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Aliases for CDH4 Gene

Aliases for CDH4 Gene

  • Cadherin 4, Type 1, R-Cadherin (Retinal) 2 3
  • R-Cadherin 2 3 4
  • Retinal Cadherin 3 4
  • R-CAD 3 4
  • Cadherin 4, Type 1, Preproprotein 3
  • Cadherin-4 3
  • CAD4 3
  • RCAD 3

External Ids for CDH4 Gene

Summaries for CDH4 Gene

Entrez Gene Summary for CDH4 Gene

  • This gene is a classical cadherin from the cadherin superfamily. The encoded protein is a calcium-dependent cell-cell adhesion glycoprotein comprised of five extracellular cadherin repeats, a transmembrane region and a highly conserved cytoplasmic tail. Based on studies in chicken and mouse, this cadherin is thought to play an important role during brain segmentation and neuronal outgrowth. In addition, a role in kidney and muscle development is indicated. Of particular interest are studies showing stable cis-heterodimers of cadherins 2 and 4 in cotransfected cell lines. Previously thought to interact in an exclusively homophilic manner, this is the first evidence of cadherin heterodimerization. Three transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Nov 2011]

GeneCards Summary for CDH4 Gene

CDH4 (Cadherin 4, Type 1, R-Cadherin (Retinal)) is a Protein Coding gene. Among its related pathways are L1CAM interactions and ERK Signaling. GO annotations related to this gene include calcium ion binding. An important paralog of this gene is CDH13.

UniProtKB/Swiss-Prot for CDH4 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. May play an important role in retinal development

Gene Wiki entry for CDH4 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CDH4 Gene

Genomics for CDH4 Gene

Genomic Location for CDH4 Gene

Start:
61,252,426 bp from pter
End:
61,940,617 bp from pter
Size:
688,192 bases
Orientation:
Plus strand

Genomic View for CDH4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CDH4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CDH4 Gene

Regulatory Elements for CDH4 Gene

Proteins for CDH4 Gene

  • Protein details for CDH4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P55283-CADH4_HUMAN
    Recommended name:
    Cadherin-4
    Protein Accession:
    P55283
    Secondary Accessions:
    • B3KWB8
    • G3V1P8
    • Q2M208
    • Q5VZ44
    • Q9BZ05

    Protein attributes for CDH4 Gene

    Size:
    916 amino acids
    Molecular mass:
    100281 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for CDH4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CDH4 Gene

Proteomics data for CDH4 Gene at MOPED

Post-translational modifications for CDH4 Gene

  • Modification sites at PhosphoSitePlus
  • Glycosylation at Thr84, Thr88, Asn283, Asn412, Asn557, Asn632, Asn661, and Asn702

Other Protein References for CDH4 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for CDH4 Gene

Domains for CDH4 Gene

Gene Families for CDH4 Gene

HGNC:
  • MCDH :Cadherins / Major cadherins

Suggested Antigen Peptide Sequences for CDH4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P55283

UniProtKB/Swiss-Prot:

CADH4_HUMAN
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.:
    • P55283
  • Contains 5 cadherin domains.:
    • P55283
genes like me logo Genes that share domains with CDH4: view

Function for CDH4 Gene

Molecular function for CDH4 Gene

GENATLAS Biochemistry: cadherin 4,R-cadherin,transmembrane glycoprotein component of adherens junction,expressed in retina,in brain,involved during brain segmentation and neuronal outgrowth and in 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. May play an important role in retinal development

Gene Ontology (GO) - Molecular Function for CDH4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with CDH4: view

Phenotypes for CDH4 Gene

MGI mutant phenotypes for CDH4:
inferred from 1 alleles
GenomeRNAi human phenotypes for CDH4:
genes like me logo Genes that share phenotypes with CDH4: view

Animal Models for CDH4 Gene

MGI Knock Outs for CDH4:

miRNA for CDH4 Gene

miRTarBase miRNAs that target CDH4

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for CDH4 Gene

Localization for CDH4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CDH4 Gene

Cell membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CDH4 Gene COMPARTMENTS Subcellular localization image for CDH4 gene
Compartment Confidence
plasma membrane 5
endoplasmic reticulum 2
nucleus 1

Gene Ontology (GO) - Cellular Components for CDH4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane IEA --
GO:0016020 membrane --
GO:0016021 integral component of membrane --
genes like me logo Genes that share ontologies with CDH4: view

