Aliases for PODNL1 Gene

Aliases for PODNL1 Gene

  • Podocan Like 1 2 3 5
  • SLRR5B 2 3 4
  • Podocan-Like Protein 1 3 4
  • FLJ23447 2
  • PODNL1 5

External Ids for PODNL1 Gene

Previous GeneCards Identifiers for PODNL1 Gene

  • GC19M013905
  • GC19M013906
  • GC19M014044
  • GC19M013613

Summaries for PODNL1 Gene

GeneCards Summary for PODNL1 Gene

PODNL1 (Podocan Like 1) is a Protein Coding gene. An important paralog of this gene is PODN.

Additional gene information for PODNL1 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for PODNL1 Gene

Genomics for PODNL1 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for PODNL1 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
GH19J013951 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 600.7 +0.5 497 2.6 ARHGAP35 SP1 CREB1 PRDM10 TFE3 RFX1 IKZF1 NFRKB FOS ZHX2 DCAF15 PODNL1 lnc-RFX1-2 CCDC130 TRMT1 RFX1 ENSG00000267519 ZNF333 DDX39A MRI1
GH19J013937 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE CraniofacialAtlas 606.8 +15.1 15130 1.7 PRDM10 ZNF692 RFX1 ZNF600 CEBPB ZBTB10 POLR2A ZFP69B MCM7 KLF17 PODNL1 piR-43103-026 piR-43105-325 DCAF15 C19orf57
GH19J013934 Enhancer 1.1 Ensembl ENCODE CraniofacialAtlas 6.6 +17.9 17946 2.7 CTCF KDM1A TARDBP ZSCAN4 ZNF311 MNT EGR1 ZBTB10 TSC22D4 ZBTB26 piR-43103-026 SNRPGP15 TRMT1 PODNL1 DCAF15 piR-35674-249 C19orf57
GH19J013976 Enhancer 0.2 Ensembl 9.7 -23.0 -23009 0.8 PODNL1 LOC107985309 RFX1
GH19J013982 Enhancer 1.4 FANTOM5 ENCODE CraniofacialAtlas dbSUPER 0.3 -32.7 -32746 6.5 SP1 TFE3 POLR2A BACH1 LARP7 ZIC2 PATZ1 SMAD5 IKZF2 RCOR1 IL27RA RFX1 CCDC130 PKN1 DDX39A DCAF15 LOC107985309 lnc-PODNL1-1 PODNL1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PODNL1 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for PODNL1

Top Transcription factor binding sites by QIAGEN in the PODNL1 gene promoter:
  • AP-2alpha
  • AP-2alphaA
  • AP-2beta
  • AP-2gamma
  • CHOP-10
  • Max1
  • NF-1
  • NF-1/L
  • SRF
  • SRF (504 AA)

Genomic Locations for PODNL1 Gene

Genomic Locations for PODNL1 Gene
chr19:13,931,187-13,953,392
(GRCh38/hg38)
Size:
22,206 bases
Orientation:
Minus strand
chr19:14,042,000-14,064,204
(GRCh37/hg19)
Size:
22,205 bases
Orientation:
Minus strand

Genomic View for PODNL1 Gene

Genes around PODNL1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PODNL1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PODNL1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PODNL1 Gene

Proteins for PODNL1 Gene

  • Protein details for PODNL1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6PEZ8-PONL1_HUMAN
    Recommended name:
    Podocan-like protein 1
    Protein Accession:
    Q6PEZ8
    Secondary Accessions:
    • B7Z564
    • Q9H5G9

    Protein attributes for PODNL1 Gene

    Size:
    512 amino acids
    Molecular mass:
    56539 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB15657.1; Type=Erroneous translation; Note=Wrong choice of frame.; Evidence={ECO:0000305};

    Alternative splice isoforms for PODNL1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PODNL1 Gene

Post-translational modifications for PODNL1 Gene

No data available for DME Specific Peptides for PODNL1 Gene

Domains & Families for PODNL1 Gene

Gene Families for PODNL1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted secreted proteins

Protein Domains for PODNL1 Gene

InterPro:
Blocks:
  • Cysteine-rich flanking region, N-terminal
ProtoNet:

Suggested Antigen Peptide Sequences for PODNL1 Gene

GenScript: Design optimal peptide antigens:
  • Podocan-like protein 1 (PONL1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q6PEZ8

UniProtKB/Swiss-Prot:

PONL1_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 PODNL1: view

Function for PODNL1 Gene

Gene Ontology (GO) - Molecular Function for PODNL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IEA --
genes like me logo Genes that share ontologies with PODNL1: view
genes like me logo Genes that share phenotypes with PODNL1: view

Animal Model Products

CRISPR Products

miRNA for PODNL1 Gene

miRTarBase miRNAs that target PODNL1

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PODNL1

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PODNL1 Gene

Localization for PODNL1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PODNL1 Gene

Secreted, extracellular space, extracellular matrix.

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 PODNL1 gene
Compartment Confidence
extracellular 4
plasma membrane 1
nucleus 1
cytosol 1

Gene Ontology (GO) - Cellular Components for PODNL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005615 extracellular space IBA 21873635
GO:0062023 collagen-containing extracellular matrix IEA --
genes like me logo Genes that share ontologies with PODNL1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for PODNL1 Gene

Pathways & Interactions for PODNL1 Gene

PathCards logo

SuperPathways for PODNL1 Gene

No Data Available

Interacting Proteins for PODNL1 Gene

Gene Ontology (GO) - Biological Process for PODNL1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for PODNL1 Gene

Drugs & Compounds for PODNL1 Gene

No Compound Related Data Available

Transcripts for PODNL1 Gene

mRNA/cDNA for PODNL1 Gene

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

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PODNL1

Alternative Splicing Database (ASD) splice patterns (SP) for PODNL1 Gene

No ASD Table

Relevant External Links for PODNL1 Gene

GeneLoc Exon Structure for
PODNL1

Expression for PODNL1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for PODNL1 Gene

mRNA differential expression in normal tissues according to GTEx for PODNL1 Gene

This gene is overexpressed in Nerve - Tibial (x4.8) and Artery - Coronary (x4.1).

Protein differential expression in normal tissues from HIPED for PODNL1 Gene

This gene is overexpressed in Plasma (40.3) and Bone marrow mesenchymal stem cell (26.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for PODNL1 Gene



Protein tissue co-expression partners for PODNL1 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for PODNL1

SOURCE GeneReport for Unigene cluster for PODNL1 Gene:

Hs.448497

Evidence on tissue expression from TISSUES for PODNL1 Gene

  • Intestine(4.2)
genes like me logo Genes that share expression patterns with PODNL1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PODNL1 Gene

Orthologs for PODNL1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PODNL1 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia PODNL1 31
  • 99 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia PODNL1 30 31
  • 87.43 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia PODNL1 30 31
  • 86.16 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Podnl1 30 17 31
  • 80 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Podnl1 30
  • 79.28 (n)
Platypus
(Ornithorhynchus anatinus)
Mammalia PODNL1 31
  • 58 (a)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia PODNL1 31
  • 56 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia PODNL1 31
  • 49 (a)
OneToOne
Zebrafish
(Danio rerio)
Actinopterygii zgc:113307 31
  • 29 (a)
ManyToMany
Species where no ortholog for PODNL1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Chicken (Gallus gallus)
  • 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 Vase (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 PODNL1 Gene

ENSEMBL:
Gene Tree for PODNL1 (if available)
TreeFam:
Gene Tree for PODNL1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PODNL1: view image

Paralogs for PODNL1 Gene

(6) SIMAP similar genes for PODNL1 Gene using alignment to 9 proteins:

  • PONL1_HUMAN
  • B7Z3M0_HUMAN
  • K7EJ07_HUMAN
  • K7EMV0_HUMAN
  • K7EPI2_HUMAN
  • K7EPR1_HUMAN
  • K7ER84_HUMAN
  • K7ERE6_HUMAN
  • K7ESB1_HUMAN
genes like me logo Genes that share paralogs with PODNL1: view

Variants for PODNL1 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for PODNL1 Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
rs3745467 - p.Arg44Trp

Additional dbSNP identifiers (rs#s) for PODNL1 Gene

Structural Variations from Database of Genomic Variants (DGV) for PODNL1 Gene

Variant ID Type Subtype PubMed ID
esv3336175 CNV duplication 20981092
esv3428891 CNV duplication 20981092
nsv828451 CNV loss 20364138
nsv833757 CNV loss 17160897
nsv953979 CNV deletion 24416366

Variation tolerance for PODNL1 Gene

Gene Damage Index Score: 4.47; 64.29% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PODNL1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PODNL1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PODNL1 Gene

Disorders for PODNL1 Gene

No disorders were found for PODNL1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PODNL1 Gene

Publications for PODNL1 Gene

  1. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 2 3
  2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 4
  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) 4
  5. The DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J … Lucas SM (Nature 2004) 4

Products for PODNL1 Gene

Sources for PODNL1 Gene