This gene is a member of the CD34 family of cell surface transmembrane proteins, which are characterized by an N-terminal extracellular mucin domain, globular and stalk domains, a single pass transmembrane region, and a charged cytoplasmic tail. The encoded protein is a ligand for vascular selectins. [provided by RefSeq, Oct 2012] See more...

Aliases for PODXL2 Gene

Aliases for PODXL2 Gene

  • Podocalyxin Like 2 2 3 5
  • Endoglycan 2 3 4
  • Podocalyxin-Like Protein 2 3 4
  • Podocalyxin-Like 2 2
  • PODLX2 3
  • EG 3

External Ids for PODXL2 Gene

Previous GeneCards Identifiers for PODXL2 Gene

  • GC03P128830
  • GC03P127348
  • GC03P124737

Summaries for PODXL2 Gene

Entrez Gene Summary for PODXL2 Gene

  • This gene is a member of the CD34 family of cell surface transmembrane proteins, which are characterized by an N-terminal extracellular mucin domain, globular and stalk domains, a single pass transmembrane region, and a charged cytoplasmic tail. The encoded protein is a ligand for vascular selectins. [provided by RefSeq, Oct 2012]

GeneCards Summary for PODXL2 Gene

PODXL2 (Podocalyxin Like 2) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include glycosaminoglycan binding.

UniProtKB/Swiss-Prot Summary for PODXL2 Gene

  • Acts as a ligand for vascular selectins. Mediates rapid rolling of leukocytes over vascular surfaces through high affinity divalent cation-dependent interactions with E-, P- and L-selectins.

Additional gene information for PODXL2 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for PODXL2 Gene

Genomics for PODXL2 Gene

GeneHancer (GH) Regulatory Elements for PODXL2 Gene

Promoters and enhancers for PODXL2 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03J127629 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 510.5 +0.4 421 2 MYC NRF1 REST ZBTB11 ZNF423 ZBTB26 TGIF2 CTBP1 EZH2 HDAC2 PODXL2 ENSG00000285600 lnc-ABTB1-1
GH03J127588 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 18.9 -38.4 -38360 5.2 EP300 ZBTB40 ZNF217 CTCF TCF12 SIN3A MYC POLR2G SP1 PHF8 TPRA1 piR-47763 MCM2 ABTB1 PODXL2 MIR7976
GH03J127688 Enhancer 1.2 Ensembl ENCODE CraniofacialAtlas dbSUPER 21 +60.9 60882 4.1 CTCF FOS ZIC2 GABPA REST SMC3 DEK MYC RAD21 GABPB1 PODXL2 TPRA1 ABTB1 lnc-MGLL-1 AB372640 MGLL
GH03J127671 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 10.5 +43.4 43442 3.6 SIN3A POLR2G GTF2E2 PHF8 ZFX ZIC2 POLR2A ZNF423 ZBTB26 KLF4 ABTB1 HSALNG0028761 lnc-ABTB1-1 TPRA1 PODXL2
GH03J127766 Promoter/Enhancer 1.8 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 10.8 +143.9 143885 12.1 ZNF217 TCF12 JUND FOS ZIC2 ZNF623 RELA MEF2C NFYB FOXA2 MCM2 TPRA1 ABTB1 MGLL PODXL2 lnc-ABTB1-3 lnc-TPRA1-4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PODXL2 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for PODXL2

Top Transcription factor binding sites by QIAGEN in the PODXL2 gene promoter:
  • AREB6
  • c-Myb
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5
  • E47
  • Sox5

Genomic Locations for PODXL2 Gene

Genomic Locations for PODXL2 Gene
chr3:127,629,159-127,672,810
(GRCh38/hg38)
Size:
43,652 bases
Orientation:
Plus strand
chr3:127,348,024-127,391,652
(GRCh37/hg19)
Size:
43,629 bases
Orientation:
Plus strand

Genomic View for PODXL2 Gene

Genes around PODXL2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PODXL2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PODXL2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PODXL2 Gene

Proteins for PODXL2 Gene

  • Protein details for PODXL2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NZ53-PDXL2_HUMAN
    Recommended name:
    Podocalyxin-like protein 2
    Protein Accession:
    Q9NZ53
    Secondary Accessions:
    • Q6UVY4
    • Q8WUV6

    Protein attributes for PODXL2 Gene

    Size:
    605 amino acids
    Molecular mass:
    65076 Da
    Quaternary structure:
    • Homodimer; disulfide-linked. Interacts with SELL, SELE and SELP.

    Alternative splice isoforms for PODXL2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PODXL2 Gene

Post-translational modifications for PODXL2 Gene

  • Glycosylated; contains chondroitin sulfate. Displays sialylated O-linked oligosaccharides.
  • Sulfation is necessary for interaction with SELL. Sialylated O-linked oligosaccharides are necessary for interaction with SELL, SELE and SELP.
  • Glycosylation at Ser134, Ser144, Asn193, Thr209, Ser210, Ser211, Ser212, Thr214, Thr218, and Asn395
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect
    • PDXL2_HUMAN (687)

Other Protein References for PODXL2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PODXL2 Gene

Domains & Families for PODXL2 Gene

Gene Families for PODXL2 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for PODXL2 Gene

Blocks:
  • CD34/Podocalyxin
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for PODXL2 Gene

GenScript: Design optimal peptide antigens:
  • Endoglycan (PDXL2_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9NZ53

UniProtKB/Swiss-Prot:

PDXL2_HUMAN :
  • Belongs to the podocalyxin family.
Family:
  • Belongs to the podocalyxin family.
genes like me logo Genes that share domains with PODXL2: view

Function for PODXL2 Gene

Molecular function for PODXL2 Gene

UniProtKB/Swiss-Prot Function:
Acts as a ligand for vascular selectins. Mediates rapid rolling of leukocytes over vascular surfaces through high affinity divalent cation-dependent interactions with E-, P- and L-selectins.

