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PDPN podoplanin [ Homo sapiens (human) ]

Gene ID: 10630, updated on 27-Nov-2024

Summary

Official Symbol
PDPNprovided by HGNC
Official Full Name
podoplaninprovided by HGNC
Primary source
HGNC:HGNC:29602
See related
Ensembl:ENSG00000162493 MIM:608863; AllianceGenome:HGNC:29602
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; D2-40; 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
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Genomic context

See PDPN in Genome Data Viewer
Location:
1p36.21
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (13583757..13617957)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (13025717..13059901)
RS_2024_09 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 BRD4-independent group 4 enhancer GRCh37_chr1:13848024-13849223 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 214 Neighboring gene bromodomain and WD repeat domain containing 1 pseudogene 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:13910230-13910768 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 Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
NOT enables amino acid transmembrane transporter activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables chemokine binding IPI
Inferred from Physical Interaction
more info
PubMed 
NOT enables folic acid transmembrane transporter activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein-folding chaperone binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables signaling receptor binding IDA
Inferred from Direct Assay
more info
PubMed 
NOT enables water channel activity ISS
Inferred from Sequence or Structural Similarity
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 IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in actin-mediated cell contraction ISS
Inferred from Sequence or Structural Similarity
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
 
involved_in cell migration IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in cell migration ISS
Inferred from Sequence or Structural Similarity
more info
 
NOT involved_in folic acid transport ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in lung development ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in lymph node development ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in lymphangiogenesis ISS
Inferred from Sequence or Structural Similarity
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 ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of cell population proliferation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in platelet activation TAS
Traceable Author Statement
more info
PubMed 
involved_in positive regulation of cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of epithelial to mesenchymal transition IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of extracellular matrix disassembly IDA
Inferred from Direct Assay
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 IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of platelet aggregation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of cell shape IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of lamellipodium morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of myofibroblast contraction ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of substrate adhesion-dependent cell spreading ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
 
NOT involved_in water transport ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in wound healing, spreading of cells IMP
Inferred from Mutant Phenotype
more info
PubMed 
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 
is_active_in basolateral plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in basolateral plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in cell junction IDA
Inferred from Direct Assay
more info
 
located_in cell projection IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasmic vesicle IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
PubMed 
located_in filopodium ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in filopodium membrane IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in lamellipodium IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in lamellipodium ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in lamellipodium membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in leading edge of lamellipodium IDA
Inferred from Direct Assay
more info
PubMed 
located_in membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in membrane raft IDA
Inferred from Direct Assay
more info
PubMed 
located_in microvillus membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in mitochondrion IDA
Inferred from Direct Assay
more info
 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
located_in ruffle ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in ruffle membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in 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)

NEW Try the new Transcript table

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_001006624.2NP_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, AL354712, AW022996, AY194238, BC014668, BF340649, BQ212176, BQ214601
    Consensus CDS
    CCDS44060.1
    UniProtKB/Swiss-Prot
    Q86YL7
    Related
    ENSP00000427537.1, ENST00000487038.5
    Conserved Domains (1) summary
    pfam05808
    Location:1119
    Podoplanin; Podoplanin
  2. NM_001006625.2NP_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, AL354712, AW022996, AY194238, BC014668, BF340649, BQ212176, BQ214601
    Consensus CDS
    CCDS53270.1
    UniProtKB/Swiss-Prot
    Q86YL7
    Related
    ENSP00000426063.1, ENST00000475043.5
    Conserved Domains (1) summary
    pfam05808
    Location:1117
    Podoplanin
  3. NM_001385053.1NP_001371982.1  podoplanin isoform d

    Status: REVIEWED

    Source sequence(s)
    AL354712, AL359771
    Consensus CDS
    CCDS53270.1
    Conserved Domains (1) summary
    pfam05808
    Location:1117
    Podoplanin
  4. NM_006474.5NP_006465.4  podoplanin isoform a precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AL354712, AL359771, AY194238
    Consensus CDS
    CCDS30602.2
    UniProtKB/Swiss-Prot
    A9Z1Y2, B2R6J8, E9PB68, F6QWX5, O60836, O95128, Q7L375, Q86YL7, Q8NBQ8, Q8NBR3
    UniProtKB/TrEMBL
    H0YA72
    Related
    ENSP00000478125.1, ENST00000621990.5
    Conserved Domains (1) summary
    pfam05808
    Location:28161
    Podoplanin
  5. 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, ENST00000376057.8
    Conserved Domains (1) summary
    pfam05808
    Location:77235
    Podoplanin; Podoplanin

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

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

mRNA and Protein(s)

  1. XM_024451404.2XP_024307172.1  podoplanin isoform X1

    Conserved Domains (1) summary
    pfam05808
    Location:1119
    Podoplanin; Podoplanin
  2. XM_006710295.2XP_006710358.1  podoplanin isoform X1

    See identical proteins and their annotated locations for XP_006710358.1

    UniProtKB/Swiss-Prot
    Q86YL7
    Related
    ENSP00000365229.4, ENST00000376061.8
    Conserved Domains (1) summary
    pfam05808
    Location:1119
    Podoplanin; Podoplanin
  3. XM_047434471.1XP_047290427.1  podoplanin isoform X2

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    13025717..13059901
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054333893.1XP_054189868.1  podoplanin isoform X1

  2. XM_054333896.1XP_054189871.1  podoplanin isoform X2

  3. XM_054333895.1XP_054189870.1  podoplanin isoform X1

  4. XM_054333894.1XP_054189869.1  podoplanin isoform X1

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_013317.1: Suppressed sequence

    Description
    NM_013317.1: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.