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Aliases for PODN Gene

Aliases for PODN Gene

  • Podocan 2 3 3 5
  • Podocan Proteoglycan 2 3
  • SLRR5A 3 4
  • PCAN 3

External Ids for PODN Gene

Previous GeneCards Identifiers for PODN Gene

  • GC01P052897
  • GC01P053239
  • GC01P053527
  • GC01P051643

Summaries for PODN Gene

Entrez Gene Summary for PODN Gene

  • The protein encoded by this gene is a member of the small leucine-rich repeat protein family and contains an amino terminal CX3CXCX7C cysteine-rich cluster followed by a leucine-rich repeat domain. Studies suggest that this protein could function to inhibit smooth muscle cell proliferation and migration following arterial injury. [provided by RefSeq, Jul 2016]

GeneCards Summary for PODN Gene

PODN (Podocan) is a Protein Coding gene. GO annotations related to this gene include collagen binding. An important paralog of this gene is PODNL1.

UniProtKB/Swiss-Prot for PODN Gene

  • Negatively regulates cell proliferation and cell migration.

Additional gene information for PODN Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PODN Gene

Genomics for PODN Gene

Regulatory Elements for PODN Gene

Enhancers for PODN Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01H053132 1.3 Ensembl ENCODE dbSUPER 19.4 +72.3 72302 4.4 BCOR ZMYM3 CEBPG FOSL1 ZNF766 POLR2A ADNP ZNF584 MAFK SMARCA5 MAGOH NDC1 ENSG00000230953 PODN SLC1A7 LRRC42 ZCCHC11 RPS13P2 ECHDC2 PLA2G12AP1
GH01H053122 1.8 FANTOM5 Ensembl ENCODE dbSUPER 14 +61.0 60950 4.3 FOXA2 MLX ARID4B DMAP1 GLIS2 FOS SP5 MXD4 PPARG KAT8 PODN SLC1A7 LOC100190934 ENSG00000230953 PIR53839 GC01M053112
GH01H053106 1.5 Ensembl ENCODE dbSUPER 11.3 +48.2 48186 6.8 FOXA2 MLX ZFP64 ARID4B SLC30A9 ZNF766 SP5 MXD4 MIER2 PPARG PODN NDC1 ENSG00000235563 SLC1A7 ENSG00000232993
GH01H053139 1.3 Ensembl ENCODE dbSUPER 11.8 +78.2 78249 1.9 BCOR ZNF175 ZMYM3 CEBPG FOSL1 CTBP1 ADNP FOS ZNF600 TRIM24 SLC1A7 PODN ZYG11A GC01P053132
GH01H053144 1.5 Ensembl ENCODE dbSUPER 9.4 +84.8 84842 3.9 FOXA2 MLX ARID4B SIN3A DMAP1 YY1 FOS ATF7 SP5 ZHX2 SLC1A7 PODN GPX7 PLA2G12AP1 LOC105378724
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PODN on UCSC Golden Path with GeneCards custom track

Promoters for PODN Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000006453 348 801 CEBPB EZH2

Genomic Locations for PODN Gene

Genomic Locations for PODN Gene
chr1:53,062,052-53,085,502
(GRCh38/hg38)
Size:
23,451 bases
Orientation:
Plus strand
chr1:53,527,724-53,551,174
(GRCh37/hg19)

Genomic View for PODN Gene

Genes around PODN on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for PODN Gene

Proteins for PODN Gene

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

    Protein Symbol:
    Q7Z5L7-PODN_HUMAN
    Recommended name:
    Podocan
    Protein Accession:
    Q7Z5L7
    Secondary Accessions:
    • B4DKN5
    • B4E373
    • Q5VVZ2
    • Q5VVZ3
    • Q6PIR3
    • Q6UXL8
    • Q8N641

    Protein attributes for PODN Gene

    Size:
    613 amino acids
    Molecular mass:
    68976 Da
    Quaternary structure:
    • Binds to type I collagen.
    SequenceCaution:
    • Sequence=AAH28292.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAH72591.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for PODN Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PODN Gene

Post-translational modifications for PODN Gene

  • N-glycosylated.
  • Glycosylation at posLast=214214, posLast=281281, posLast=299299, and posLast=410410
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for PODN Gene

Domains & Families for PODN Gene

Gene Families for PODN Gene

Suggested Antigen Peptide Sequences for PODN Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q7Z5L7

UniProtKB/Swiss-Prot:

PODN_HUMAN :
  • Belongs to the small leucine-rich proteoglycan (SLRP) family. SLRP class V subfamily.
Family:
  • Belongs to the small leucine-rich proteoglycan (SLRP) family. SLRP class V subfamily.
genes like me logo Genes that share domains with PODN: view

Function for PODN Gene

Molecular function for PODN Gene

UniProtKB/Swiss-Prot Function:
Negatively regulates cell proliferation and cell migration.

Phenotypes From GWAS Catalog for PODN Gene

Gene Ontology (GO) - Molecular Function for PODN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004860 protein kinase inhibitor activity IBA --
GO:0005518 collagen binding IDA 15063725
genes like me logo Genes that share ontologies with PODN: view
genes like me logo Genes that share phenotypes with PODN: view

Animal Models for PODN Gene

MGI Knock Outs for PODN:
  • Podn tm1b(KOMP)Wtsi

miRNA for PODN Gene

miRTarBase miRNAs that target PODN

Clone Products

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

Localization for PODN Gene

Subcellular locations from UniProtKB/Swiss-Prot for PODN Gene

Isoform 1: Secreted, extracellular space, extracellular matrix.
Isoform 2: Cytoplasm.
Isoform 3: Cytoplasm.
Isoform 4: Cytoplasm.

