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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. Gene Ontology (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

GeneHancer (GH) Regulatory Elements for PODN Gene

Promoters and enhancers for PODN 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
GH01J053062 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE 650.7 +0.5 460 1 CEBPB EZH2 PODN SLC1A7 ENSG00000235563 TCEANC2 SCP2 HIGD1AP11 GC01P053051
GH01J053060 Enhancer 0.5 ENCODE 650.7 -0.7 -666 1.1 SUZ12 CEBPB ZNF24 EZH2 PODN SCP2 NDC1 GC01P053051
GH01J052138 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 10.4 -920.8 -920848 4.8 HDGF SMAD1 FOXA2 ARNT ZFP64 ARID4B SIN3A ZNF2 YY1 ZNF766 ZFYVE9 PRPF38A TUT4 ENSG00000266993 RPS13P2 ENSG00000230953 ENSG00000272100 KTI12 PODN CC2D1B
GH01J053122 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 14 +61.0 60950 4.3 FOXA2 MLX ARID4B DMAP1 ZNF48 ETS1 GLIS2 FOS NFKBIZ SP5 PODN SLC1A7 LOC100190934 ENSG00000230953 PIR53839 GC01M053112
GH01J054051 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 10.4 +991.1 991102 3.7 DMAP1 YY1 SLC30A9 E2F8 ZNF416 ZNF143 ZNF548 SP3 NFYC SSRP1 TCEANC2 MIR4781 TMEM59 MAGOH NDC1 ENSG00000228838 HSPB11 SSBP3-AS1 LRRC42 PARS2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PODN on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PODN gene promoter:
  • CREB
  • deltaCREB
  • AML1a
  • Olf-1
  • MyoD
  • Sp1
  • RORalpha1
  • CUTL1
  • GATA-3

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)
Size:
23,451 bases
Orientation:
Plus strand

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=410410, posLast=299299, Asn281, and posLast=214214
  • 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:0005515 protein binding IEA --
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 Podn<tm1b(KOMP)Wtsi>

Animal Model Products

  • Taconic Biosciences Mouse Models for PODN

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:0005615 extracellular space IDA 15063725
GO:0005737 cytoplasm IEA,IDA 15063725
GO:0031012 extracellular matrix IDA 27068509
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 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 34 33
  • 99.29 (n)
OneToOne
dog
(Canis familiaris)
Mammalia PODN 34 33
  • 90.28 (n)
OneToOne
cow
(Bos Taurus)
Mammalia PODN 34 33
  • 89.65 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Podn 16 34 33
  • 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 34 33
  • 70.31 (n)
OneToOne
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 34 33
  • 64.05 (n)
OneToOne
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)
Aminode:
Evolutionary constrained regions (ECRs) for PODN: view image

Paralogs for PODN Gene

Paralogs for PODN Gene

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

  • PODN_HUMAN
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 Variation AA Info Type
rs193920794 uncertain-significance, Malignant tumor of prostate 53,078,570(+) G/T coding_sequence_variant, missense_variant, non_coding_transcript_variant
rs1000007938 -- 53,062,636(+) GGG/GG genic_upstream_transcript_variant, intron_variant
rs1000042608 -- 53,071,459(+) C/T genic_upstream_transcript_variant, intron_variant
rs1000240381 -- 53,067,954(+) G/T genic_upstream_transcript_variant, intron_variant
rs1000319162 -- 53,082,559(+) G/C intron_variant

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

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

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)

Additional Variant Information for PODN Gene

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

SNP Genotyping and Copy Number Assay Products

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

Disorders for PODN Gene

Additional Disease Information for PODN

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

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. Proteomics characterization of extracellular space components in the human aorta. (PMID: 20551380) Didangelos A … Mayr M (Molecular & cellular proteomics : MCP 2010) 3 4 58
  2. 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 44 58
  3. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 58
  4. 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 58
  5. 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 58

Products for PODN Gene

Sources for PODN Gene

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