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PODXL Gene

protein-coding   GIFtS: 60

GC07M130835
podocalyxin-like
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
Gp200 1, 2
MGC138240 2
PC 1, 2
PCLP 1, 2, 3, 5
PCLP1 3
podocalyxin-like 2
External Ids
HGNC: 91711
Entrez Gene: 54202
UniProtKB: O005923
Ensembl: ENSG000001285677
Search outside databases for aliases for PODXL gene

Previous GC identifers: GC07M129527 GC07M130587 GC07M130601 GC07M130642

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for PODXL:
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]

UniProtKB/Swiss-Prot: PODXL_HUMAN, O00592
Function: Functions as an antiadhesin that maintains an open filtration pathway between neighboring
foot processes in the podocyte by charge repulsion

Gene Wiki entry for PODXL

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the PODXL gene  

Entrez Gene cytogenetic band: 7q32-q33   Ensembl cytogenetic band:  7q32.3   HGNC cytogenetic band: 7q32-q33

PODXL Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07M130835:     (about GC identifiers)

Start:
130,835,561 bp from pter
End:
130,891,916 bp from pter
Size:
56,356 bases
Orientation:
minus strand

1 alternative location:
Chr7-,CRA_TCAG 130,524,660-130,580,998     
RefSeq DNA sequence:
NC_000007.12  NT_007933.14  NT_079596.2  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: PODXL_HUMAN, O00592 (See protein sequence)
Recommended Name: Podocalyxin-like protein 1 precursor  
Size: 558 amino acids; 58635 Da
Subcellular location: Membrane; Single-pass type I membrane protein (Potential)
Secondary accessions: A6NHX8 Q52LZ7 Q53ER6
Alternative splicing: 2 isoforms:  O00592-1   O00592-2   

Post-translational modifications:

  • Glycosylated; contains sialic acid1
  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins (2 alternative transcripts): 
    NP_001018121.1  NP_005388.2  


    ENSEMBL proteins: 
    ENSP00000319782 ENSP00000367817 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (PODXL)
    Browse Abnova for Human Recombinant Proteins
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    2 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005887 integral to plasma membrane TAS9188463
    GO:0016020 membrane IEA--
    About this table

    Antibodies for PODXL: 
    Invitrogen Antibodies for PODXL
    Millipore Mono- and Polyclonal Antibodies for the study of PODXL
    Sigma-Aldrich Antibodies for PODXL
    R&D Systems Antibodies for PODXL (Podocalyxin)
    Antibodies from Abcam (PODXL), each with their AbpromiseSM
    Browse Abnova for Monoclonal and Polyclonal Antibodies
    Novus Biologicals Antibodies for PODXL

    Assays for PODXL: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    1 InterPro domain/family:
     IPR013836 CD34/Podocalyxin


       GeneDecks  PODXL for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry O00592

    ProtoNet protein and cluster: O00592

    1 Blocks protein family: IPB013836 CD34/Podocalyxin

    UniProtKB/Swiss-Prot: PODXL_HUMAN, O00592
    Similarity: Belongs to the podocalyxin family

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (PODXL)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_005397

                  Applied Biosystems Silencer® siRNAs for PODXL

                  Sigma-Aldrich siRNA for PODXL  
                         Sigma-Aldrich shRNA Panels and shRNA for PODXL  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Browse Clone Ranger at Invitrogen for clones
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                   OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_001018111
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001018111
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_001018111 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_001018111

    UniProtKB/Swiss-Prot: PODXL_HUMAN, O00592
    Function: Functions as an antiadhesin that maintains an open filtration pathway between neighboring
    foot processes in the podocyte by charge repulsion

    Genatlas biochemistry entry for PODXL:
    podocalyxin-like protein,integral component of the glomerular epithelial cell glycocalyx

    5 MGI mutant phenotypes (inferred from 1 allele(MGI details for Podxl):

    digestive/alimentaryhomeostasis/metabolismlethality-prenatal/perinatalrenal/urinary system