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 PODN gene
Compartment Confidence
extracellular 5
peroxisome 2
nucleus 2
plasma membrane 1
mitochondrion 1
cytosol 1

Gene Ontology (GO) - Cellular Components for PODN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005578 proteinaceous extracellular matrix IEA --
GO:0005615 extracellular space IDA 15063725
GO:0005737 cytoplasm IEA,IDA 15063725
genes like me logo Genes that share ontologies with PODN: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for PODN Gene

Pathways & Interactions for PODN Gene

No Data Available

Gene Ontology (GO) - Biological Process for PODN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006469 negative regulation of protein kinase activity IBA --
GO:0008285 negative regulation of cell proliferation IDA 15063725
GO:0019221 cytokine-mediated signaling pathway IBA --
GO:0030336 negative regulation of cell migration IDA 15063725
GO:0046426 negative regulation of JAK-STAT cascade IBA --
genes like me logo Genes that share ontologies with PODN: view

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

Drugs & Compounds for PODN Gene

No Compound Related Data Available

Transcripts for PODN Gene

Unigene Clusters for PODN Gene

Podocan:
Representative Sequences:

Clone Products

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

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b · 11c ^ 12 ^ 13a · 13b · 13c ^ 14a · 14b
SP1: -
SP2:
SP3:
SP4: -
SP5:
SP6: - -
SP7:
SP8: - -

Relevant External Links for PODN Gene

GeneLoc Exon Structure for
PODN
ECgene alternative splicing isoforms for
PODN

Expression for PODN Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Adipose - Visceral (Omentum) (x4.3).

Protein differential expression in normal tissues from HIPED for PODN Gene

This gene is overexpressed in Gallbladder (12.8) and Lung (11.3).

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



NURSA nuclear receptor signaling pathways regulating expression of PODN Gene:

PODN

SOURCE GeneReport for Unigene cluster for PODN Gene:

Hs.586141

mRNA Expression by UniProt/SwissProt for PODN Gene:

Q7Z5L7-PODN_HUMAN
Tissue specificity: Kidney, heart, liver, pancreas and vascular smooth muscle cells. Also detected in aortic intima (at protein level).

Evidence on tissue expression from TISSUES for PODN Gene

  • Kidney(4.3)
  • Nervous system(4.3)
  • Intestine(4.2)
  • Liver(4.1)
genes like me logo Genes that share expression patterns with PODN: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for PODN Gene

Orthologs for PODN Gene

This gene was present in the common ancestor of chordates.

Orthologs for PODN Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PODN 33 34
  • 99.29 (n)
dog
(Canis familiaris)
Mammalia PODN 33 34
  • 90.28 (n)
cow
(Bos Taurus)
Mammalia PODN 33 34
  • 89.65 (n)
mouse
(Mus musculus)
Mammalia Podn 33 16 34
  • 87.8 (n)
rat
(Rattus norvegicus)
Mammalia LOC102552895 33
  • 87.35 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia PODN 34
  • 78 (a)
OneToOne
chicken
(Gallus gallus)
Aves PODN 33 34
  • 70.31 (n)
lizard
(Anolis carolinensis)
Reptilia PODN 34
  • 66 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia podn 33
  • 63.49 (n)
zebrafish
(Danio rerio)
Actinopterygii podn 33 34
  • 64.05 (n)
Species where no ortholog for PODN 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)
  • oppossum (Monodelphis domestica)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PODN Gene

ENSEMBL:
Gene Tree for PODN (if available)
TreeFam:
Gene Tree for PODN (if available)

Paralogs for PODN Gene

Paralogs for PODN Gene

(5) SIMAP similar genes for PODN Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with PODN: view

Variants for PODN Gene

Sequence variations from dbSNP and Humsavar for PODN Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs193920794 Uncertain significance 53,078,570(+) CACTG(G/T)CCTTC nc-transcript-variant, reference, missense
rs1000007938 -- 53,062,636(+) CCGGC(-/G)GGCGA intron-variant
rs1000042608 -- 53,071,459(+) TGGAG(C/T)TATGG intron-variant
rs1000240381 -- 53,067,954(+) TACAA(G/T)ATCTA intron-variant
rs1000319162 -- 53,082,559(+) AGAGT(C/G)AGTGA intron-variant

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

Variant ID Type Subtype PubMed ID
nsv950739 CNV deletion 24416366
nsv945954 CNV duplication 23825009
nsv818167 CNV loss 17921354
nsv546240 CNV loss 21841781
nsv546239 CNV loss 21841781
nsv522862 CNV loss 19592680
nsv516780 CNV gain+loss 19592680
nsv1075919 CNV deletion 25765185
nsv1010121 CNV gain 25217958
nsv1003159 CNV gain 25217958
nsv1001535 CNV gain 25217958
esv2758935 CNV loss 17122850

Variation tolerance for PODN Gene

Residual Variation Intolerance Score: 63.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.73; 83.13% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PODN Gene

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

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

Disorders for PODN Gene

Relevant External Links for PODN

Genetic Association Database (GAD)
PODN
Human Genome Epidemiology (HuGE) Navigator
PODN
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PODN

No disorders were found for PODN Gene.

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

Publications for PODN Gene

  1. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 45 60
  2. Proteomics characterization of extracellular space components in the human aorta. (PMID: 20551380) Didangelos A … Mayr M (Molecular & cellular proteomics : MCP 2010) 3 4 60
  3. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 60
  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 60
  5. Functional characterization of podocan, a member of a new class in the small leucine-rich repeat protein family. (PMID: 15063725) Shimizu-Hirota R … Saruta T (FEBS letters 2004) 3 4 60

Products for PODN Gene

Sources for PODN Gene

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