrate adhesion-dependent cell spreading ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    NOT water transport ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    wound healing, spreading of cells IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    apical plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    basolateral plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cell junction IEA
    Inferred from Electronic Annotation
    more info
     
    cell projection IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cytoplasmic vesicle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cytosol IDA
    Inferred from Direct Assay
    more info
    PubMed 
    filopodium ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    filopodium membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    integral component of plasma membrane TAS
    Traceable Author Statement
    more info
    PubMed 
    invadopodium IDA
    Inferred from Direct Assay
    more info
    PubMed 
    lamellipodium ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    lamellipodium membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    leading edge of lamellipodium IDA
    Inferred from Direct Assay
    more info
    PubMed 
    membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    membrane raft IDA
    Inferred from Direct Assay
    more info
    PubMed 
    microvillus membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    plasma membrane TAS
    Traceable Author Statement
    more info
     
    ruffle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    ruffle membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    tetraspanin-enriched microdomain IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    podoplanin
    Names
    PA2.26 antigen
    T1-alpha
    glycoprotein 36
    glycoprotein, 36-KD
    hT1alpha-1
    hT1alpha-2
    lung type I cell membrane associated glycoprotein
    lung type-I cell membrane-associated glycoprotein (T1A-2)

    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_001006624.1NP_001006625.1  podoplanin isoform c

      See identical proteins and their annotated locations for NP_001006625.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3), contains a distinct 5' UTR and lacks an in-frame portion of the 5' coding region, compared to variant 1. The resulting isoform (c) has a shorter N-terminus when compared to isoform a.
      Source sequence(s)
      AF390106, AK075327, AK075345, AW022996, AY194238, BC014668, BF340649, BQ212176, BQ214601
      Consensus CDS
      CCDS44060.1
      UniProtKB/Swiss-Prot
      Q86YL7
      Related
      ENSP00000427537.1, OTTHUMP00000221498, ENST00000487038.5, OTTHUMT00000021786
      Conserved Domains (1) summary
      pfam05808
      Location:1119
      Podoplanin; Podoplanin
    2. NM_001006625.1NP_001006626.1  podoplanin isoform d

      See identical proteins and their annotated locations for NP_001006626.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4), contains a distinct 5' UTR and has multiple differences in the coding region, compared to variant 1. The resulting isoform (d) is shorter and has a shorter N-terminus when compared to isoform a.
      Source sequence(s)
      AF390106, AK075327, AK075345, AW022996, AY194238, BC014668, BF340649, BQ212176, BQ214601
      Consensus CDS
      CCDS53270.1
      UniProtKB/Swiss-Prot
      Q86YL7
      Related
      ENSP00000426063.1, OTTHUMP00000221499, ENST00000475043.5, OTTHUMT00000021787
      Conserved Domains (1) summary
      pfam05808
      Location:1117
      Podoplanin; Podoplanin
    3. NM_006474.4NP_006465.3  podoplanin isoform a

      See identical proteins and their annotated locations for NP_006465.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
      Source sequence(s)
      AF390106, AK075327, AK075345, AW022996, AY194238, BC014668, BE887331, BF340649
      Consensus CDS
      CCDS30602.1
      UniProtKB/Swiss-Prot
      Q86YL7
      Related
      ENSP00000479591.1, ENST00000617617.4
      Conserved Domains (1) summary
      pfam05808
      Location:77237
      Podoplanin; Podoplanin
    4. NM_198389.2NP_938203.2  podoplanin isoform b

      See identical proteins and their annotated locations for NP_938203.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a.
      Source sequence(s)
      AF390106, AK075327, AK075345, AW022996, AY194238, BC014668, BE887331, BF340649
      Consensus CDS
      CCDS41266.1
      UniProtKB/Swiss-Prot
      Q86YL7
      Related
      ENSP00000365225.4, OTTHUMP00000009640, ENST00000376057.8, OTTHUMT00000021784
      Conserved Domains (1) summary
      pfam05808
      Location:77235
      Podoplanin; Podoplanin

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCh38.p12 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p12 Primary Assembly

      Range
      13583757..13617957
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006710295.1XP_006710358.1  podoplanin isoform X1

      See identical proteins and their annotated locations for XP_006710358.1

      UniProtKB/Swiss-Prot
      Q86YL7
      Related
      ENSP00000365229.4, OTTHUMP00000221492, ENST00000376061.8, OTTHUMT00000367733
      Conserved Domains (1) summary
      pfam05808
      Location:1119
      Podoplanin; Podoplanin
    2. XM_024451415.1XP_024307183.1  podoplanin isoform X2

      Conserved Domains (1) summary
      pfam05808
      Location:1117
      Podoplanin; Podoplanin
    3. XM_024451404.1XP_024307172.1  podoplanin isoform X1

      Conserved Domains (1) summary
      pfam05808
      Location:1119
      Podoplanin; Podoplanin
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