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PODXL podocalyxin like [ Homo sapiens (human) ]

Gene ID: 5420, updated on 23-Apr-2019

Summary

Official Symbol
PODXLprovided by HGNC
Official Full Name
podocalyxin likeprovided by HGNC
Primary source
HGNC:HGNC:9171
See related
Ensembl:ENSG00000128567 MIM:602632
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
PC; PCLP; Gp200; PCLP-1
Summary
This gene encodes a member of the sialomucin protein family. The encoded protein was originally identified as an important component of glomerular podocytes. Podocytes are highly differentiated epithelial cells with interdigitating foot processes covering the outer aspect of the glomerular basement membrane. Other biological activities of the encoded protein include: binding in a membrane protein complex with Na+/H+ exchanger regulatory factor to intracellular cytoskeletal elements, playing a role in hematopoetic cell differentiation, and being expressed in vascular endothelium cells and binding to L-selectin. [provided by RefSeq, Jul 2008]
Expression
Broad expression in kidney (RPKM 88.8), lung (RPKM 31.4) and 19 other tissues See more
Orthologs

Genomic context

See PODXL in Genome Data Viewer
Location:
7q32.3
Exon count:
9
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 7 NC_000007.14 (131500262..131556617, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (131185021..131241376, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene muskelin 1 Neighboring gene ribosomal protein L27 pseudogene 11 Neighboring gene MKLN1 antisense RNA Neighboring gene ribosomal protein L31 pseudogene 36 Neighboring gene eukaryotic translation elongation factor 1 beta 2 pseudogene 6 Neighboring gene ribosomal protein S14 pseudogene 10

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 FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Ectoderm Differentiation, organism-specific biosystem (from WikiPathways)
    Ectoderm Differentiation, organism-specific biosystemModel depicting ectoderm specification based on the literature and highly enriched gene expression profiles via comparison across dozens of independent induced and embryonic pluripotent stem cell lin...
  • Hepatitis C and Hepatocellular Carcinoma, organism-specific biosystem (from WikiPathways)
    Hepatitis C and Hepatocellular Carcinoma, organism-specific biosystemPathway model based on hub miRNAs and their putative targets from network analysis. - From a set of differentially expressed genes in both chronic HCV (hepatitis C virus) and HCC (hepatocellular carc...
  • Primary Focal Segmental Glomerulosclerosis FSGS, organism-specific biosystem (from WikiPathways)
    Primary Focal Segmental Glomerulosclerosis FSGS, organism-specific biosystemPrimary or idiopathic focal segmental glomerulosclerosis (FSGS) a cause of nephrotic syndrome in children and adolescents, as well as an important cause of end stage renal disease in adults. FSGS is ...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC138240

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
cell adhesion IEA
Inferred from Electronic Annotation
more info
 
cell migration ISS
Inferred from Sequence or Structural Similarity
more info
 
epithelial tube formation ISS
Inferred from Sequence or Structural Similarity
more info
 
glomerular visceral epithelial cell development ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of cell adhesion ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of cell-cell adhesion ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of cell migration IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of cell-cell adhesion mediated by integrin IDA
Inferred from Direct Assay
more info
PubMed 
regulation of microvillus assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
apical plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
extracellular exosome HDA PubMed 
extracellular exosome IDA
Inferred from Direct Assay
more info
PubMed 
extracellular space HDA PubMed 
filopodium IDA
Inferred from Direct Assay
more info
PubMed 
integral component of plasma membrane TAS
Traceable Author Statement
more info
PubMed 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
lamellipodium IDA
Inferred from Direct Assay
more info
PubMed 
membrane raft IEA
Inferred from Electronic Annotation
more info
 
microtubule organizing center IDA
Inferred from Direct Assay
more info
 
microvillus membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
nucleolus IDA
Inferred from Direct Assay
more info
 
plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
ruffle IDA
Inferred from Direct Assay
more info
PubMed 
slit diaphragm ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
podocalyxin
Names
GCTM-2 antigen
podocalyxin-like protein 1

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.

Genomic

  1. NG_042104.1 RefSeqGene

    Range
    5001..61356
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001018111.3NP_001018121.1  podocalyxin isoform 1 precursor

    See identical proteins and their annotated locations for NP_001018121.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC008264, AK055816, AK223573, BC042466, BP355358, CN290641
    Consensus CDS
    CCDS34755.1
    UniProtKB/Swiss-Prot
    O00592
    UniProtKB/TrEMBL
    Q96N83
    Related
    ENSP00000367817.3, ENST00000378555.8
    Conserved Domains (1) summary
    pfam06365
    Location:358557
    CD34_antigen; CD34/Podocalyxin family
  2. NM_005397.3NP_005388.2  podocalyxin isoform 2 precursor

    See identical proteins and their annotated locations for NP_005388.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame alternate exon compared to variant 1, resulting in a shorter protein (isoform 2).
    Source sequence(s)
    AK055816, AK223573, BC042466, BP355358
    Consensus CDS
    CCDS47714.1
    UniProtKB/Swiss-Prot
    O00592
    UniProtKB/TrEMBL
    Q96N83
    Related
    ENSP00000319782.9, ENST00000322985.9
    Conserved Domains (2) summary
    pfam06365
    Location:326525
    CD34_antigen; CD34/Podocalyxin family
    cl25496
    Location:33293
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p12 Primary Assembly

    Range
    131500262..131556617 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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