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Aliases for CDH6 Gene

Aliases for CDH6 Gene

  • Cadherin 6 2 3 5
  • Cadherin 6, Type 2, K-Cadherin (Fetal Kidney) 2 3
  • K-Cadherin 2 4
  • Kidney Cadherin 4
  • Cadherin-6 3
  • CAD6 3
  • KCAD 3

External Ids for CDH6 Gene

Previous GeneCards Identifiers for CDH6 Gene

  • GC05P030978
  • GC05P031640
  • GC05P031193
  • GC05P031239

Summaries for CDH6 Gene

Entrez Gene Summary for CDH6 Gene

  • This gene encodes a member of the cadherin superfamily. Cadherins are membrane glycoproteins that mediate homophilic cell-cell adhesion and play critical roles in cell differentiation and morphogenesis. The encoded protein is a type II cadherin and may play a role in kidney development as well as endometrium and placenta formation. Decreased expression of this gene may be associated with tumor growth and metastasis. [provided by RefSeq, May 2011]

GeneCards Summary for CDH6 Gene

CDH6 (Cadherin 6) is a Protein Coding gene. Diseases associated with CDH6 include Renal Cell Carcinoma. Among its related pathways are Cell junction organization and Nanog in Mammalian ESC Pluripotency. GO annotations related to this gene include calcium ion binding. An important paralog of this gene is CDH10.

UniProtKB/Swiss-Prot for CDH6 Gene

  • Cadherins are calcium-dependent cell adhesion proteins. They preferentially interact with themselves in a homophilic manner in connecting cells; cadherins may thus contribute to the sorting of heterogeneous cell types.

Gene Wiki entry for CDH6 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CDH6 Gene

Genomics for CDH6 Gene

Regulatory Elements for CDH6 Gene

Enhancers for CDH6 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
GH05G031122 0.4 ENCODE 26.2 -70.1 -70067 1.5 MAFK CDH6 ENSG00000253940
GH05G031112 0.4 ENCODE 17.4 -80.5 -80459 0.8 NFE2L2 CDH6 ENSG00000254138 ENSG00000253940
GH05G031213 0.5 ENCODE 11.6 +20.4 20402 1.7 CEBPB SUPT20H EP300 CDH6 ENSG00000254138 LOC105374709 GC05M031229
GH05G031218 0.5 ENCODE 11 +25.5 25465 1.2 CTCF SOX13 RFX1 RFX3 ZNF644 CDH6 ENSG00000254138 LOC105374709 GC05M031229
GH05G031105 0.5 ENCODE 11 -86.5 -86538 2.4 BHLHE40 CHD7 EP300 RAD21 EZH2 CDH6 ENSG00000253940
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CDH6 on UCSC Golden Path with GeneCards custom track

Promoters for CDH6 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000178955 845 1800 SUZ12 RBBP5 ZNF335 HIC1 ZFHX2 POLR2A SMC3 PRDM10 ZNF600 MAFK

Genomic Location for CDH6 Gene

Chromosome:
5
Start:
31,193,655 bp from pter
End:
31,329,146 bp from pter
Size:
135,492 bases
Orientation:
Plus strand

Genomic View for CDH6 Gene

Genes around CDH6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CDH6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CDH6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CDH6 Gene

Proteins for CDH6 Gene

  • Protein details for CDH6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P55285-CADH6_HUMAN
    Recommended name:
    Cadherin-6
    Protein Accession:
    P55285
    Secondary Accessions:
    • A8K5H5
    • Q9BWS0

    Protein attributes for CDH6 Gene

    Size:
    790 amino acids
    Molecular mass:
    88309 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for CDH6 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CDH6 Gene

Post-translational modifications for CDH6 Gene

  • Glycosylation at posLast=4949, Asn255, Asn399, Asn437, Asn455, and Asn536
  • Modification sites at PhosphoSitePlus

Other Protein References for CDH6 Gene

Antibody Products

  • R&D Systems Antibodies for CDH6 (Cadherin-6/KCAD)