Phenotypes From GWAS Catalog for PODXL2 Gene

Gene Ontology (GO) - Molecular Function for PODXL2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 18606703
GO:0005539 glycosaminoglycan binding TAS 10722749
genes like me logo Genes that share ontologies with PODXL2: view
genes like me logo Genes that share phenotypes with PODXL2: view

Animal Models for PODXL2 Gene

MGI Knock Outs for PODXL2:
  • Podxl2 Podxl2<tm1.1(KOMP)Vlcg>

Animal Model Products

CRISPR Products

miRNA for PODXL2 Gene

miRTarBase miRNAs that target PODXL2

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PODXL2 Gene

Localization for PODXL2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PODXL2 Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PODXL2 gene
Compartment Confidence
plasma membrane 4
golgi apparatus 4
extracellular 1
cytoskeleton 1
nucleus 1
endosome 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PODXL2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005796 Golgi lumen TAS --
GO:0005887 integral component of plasma membrane TAS 10722749
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with PODXL2: view

Pathways & Interactions for PODXL2 Gene

PathCards logo

SuperPathways for PODXL2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for PODXL2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion IEA --
GO:0050901 leukocyte tethering or rolling IDA,IBA 18606703
genes like me logo Genes that share ontologies with PODXL2: view

No data available for Pathways by source and SIGNOR curated interactions for PODXL2 Gene

Drugs & Compounds for PODXL2 Gene

No Compound Related Data Available

Transcripts for PODXL2 Gene

mRNA/cDNA for PODXL2 Gene

1 REFSEQ mRNAs :
6 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PODXL2 Gene

No ASD Table

Relevant External Links for PODXL2 Gene

GeneLoc Exon Structure for
PODXL2

Expression for PODXL2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for PODXL2 Gene

mRNA differential expression in normal tissues according to GTEx for PODXL2 Gene

This gene is overexpressed in Brain - Hypothalamus (x4.7).

Protein differential expression in normal tissues from HIPED for PODXL2 Gene

This gene is overexpressed in Fetal Brain (50.2), Adrenal (9.7), and Pancreas (9.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for PODXL2 Gene



Protein tissue co-expression partners for PODXL2 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for PODXL2

SOURCE GeneReport for Unigene cluster for PODXL2 Gene:

Hs.591290

mRNA Expression by UniProt/SwissProt for PODXL2 Gene:

Q9NZ53-PDXL2_HUMAN
Tissue specificity: Expressed in T-cells, B-cells and monocytes. Expression is higher on memory and germinal center cells than on naive B-cells (at protein level). Highly expressed in brain. Moderately expressed in pancreas, kidney and lymphoid node. Weakly expressed in liver. Detected in both endothelial cells and CD34+ bone marrow cells.

Evidence on tissue expression from TISSUES for PODXL2 Gene

  • Nervous system(4.8)
genes like me logo Genes that share expression patterns with PODXL2: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for PODXL2 Gene

Orthologs for PODXL2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PODXL2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PODXL2 31 30
  • 99.55 (n)
OneToOne
dog
(Canis familiaris)
Mammalia PODXL2 31 30
  • 85.91 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Podxl2 30
  • 80.39 (n)
mouse
(Mus musculus)
Mammalia Podxl2 17 31 30
  • 79.99 (n)
cow
(Bos Taurus)
Mammalia PODXL2 31 30
  • 78.71 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PODXL2 31
  • 64 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PODXL2 31
  • 58 (a)
OneToOne
chicken
(Gallus gallus)
Aves PODXL2 31 30
  • 60.44 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PODXL2 31
  • 46 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii wufi40b04 30
Species where no ortholog for PODXL2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PODXL2 Gene

ENSEMBL:
Gene Tree for PODXL2 (if available)
TreeFam:
Gene Tree for PODXL2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PODXL2: view image

Paralogs for PODXL2 Gene

No data available for Paralogs for PODXL2 Gene

Variants for PODXL2 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for PODXL2 Gene

SNP ID Clinical significance and condition Chr 03 pos Variation AA Info Type
rs34117815 - p.Val456Ala

Additional dbSNP identifiers (rs#s) for PODXL2 Gene

Structural Variations from Database of Genomic Variants (DGV) for PODXL2 Gene

Variant ID Type Subtype PubMed ID
dgv8563n54 CNV loss 21841781
esv29518 CNV loss 19812545
nsv1074621 CNV deletion 25765185
nsv460848 CNV loss 19166990
nsv591582 CNV gain+loss 21841781
nsv591583 CNV loss 21841781
nsv591584 CNV loss 21841781
nsv591585 CNV loss 21841781
nsv955342 CNV deletion 24416366

Variation tolerance for PODXL2 Gene

Residual Variation Intolerance Score: 81.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.93; 49.06% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PODXL2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PODXL2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PODXL2 Gene

Disorders for PODXL2 Gene

Additional Disease Information for PODXL2

No disorders were found for PODXL2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PODXL2 Gene

Publications for PODXL2 Gene

  1. Identification of endoglycan, a member of the CD34/podocalyxin family of sialomucins. (PMID: 10722749) Sassetti C … Rosen SD (The Journal of biological chemistry 2000) 2 3 4 54
  2. Endoglycan, a member of the CD34 family of sialomucins, is a ligand for the vascular selectins. (PMID: 18606703) Kerr SC … Rosen SD (Journal of immunology (Baltimore, Md. : 1950) 2008) 3 4 54
  3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen JV … Mann M (Cell 2006) 3 4 54
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 54
  5. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 3 4 54

Products for PODXL2 Gene

Sources for PODXL2 Gene