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section


    1 Millipore Pathway for PODXL
     Selected targets of p53

       GeneDecks  PODXL for the pathways selected above  
    About GeneDecksing

     Gene Network CentralTM Interacting Genes and Proteins Network for  PODXL 


    3 Interacting proteins for PODXL (ENSP000003678173) via UniProtKB, MINT, and/or STRING
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SLC9A3R2ENSP000001919223STRING (score=.991)
    EZRENSP000003560413STRING (score=.756)
    SLC9A3R1ENSP000002626133STRING (score=.702)
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for PODXL

    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (PODXL)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_005397

                  Sigma-Aldrich siRNA for PODXL  
                         Sigma-Aldrich shRNA Panels and shRNA for PODXL  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_001018111  NM_005397  

    REFSEQ mRNAs for PODXL gene (2 alternative transcripts): 

    NM_001018111.2   NM_005397.3   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_001018111  NM_005397  

                   OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_001018111
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001018111
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_001018111 

    Additional cDNA sequence: 

    AK055816.1 AK223573.1 BC042466.1 BC093730.1 BC112035.1 BC143318.1 BX641124.1 U97519.1 

    11 DOTS entries:

    DT.99948575  DT.97845993  DT.418229  DT.92439324  DT.100796895  DT.97845992  DT.100796902  DT.100796898 
    DT.121064152  DT.92439326  DT.95098144 

    24/366 AceView cDNA sequences (see all 366 ):

    BP363647 AA486344 BU845769 AA989333 AW376607 BF941480 AW296846 CD656813 
    AW026403 AA450293 AA983640 AA024856 CK430109 BU844975 AI052596 H65205 
    CA866864 AW517478 AI868205 BU930904 BE223020 AI280171 AW131922 CA443883 

    highest scoring ESTs for PODXL:

    U97519 BC042466 BU849471 AA024856 AA024939 AA037673 AA070415 AA070416 AA075507 AA075508 

    Unigene Cluster for PODXL:

    Podocalyxin-like
    Hs.690098  [show with all ESTs]
    Unigene Representative Sequence: BX641124


    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for PODXL

    ExUns: 1 ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c ^ 8 ^ 9a · 9b · 9c · 9d
    SP1:                    -                       -                                             
    SP2:                    -                       -                                             
    SP3:                                            -                                             
    SP4:                                            -                                             
    SP5:                                                                                          

    About this scheme

    ECgene alternative splicing isoforms for PODXL

    2 Ensembl transcripts including schematic representations:
    ENST00000322985  ENST00000378555  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    PODXL expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for PODXL

    1 / 2 / 3

    3 probe-sets matching PODXL gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    40434_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 U97519 1.00 1.00 1.00 1

    201578_at2, 3 U133-A 1 1.00 1.00 -- -- NM_005397 0.60 1.00 0.82 1

    201578_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    GeneDecks  PODXL for binary patterns associated with the probe-sets selected above  
    About GeneDecksing
    About this table    
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: GAGGACACAG

    SOURCE GeneReport for Unigene cluster: Hs.690098

    Expression variation in blood from EXPOLDB for PODXL

    UniProtKB/Swiss-Prot: PODXL_HUMAN, O00592
    Tissue specificity: Glomerular epithelium cell (podocyte)

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for PODXL gene from 5/9 species (see all 9 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    PODXL1   -- podocalyxin-like 60.65(n)
    49.72(a)
    482252  NM_001020809.1  NP_001018645.1 
    chimpanzee
    (Pan troglodytes)
    PODXL1   -- podocalyxin-like 98.66(n)
    97.71(a)
    472604  XM_527978.2  XP_527978.2 
    cow
    (Bos taurus)
    PODXL1   -- podocalyxin-like 59.84(n)
    49.3(a)
    616366  XM_868371.2  XP_873464.2 
    rat
    (Rattus norvegicus)
    Podxl1   -- podocalyxin-like 59.97(n)
    50.72(a)
    192181  NM_138848.1  NP_620203.1 
    mouse
    (Mus musculus)
    Podxl1, 5 6 (10.00 cM)5
    podocalyxin-like1, 5 59.6(n)1
    52.18(a)1
    272051  NM_013723.21  NP_038751.21 
     AB0280485  AF2902055  (see all 17)
    About this table        Species with no ortholog for PODXL