No data available for DME Specific Peptides for CDH6 Gene

Domains & Families for CDH6 Gene

Gene Families for CDH6 Gene

Suggested Antigen Peptide Sequences for CDH6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P55285

UniProtKB/Swiss-Prot:

CADH6_HUMAN :
  • Three calcium ions are usually bound at the interface of each cadherin domain and rigidify the connections, imparting a strong curvature to the full-length ectodomain.
Domain:
  • Three calcium ions are usually bound at the interface of each cadherin domain and rigidify the connections, imparting a strong curvature to the full-length ectodomain.
genes like me logo Genes that share domains with CDH6: view

Function for CDH6 Gene

Molecular function for CDH6 Gene

GENATLAS Biochemistry:
cadherin 6,K-cadherin,transmembrane glycoprotein component of adherens junction,expressed in fetal kidney
UniProtKB/Swiss-Prot Function:
Cadherins are calcium-dependent cell adhesion proteins. They preferentially interact with themselves in a homophilic manner in connecting cells; cadherins may thus contribute to the sorting of heterogeneous cell types.

Gene Ontology (GO) - Molecular Function for CDH6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with CDH6: view
genes like me logo Genes that share phenotypes with CDH6: view

Animal Models for CDH6 Gene

MGI Knock Outs for CDH6:

Animal Model Products

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CDH6 Gene

Localization for CDH6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CDH6 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 CDH6 gene
Compartment Confidence
plasma membrane 5
extracellular 5
mitochondrion 2
cytosol 2
cytoskeleton 1
peroxisome 1
nucleus 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for CDH6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0070062 extracellular exosome IDA 23376485
genes like me logo Genes that share ontologies with CDH6: view

Pathways & Interactions for CDH6 Gene

genes like me logo Genes that share pathways with CDH6: view

Gene Ontology (GO) - Biological Process for CDH6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion TAS 7743525
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IEA --
GO:0007219 Notch signaling pathway IEA --
GO:0034332 adherens junction organization TAS --
genes like me logo Genes that share ontologies with CDH6: view

No data available for SIGNOR curated interactions for CDH6 Gene

Drugs & Compounds for CDH6 Gene

(4) Drugs for CDH6 Gene - From: ClinicalTrials and HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Antibodies Pharma 6394
Immunoglobulins Pharma 6394
Maytansine Pharma 75
calcium Nutra 0
genes like me logo Genes that share compounds with CDH6: view

Transcripts for CDH6 Gene

Unigene Clusters for CDH6 Gene

Cadherin 6, type 2, K-cadherin (fetal kidney):
Representative Sequences:

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CDH6 Gene

No ASD Table

Relevant External Links for CDH6 Gene

GeneLoc Exon Structure for
CDH6
ECgene alternative splicing isoforms for
CDH6

Expression for CDH6 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CDH6 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CDH6 Gene

This gene is overexpressed in Kidney - Cortex (x7.3) and Artery - Tibial (x5.1).

Protein differential expression in normal tissues from HIPED for CDH6 Gene

This gene is overexpressed in Amniocyte (38.5) and Serum (13.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for CDH6 Gene



NURSA nuclear receptor signaling pathways regulating expression of CDH6 Gene:

CDH6

SOURCE GeneReport for Unigene cluster for CDH6 Gene:

Hs.124776

mRNA Expression by UniProt/SwissProt for CDH6 Gene:

P55285-CADH6_HUMAN
Tissue specificity: Highly expressed in brain, cerebellum, and kidney. Lung, pancreas, and gastric mucosa show a weak expression. Also expressed in certain liver and kidney carcinomas.

