U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    PODXL podocalyxin like [ Homo sapiens (human) ]

    Gene ID: 5420, updated on 7-Apr-2024

    Summary

    Official Symbol
    PODXLprovided by HGNC
    Official Full Name
    podocalyxin likeprovided by HGNC
    Primary source
    HGNC:HGNC:9171
    See related
    Ensembl:ENSG00000128567 MIM:602632; AllianceGenome:HGNC:9171
    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; PDX; PCLP; Gp200; gp135; PCLP-1; PODXL1
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See PODXL in Genome Data Viewer
    Location:
    7q32.3
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (131500271..131556628, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (132817863..132874188, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (131185030..131241387, complement)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene muskelin 1 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131012400-131012976 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131012977-131013553 Neighboring gene uncharacterized LOC124901747 Neighboring gene MKLN1 antisense RNA Neighboring gene ReSE screen-validated silencer GRCh37_chr7:131070963-131071136 Neighboring gene MPRA-validated peak6726 silencer Neighboring gene NANOG hESC enhancer GRCh37_chr7:131123760-131124261 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131190418-131191332 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18662 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131198033-131198892 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:131202395-131202894 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26677 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:131214845-131215344 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131220834-131221758 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131229138-131229981 Neighboring gene ribosomal protein L31 pseudogene 36 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:131235953-131236460 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:131236969-131237476 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18663 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131241775-131242322 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18664 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131266468-131267072 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:131269032-131269532 Neighboring gene MPRA-validated peak6728 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:131277274-131277774 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131289409-131290262 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131290263-131291118 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131291119-131291972 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131305309-131305854 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131308691-131309358 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131309359-131310024 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131323052-131323648 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:131333987-131334690 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131337191-131337758 Neighboring gene Sharpr-MPRA regulatory regions 8940 and 15248 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:131340839-131341390 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 Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC138240

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in cell adhesion IEA
    Inferred from Electronic Annotation
    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
     
    involved_in epithelial tube formation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of cell adhesion ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of cell-cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in negative regulation of cell-cell adhesion ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in podocyte development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of cell migration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of cell-cell adhesion mediated by integrin IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of cell-cell adhesion mediated by integrin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of microvillus assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of microvillus assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    is_active_in apical plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in apical plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in centriolar satellite IDA
    Inferred from Direct Assay
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in extracellular exosome HDA PubMed 
    located_in extracellular exosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in extracellular space HDA PubMed 
    located_in filopodium IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in intracellular membrane-bounded organelle IDA
    Inferred from Direct Assay
    more info
     
    located_in lamellipodium IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in membrane raft IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in microvillus membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in microvillus membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
     
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in ruffle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in 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)

    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.

    Genomic

    1. NG_042104.1 RefSeqGene

      Range
      4990..61347
      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
      A6NHX8, O00592, Q52LZ7, Q53ER6
      UniProtKB/TrEMBL
      B7ZKQ8
      Related
      ENSP00000367817.3, ENST00000378555.8
      Conserved Domains (1) summary
      pfam06365
      Location:358557
      CD34_antigen; CD34/Podocalyxin family
    2. NM_005397.4NP_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)
      AC008264, AK055816, AK223573, BC042466, BP355358
      Consensus CDS
      CCDS47714.1
      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: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000007.14 Reference GRCh38.p14 Primary Assembly

      Range
      131500271..131556628 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      132817863..132874188 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)