    ENSEMBL Gene Tree for PODXL
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

      --
    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/384 NCBI SNPs in PODXL are shown (see all 384 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 123)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 7 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs37350351,2
    A,C,F,H130846499(+) TGAGCT/CGCCTC 2 S/G mis1 ese315Minor allele frequency- C:0.50EA NA MN EU WA 3046
    rs126707881,2
    A,C,F,H130846252(+) GCGTCA/GAAGTG 2 S/L mis1 ese312Minor allele frequency- N:0.00EU EA WA NA 1050
    rs32122981,2
    C,F,H,O130844279(-) AGCTCG/ATCCTG 2 I/V mis1 ese313Minor allele frequency- A:0.25MN NA EU EA WA 1238
    rs10450461,2
    A,C,F,H130836876(-) CATGAG/CAGTGG 2 -- ut319Minor allele frequency- C:0.43NA EA MN EU WA 2341
    rs82321,2
    A,C,F,H130835934(-) TTTATA/GTATGG 2 -- ut31 ese36Minor allele frequency- G:0.14EA MN EU WA 2080
    rs10450451,2
    A,C,F130836964(-) CATCAA/GCTCTT 2 -- ut311Minor allele frequency- G:0.11MN 184
    rs37350341,2
    F,H130835543(+) AAGTCC/TGAGGA 2 -- ng515Minor allele frequency- T:0.14EA EU WA 1848
    rs358931291,2
    C,F130844795(+) CGTGGG/CCTGCA 2 A/P mis15Minor allele frequency- C:0.01NA EU EA WA 496
    rs38234841,2
    A,C130893116(+) CTGGGA/GGTGGG 2 -- ng31 tfbs30--------
    --
    rs77982281,2
    A,C130893141(+) AATTCC/TGTAAA 2 -- ng310--------
    About this table

    HapMap Linkage Disequilibrium images for PODXL (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

    OMIM: 602632

    4 Novoseek disease relationships for PODXL gene

    Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    carcinoma embryonal 60.79 3 1416983 (2), 12504081 (1)
    hepatocellular carcinoma 25.37 1 15154008 (1)
    proteinuria 22.71 1 17229675 (1)
    tumors 10.72 12 17922228 (2), 12504081 (2), 19118161 (1), 16434482 (1) (see all 5)
    About this table

    Human Genome Epidemiology Navigator: PODXL (1 document)

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    10/44 PubMed articles for PODXL gene (see all 44 ):
    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)
    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section

    Entrez Gene: 5420 HGNC: 9171 AceView: PODXL Ensembl:ENSG00000128567 euGenes: HUgn5420
    ECgene: PODXL H-InvDB: PODXL
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

      --
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for PODXL:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



      Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
      Invitrogen Antibodies  Invitrogen Assays
      Invitrogen Clones  Invitrogen Q-PCR Products
      Invitrogen Human Recombinant Kinases  Invitrogen Custom Antibody and Peptide Service
      Invitrogen Proteins / Assays / Screening Services  Search Invitrogen catalog for PODXL-related products

     Millipore Custom Antibody & Bulk Services
     Millipore Preclinical / Clinical Development Services
     Millipore Immunoassay Services
     Millipore Target Screening & Profiling Services


     Predesigned and custom siRNAs for PODXL Antibodies for PODXL
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for PODXL Browse small molecules at Sigma-Aldrich
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