Evidence on tissue expression from TISSUES for CDH6 Gene

  • Kidney(4.7)
  • Nervous system(4.5)
  • Liver(4.2)
  • Bone marrow(4)
genes like me logo Genes that share expression patterns with CDH6: view

Primer Products

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for CDH6 Gene

Orthologs for CDH6 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CDH6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CDH6 34 35
  • 98.44 (n)
oppossum
(Monodelphis domestica)
Mammalia CDH6 35
  • 95 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CDH6 34 35
  • 92.95 (n)
mouse
(Mus musculus)
Mammalia Cdh6 34 16 35
  • 90.51 (n)
rat
(Rattus norvegicus)
Mammalia Cdh6 34
  • 89.52 (n)
dog
(Canis familiaris)
Mammalia CDH6 35
  • 86 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CDH6 35
  • 75 (a)
OneToOne
chicken
(Gallus gallus)
Aves CDH6 34 35
  • 80.8 (n)
lizard
(Anolis carolinensis)
Reptilia CDH6 35
  • 85 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia cdh6 34
  • 74.28 (n)
African clawed frog
(Xenopus laevis)
Amphibia cdh6-A 34
zebrafish
(Danio rerio)
Actinopterygii cdh6 34 35
  • 65.81 (n)
CABZ01067945.1 35
  • 65 (a)
ManyToMany
cdh10 35
  • 64 (a)
ManyToMany
Species where no ortholog for CDH6 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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 CDH6 Gene

ENSEMBL:
Gene Tree for CDH6 (if available)
TreeFam:
Gene Tree for CDH6 (if available)

Paralogs for CDH6 Gene

Paralogs for CDH6 Gene

(22) SIMAP similar genes for CDH6 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with CDH6: view

Variants for CDH6 Gene

Sequence variations from dbSNP and Humsavar for CDH6 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs1000026608 -- 31,286,147(+) TTGCT(A/G)TCATT intron-variant
rs1000030210 -- 31,248,090(+) TATGT(A/G)TGTTA intron-variant
rs1000045012 -- 31,197,836(+) ACTAA(A/G)TAGTA intron-variant
rs1000049449 -- 31,313,151(+) TATTT(C/T)ACTTA intron-variant
rs1000064624 -- 31,200,591(+) ACACA(C/T)ACACA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CDH6 Gene

Variant ID Type Subtype PubMed ID
dgv5619n100 CNV gain 25217958
esv2759336 CNV gain 17122850
esv3368091 CNV insertion 20981092
esv3604572 CNV gain 21293372
esv3604573 CNV loss 21293372
nsv1022392 CNV gain 25217958
nsv1123935 CNV deletion 24896259
nsv830247 CNV gain 17160897

Variation tolerance for CDH6 Gene

Residual Variation Intolerance Score: 6.55% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.38; 27.23% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CDH6 Gene

Human Gene Mutation Database (HGMD)
CDH6
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CDH6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CDH6 Gene

Disorders for CDH6 Gene

MalaCards: The human disease database

(1) MalaCards diseases for CDH6 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
renal cell carcinoma
  • renal cell carcinoma, clear cell, somatic
- elite association - COSMIC cancer census association via MalaCards
Search CDH6 in MalaCards View complete list of genes associated with diseases

Relevant External Links for CDH6

Genetic Association Database (GAD)
CDH6
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CDH6
genes like me logo Genes that share disorders with CDH6: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CDH6 Gene

Publications for CDH6 Gene

  1. Isolation and sequence analysis of human cadherin-6 complementary DNA for the full coding sequence and its expression in human carcinoma cells. (PMID: 7743525) Shimoyama Y. … Hirohashi S. (Cancer Res. 1995) 2 3 4 22 64
  2. Human plasma N-glycoproteome analysis by immunoaffinity subtraction, hydrazide chemistry, and mass spectrometry. (PMID: 16335952) Liu T. … Smith R.D. (J. Proteome Res. 2005) 3 4 64
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  5. Mapping of a cadherin gene cluster to a region of chromosome 5 subject to frequent allelic loss in carcinoma. (PMID: 10191097) Chalmers I.J. … Atkinson M.J. (Genomics 1999) 2 3 64

Products for CDH6 Gene

Sources for CDH6 Gene

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