Pathways for CDH4 Gene

genes like me logo Genes that share pathways with CDH4: view

Pathways by source for CDH4 Gene

Interacting Proteins for CDH4 Gene

Selected Interacting proteins: P55283-CADH4_HUMAN for CDH4 Gene via MINT I2D

Gene Ontology (GO) - Biological Process for CDH4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion TAS 2059658
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IEA --
GO:0007157 heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules IEA --
GO:0007411 axon guidance IEA --
GO:0034329 cell junction assembly TAS --
genes like me logo Genes that share ontologies with CDH4: view

Compounds for CDH4 Gene

(1) HMDB Compounds for CDH4 Gene

Compound Synonyms Cas Number PubMed IDs
Calcium
  • Ca
7440-70-2
genes like me logo Genes that share compounds with CDH4: view

Transcripts for CDH4 Gene

Unigene Clusters for CDH4 Gene

Cadherin 4, type 1, R-cadherin (retinal):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for CDH4 Gene

No ASD Table

Relevant External Links for CDH4 Gene

GeneLoc Exon Structure for
CDH4
ECgene alternative splicing isoforms for
CDH4

Expression for CDH4 Gene

mRNA expression in normal human tissues for CDH4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CDH4 Gene

This gene is overexpressed in Brain - Amygdala (5.6), Brain - Nucleus accumbens (basal ganglia) (5.6), Brain - Caudate (basal ganglia) (4.6), Brain - Cortex (4.3), and Brain - Putamen (basal ganglia) (4.1).

Integrated Proteomics: protein expression from ProteomicsDB, MOPED, and MaxQB for CDH4 Gene

SOURCE GeneReport for Unigene cluster for CDH4 Gene Hs.473231

mRNA Expression by UniProt/SwissProt for CDH4 Gene

P55283-CADH4_HUMAN
Tissue specificity: Expressed mainly in brain but also found in other tissues
genes like me logo Genes that share expressions with CDH4: view

Orthologs for CDH4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CDH4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CDH4 35
  • 99.22 (n)
  • 99.72 (a)
CDH4 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CDH4 35
  • 88.62 (n)
  • 93.98 (a)
CDH4 36
  • 94 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CDH4 35
  • 89.17 (n)
  • 93.46 (a)
CDH4 36
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Cdh4 35
  • 84.8 (n)
  • 93.07 (a)
Cdh4 16
Cdh4 36
  • 92 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CDH4 36
  • 91 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CDH4 36
  • 95 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Cdh4 35
  • 86.07 (n)
  • 95.41 (a)
chicken
(Gallus gallus)
Aves CDH4 35
  • 79.29 (n)
  • 88.38 (a)
CDH4 36
  • 89 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CDH4 36
  • 91 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia cdh4 35
  • 70.83 (n)
  • 71.37 (a)
zebrafish
(Danio rerio)
Actinopterygii cdh4 35
  • 67.88 (n)
  • 69.84 (a)
cdh4 36
  • 70 (a)
OneToOne
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.8606 35
Species with no ortholog for CDH4:
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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 CDH4 Gene

ENSEMBL:
Gene Tree for CDH4 (if available)
TreeFam:
Gene Tree for CDH4 (if available)

Paralogs for CDH4 Gene

Paralogs for CDH4 Gene

Selected SIMAP similar genes for CDH4 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CDH4: view

Variants for CDH4 Gene

Sequence variations from dbSNP and Humsavar for CDH4 Gene

SNP ID Clin Chr 20 pos Sequence Context AA Info Type MAF
rs715923 -- 61,462,869(+) TCACC(A/C)GTCAG intron-variant
rs732832 -- 61,635,653(+) CAGAG(A/G)GGGCA intron-variant
rs733152 -- 61,434,902(+) ACTTA(A/T)TCTCA intron-variant
rs734061 -- 61,914,063(+) CGTTC(A/G)TAGCT intron-variant
rs734062 -- 61,914,064(+) GTTCG(C/T)AGCTA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CDH4 Gene

Variant ID Type Subtype PubMed ID
nsv912981 CNV Gain 21882294
nsv828767 CNV Gain 20364138
esv29173 CNV Loss 19812545
esv2722685 CNV Deletion 23290073
dgv706e201 CNV Deletion 23290073
esv2722687 CNV Deletion 23290073
esv2722688 CNV Deletion 23290073
esv2661038 CNV Deletion 23128226
esv2722689 CNV Deletion 23290073
esv2722691 CNV Deletion 23290073
esv2722692 CNV Deletion 23290073
esv2740723 CNV Deletion 23290073
nsv912982 CNV Loss 21882294
esv27613 CNV Loss 19812545
esv1771538 CNV Insertion 17803354
nsv179121 CNV Loss 16902084
esv2722693 CNV Deletion 23290073
esv2722696 CNV Deletion 23290073
nsv509780 CNV Insertion 20534489
nsv3437 CNV Insertion 18451855
esv2722697 CNV Deletion 23290073
esv2722698 CNV Deletion 23290073
nsv179441 CNV Loss 16902084
esv2722699 CNV Deletion 23290073
esv1196998 CNV Deletion 17803354
nsv912983 CNV Gain 21882294
esv7139 CNV Gain 19470904
esv1411893 CNV Insertion 17803354
esv1375804 CNV Insertion 17803354
esv2722700 CNV Deletion 23290073
esv26919 CNV Loss 19812545
esv2533474 CNV Insertion 19546169
nsv912984 CNV Loss 21882294
esv2722701 CNV Deletion 23290073
esv2722702 CNV Deletion 23290073
esv2490155 CNV Insertion 19546169
esv1532419 CNV Insertion 17803354
dgv4586n71 CNV Loss 21882294
esv26994 CNV Loss 19812545
nsv820509 CNV Duplication 20802225
esv2722703 CNV Deletion 23290073
esv2722704 CNV Deletion 23290073
nsv179535 CNV Loss 16902084
esv994043 CNV Deletion 20482838
dgv4587n71 CNV Loss 21882294
esv267785 CNV Insertion 20981092
nsv459050 CNV Loss 19166990
esv2673406 CNV Deletion 23128226
esv2722705 CNV Deletion 23290073
esv2554517 CNV Deletion 19546169
esv2249248 CNV Deletion 18987734
esv4512 CNV Deletion 18987735
esv2722707 CNV Deletion 23290073
nsv912989 CNV Gain 21882294
esv2670163 CNV Deletion 23128226
nsv428377 CNV Gain 18775914
nsv912990 CNV Loss 21882294
esv2574659 CNV Insertion 19546169
esv2662705 CNV Deletion 23128226
esv2345104 CNV Deletion 18987734
esv2677512 CNV Deletion 23128226
esv2554390 CNV Insertion 19546169
esv2657207 CNV Deletion 23128226
esv6269 CNV Gain 19470904
nsv912991 CNV Gain 21882294
dgv4588n71 CNV Loss 21882294
esv2722708 CNV Deletion 23290073
esv2722709 CNV Deletion 23290073
esv1919718 CNV Deletion 18987734
esv2722710 CNV Deletion 23290073
esv21842 CNV Loss 19812545
esv1403116 CNV Insertion 17803354
nsv179380 CNV Loss 16902084
esv2668257 CNV Deletion 23128226
esv269644 CNV Insertion 20981092
esv2722711 CNV Deletion 23290073
esv2722712 CNV Deletion 23290073
nsv912994 CNV Loss 21882294
esv2678442 CNV Deletion 23128226
esv2722713 CNV Deletion 23290073
esv2722714 CNV Deletion 23290073
esv3823 CNV Deletion 18987735
esv2722715 CNV Deletion 23290073
esv2664167 CNV Deletion 23128226
esv1730838 CNV Deletion 17803354
nsv180324 CNV Insertion 16902084
esv2670740 CNV Deletion 23128226
esv23845 CNV Loss 19812545
dgv4589n71 CNV Gain 21882294
esv1730921 CNV Insertion 17803354
nsv912996 CNV Loss 21882294
nsv459051 CNV Gain 19166990
nsv912998 CNV Loss 21882294
esv3427 CNV Deletion 18987735
nsv820520 CNV Deletion 20802225
esv29567 CNV Gain 19812545
esv2722716 CNV Deletion 23290073
nsv470554 CNV Gain 18288195
esv2722718 CNV Deletion 23290073
esv2722719 CNV Deletion 23290073
esv2722720 CNV Deletion 23290073
dgv4590n71 CNV Gain 21882294
esv2722721 CNV Deletion 23290073
esv2722722 CNV Deletion 23290073
esv2722723 CNV Deletion 23290073
esv2722724 CNV Deletion 23290073
nsv180477 CNV Loss 16902084
esv2722725 CNV Deletion 23290073
dgv4591n71 CNV Gain 21882294
esv2722726 CNV Deletion 23290073
esv2166723 CNV Deletion 18987734
esv1968864 CNV Deletion 18987734
esv2667943 CNV Deletion 23128226
esv2672261 CNV Deletion 23128226
esv2239488 CNV Deletion 18987734
dgv516n27 CNV Gain 19166990
nsv913003 CNV Loss 21882294
esv268349 CNV Insertion 20981092
nsv913004 CNV Loss 21882294
dgv4592n71 CNV Loss 21882294
esv2421637 CNV Deletion 20811451
dgv517n27 CNV Loss 19166990
esv2722727 CNV Deletion 23290073
esv2722729 CNV Deletion 23290073
esv2722730 CNV Deletion 23290073
esv1004654 CNV Deletion 20482838
esv26957 CNV Loss 19812545
esv1030240 CNV Insertion 17803354
esv2722731 CNV Deletion 23290073
nsv913011 CNV Loss 21882294
nsv913012 CNV Loss 21882294
nsv913013 CNV Gain 21882294
esv2722732 CNV Deletion 23290073
nsv179193 CNV Loss 16902084
esv2664194 CNV Deletion 23128226
esv2722733 CNV Deletion 23290073
esv1524929 CNV Deletion 17803354
nsv179156 CNV Loss 16902084
nsv178622 CNV Insertion 16902084
esv1377539 CNV Insertion 17803354
nsv3438 CNV Insertion 18451855
esv2722734 CNV Deletion 23290073
esv28660 CNV Gain 19812545
esv2659757 CNV Deletion 23128226
esv991147 CNV Deletion 20482838
nsv178561 CNV Loss 16902084
nsv179872 CNV Loss 16902084
esv2722735 CNV Deletion 23290073
nsv913014 CNV Loss 21882294
dgv4593n71 CNV Loss 21882294
dgv4594n71 CNV Loss 21882294
nsv913019 CNV Loss 21882294
nsv470555 CNV Loss 18288195
esv2474289 CNV Insertion 19546169
nsv513554 CNV Insertion 21212237
dgv4595n71 CNV Loss 21882294
nsv913023 CNV Loss 21882294
nsv178924 CNV Loss 16902084
nsv179279 CNV Loss 16902084
esv2722736 CNV Deletion 23290073
esv1006540 CNV Deletion 20482838
esv1051351 CNV Deletion 17803354
nsv913024 CNV Gain 21882294
esv2677659 CNV Deletion 23128226
esv2722737 CNV Deletion 23290073
esv2669775 CNV Deletion 23128226
esv2722738 CNV Deletion 23290073
dgv1340e1 CNV Complex 17122850
nsv428378 CNV Loss 18775914
esv2384820 CNV Deletion 18987734
esv2722740 CNV Deletion 23290073
esv2722741 CNV Deletion 23290073
esv2722742 CNV Deletion 23290073
esv2722743 CNV Deletion 23290073
esv2261889 CNV Deletion 18987734
esv8027 CNV Loss 19470904
dgv707e201 CNV Deletion 23290073
esv2722745 CNV Deletion 23290073
nsv913025 CNV Loss 21882294
nsv913026 CNV Loss 21882294
nsv509781 CNV Insertion 20534489
dgv4596n71 CNV Loss 21882294
nsv520753 CNV Loss 19592680
nsv913029 CNV Loss 21882294
esv2464264 CNV Insertion 19546169
esv4036 CNV Deletion 18987735
esv8975 CNV Gain 19470904
esv1356276 CNV Deletion 17803354
esv2722747 CNV Deletion 23290073
esv2722748 CNV Deletion 23290073
esv1217882 CNV Deletion 17803354
esv1590438 CNV Deletion 17803354
nsv3439 CNV Loss 18451855
esv2035318 CNV Deletion 18987734
esv26213 CNV Gain 19812545

Relevant External Links for CDH4 Gene

HapMap Linkage Disequilibrium report
CDH4
Human Gene Mutation Database (HGMD)
CDH4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CDH4 Gene

Disorders for CDH4 Gene

(2) Novoseek inferred disease relationships for CDH4 Gene

Disease -log(P) Hits PubMed IDs
tumors 0 2
cancer 0 2

Relevant External Links for CDH4

Genetic Association Database (GAD)
CDH4
Human Genome Epidemiology (HuGE) Navigator
CDH4
genes like me logo Genes that share disorders with CDH4: view

No data available for UniProtKB/Swiss-Prot for CDH4 Gene

Publications for CDH4 Gene

  1. Assignment of cadherin-4 (R-cadherin, CDH4) to human chromosome band 20q13.3. (PMID: 10516427) Kools P. … van Roy F. (Cytogenet. Cell Genet. 1999) 2 3 23
  2. Cloning of five human cadherins clarifies characteristic features of cadherin extracellular domain and provides further evidence for two structurally different types of cadherin. (PMID: 7982033) Tanihara H. … Suzuki S. (Cell Adhes. Commun. 1994) 3 4 23
  3. R-cadherin influences cell motility via Rho family GTPases. (PMID: 15143071) Johnson E. … Wheelock M.J. (J. Biol. Chem. 2004) 3 23
  4. Frequent aberrant methylation of the CDH4 gene promoter in human colorectal and gastric cancer. (PMID: 15548679) