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Aliases for PCDH17 Gene

Aliases for PCDH17 Gene

  • Protocadherin 17 2 3 5
  • PCDH68 3 4
  • PCH68 3 4
  • Protocadherin 68 3
  • Protocadherin-17 3
  • Protocadherin-68 4

External Ids for PCDH17 Gene

Previous GeneCards Identifiers for PCDH17 Gene

  • GC13P056173
  • GC13P052200
  • GC13P057142
  • GC13P056003
  • GC13P057103
  • GC13P058205
  • GC13P038887

Summaries for PCDH17 Gene

Entrez Gene Summary for PCDH17 Gene

  • This gene belongs to the protocadherin gene family, a subfamily of the cadherin superfamily. The encoded protein contains six extracellular cadherin domains, a transmembrane domain, and a cytoplasmic tail differing from those of the classical cadherins. The encoded protein may play a role in the establishment and function of specific cell-cell connections in the brain. [provided by RefSeq, Jul 2008]

GeneCards Summary for PCDH17 Gene

PCDH17 (Protocadherin 17) is a Protein Coding gene. GO annotations related to this gene include calcium ion binding. An important paralog of this gene is PCDH19.

UniProtKB/Swiss-Prot for PCDH17 Gene

  • Potential calcium-dependent cell-adhesion protein.

Gene Wiki entry for PCDH17 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PCDH17 Gene

Genomics for PCDH17 Gene

Regulatory Elements for PCDH17 Gene

Enhancers for PCDH17 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
GH13F057865 0.5 ENCODE 6.4 +235.6 235632 1.0 PKNOX1 SETDB1 TRIM28 PCDH17 GC13P057869 GC13P057773
GH13F058050 0.2 ENCODE 13.8 +421.4 421429 1.6 PCDH17 GC13P058012 LOC101926897
GH13F057672 0.4 ENCODE 4.9 +43.1 43065 0.7 REST PCDH17 GC13M057672 ENSG00000278722
GH13F057629 0.8 ENCODE 0.8 +1.6 1602 4.5 CTCF PKNOX1 SUZ12 SIN3A ZNF384 RAD21 ZFHX2 GATA3 POLR2A ZNF366 PCDH17 ENSG00000278722
GH13F057582 0.4 ENCODE 0.2 -47.9 -47943 0.2 CTCF PRDM1 PCDH17 LOC105370217
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PCDH17 on UCSC Golden Path with GeneCards custom track

Promoters for PCDH17 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001510059 797 3400 CTCF PKNOX1 SUZ12 SIN3A ZNF384 ZFHX2 GATA3 POLR2A ZNF366 SCRT2

Genomic Location for PCDH17 Gene

Chromosome:
13
Start:
57,630,104 bp from pter
End:
57,729,311 bp from pter
Size:
99,208 bases
Orientation:
Plus strand

Genomic View for PCDH17 Gene

Genes around PCDH17 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PCDH17 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PCDH17 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PCDH17 Gene

Proteins for PCDH17 Gene

  • Protein details for PCDH17 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O14917-PCD17_HUMAN
    Recommended name:
    Protocadherin-17
    Protein Accession:
    O14917
    Secondary Accessions:
    • A8K1R5
    • Q5VVW9
    • Q5VVX0

    Protein attributes for PCDH17 Gene

    Size:
    1159 amino acids
    Molecular mass:
    126229 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PCDH17 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PCDH17 Gene

Post-translational modifications for PCDH17 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for PCDH17 Gene

No data available for DME Specific Peptides for PCDH17 Gene

Domains & Families for PCDH17 Gene

Gene Families for PCDH17 Gene

Protein Domains for PCDH17 Gene

Suggested Antigen Peptide Sequences for PCDH17 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O14917

UniProtKB/Swiss-Prot:

PCD17_HUMAN :
  • Contains 6 cadherin domains.
Domain:
  • Contains 6 cadherin domains.
genes like me logo Genes that share domains with PCDH17: view

Function for PCDH17 Gene

Molecular function for PCDH17 Gene

UniProtKB/Swiss-Prot Function:
Potential calcium-dependent cell-adhesion protein.

Gene Ontology (GO) - Molecular Function for PCDH17 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
GO:0005515 protein binding IPI 19945174
genes like me logo Genes that share ontologies with PCDH17: view
genes like me logo Genes that share phenotypes with PCDH17: view

Animal Models for PCDH17 Gene

MGI Knock Outs for PCDH17:

Animal Model Products

  • Taconic Biosciences Mouse Models for PCDH17

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PCDH17 Gene

Localization for PCDH17 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PCDH17 Gene

Cell 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 PCDH17 gene
Compartment Confidence
plasma membrane 5
peroxisome 2
cytosol 2
extracellular 1
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for PCDH17 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0005887 integral component of plasma membrane IBA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with PCDH17: view

Pathways & Interactions for PCDH17 Gene

SuperPathways for PCDH17 Gene

No Data Available

Gene Ontology (GO) - Biological Process for PCDH17 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion IEA,IBA --
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IEA --
GO:0007267 cell-cell signaling IBA --
GO:0007416 synapse assembly IBA --
GO:0030534 adult behavior IEA --
genes like me logo Genes that share ontologies with PCDH17: view

No data available for Pathways by source and SIGNOR curated interactions for PCDH17 Gene

Drugs & Compounds for PCDH17 Gene

(1) Drugs for PCDH17 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Nutra 0
genes like me logo Genes that share compounds with PCDH17: view

Transcripts for PCDH17 Gene

Unigene Clusters for PCDH17 Gene

Protocadherin 17:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PCDH17 Gene

No ASD Table

Relevant External Links for PCDH17 Gene

GeneLoc Exon Structure for
PCDH17
ECgene alternative splicing isoforms for
PCDH17

Expression for PCDH17 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for PCDH17 Gene

mRNA differential expression in normal tissues according to GTEx for PCDH17 Gene

This gene is overexpressed in Spleen (x5.1), Brain - Anterior cingulate cortex (BA24) (x4.6), and Brain - Hypothalamus (x4.4).

Protein differential expression in normal tissues from HIPED for PCDH17 Gene

This gene is overexpressed in Prostate (18.0), Ovary (15.7), Retina (12.7), Lung (8.6), and Fetal Brain (6.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for PCDH17 Gene



NURSA nuclear receptor signaling pathways regulating expression of PCDH17 Gene:

PCDH17

SOURCE GeneReport for Unigene cluster for PCDH17 Gene:

Hs.106511
genes like me logo Genes that share expression patterns with PCDH17: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for PCDH17 Gene

Orthologs for PCDH17 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PCDH17 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PCDH17 34 35
  • 99.65 (n)
dog
(Canis familiaris)
Mammalia PCDH17 34 35
  • 93.18 (n)
cow
(Bos Taurus)
Mammalia PCDH17 34 35
  • 92.09 (n)
oppossum
(Monodelphis domestica)
Mammalia PCDH17 35
  • 91 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Pcdh17 34 16 35
  • 90.28 (n)
rat
(Rattus norvegicus)
Mammalia Pcdh17 34
  • 89.9 (n)
chicken
(Gallus gallus)
Aves PCDH17 34 35
  • 81.64 (n)
lizard
(Anolis carolinensis)
Reptilia PCDH17 35
  • 83 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia pcdh17 34
  • 73.01 (n)
zebrafish
(Danio rerio)
Actinopterygii pcdh17 34 35
  • 70.02 (n)
Species where no ortholog for PCDH17 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)
  • platypus (Ornithorhynchus anatinus)
  • 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 PCDH17 Gene

ENSEMBL:
Gene Tree for PCDH17 (if available)
TreeFam:
Gene Tree for PCDH17 (if available)

Paralogs for PCDH17 Gene

genes like me logo Genes that share paralogs with PCDH17: view

Variants for PCDH17 Gene

Sequence variations from dbSNP and Humsavar for PCDH17 Gene

SNP ID Clin Chr 13 pos Sequence Context AA Info Type
rs10161735 -- 57,717,658(+) GCGAT(A/G)CAGGT intron-variant
rs10444646 -- 57,651,418(+) gtgca(A/G)tggca intron-variant
rs10444647 -- 57,651,431(+) atctc(A/C/G)gctca intron-variant
rs10444648 -- 57,651,539(+) tgcca(A/G)gttgc intron-variant
rs10539355 -- 57,657,472(+) ACTTT(-/AT)GAGTG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PCDH17 Gene

Variant ID Type Subtype PubMed ID
esv29724 CNV loss 19812545
esv3632247 CNV loss 21293372
nsv1044463 CNV loss 25217958
nsv1060 CNV insertion 18451855
nsv1122826 CNV deletion 24896259
nsv477585 CNV novel sequence insertion 20440878
nsv507701 OTHER sequence alteration 20534489
nsv518063 CNV loss 19592680
nsv526745 CNV loss 19592680
nsv527993 CNV loss 19592680
nsv561812 CNV loss 21841781
nsv561813 CNV gain 21841781
nsv832620 CNV gain 17160897

Variation tolerance for PCDH17 Gene

Residual Variation Intolerance Score: 3.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.92; 35.77% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PCDH17 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PCDH17

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PCDH17 Gene

Disorders for PCDH17 Gene

Relevant External Links for PCDH17

Human Genome Epidemiology (HuGE) Navigator
PCDH17
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PCDH17

No disorders were found for PCDH17 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PCDH17 Gene

Publications for PCDH17 Gene

  1. Genome-wide analyses of human perisylvian cerebral cortical patterning. (PMID: 17978184) Abrahams B.S. … Geschwind D.H. (Proc. Natl. Acad. Sci. U.S.A. 2007) 3 4 22 64
  2. Frequent silencing of protocadherin 17, a candidate tumour suppressor for esophageal squamous cell carcinoma. (PMID: 20200074) Haruki S. … Inazawa J. (Carcinogenesis 2010) 3 22 64
  3. Cloning and characterization of zebrafish protocadherin-17. (PMID: 19449025) Biswas S. … Jontes J.D. (Dev. Genes Evol. 2009) 3 22 64
  4. Global gene analysis of late secretory phase, eutopic endometrium does not provide the basis for a minimally invasive test of endometriosis. (PMID: 18353903) Sherwin J.R. … D'Hooghe T.M. (Hum. Reprod. 2008) 3 22 64
  5. Gene expression profiling in Brodmann's area 46 from subjects with schizophrenia. (PMID: 17464717) Dean B. … Thomas E.A. (Aust N Z J Psychiatry 2007) 3 22 64

Products for PCDH17 Gene

Sources for PCDH17 Gene

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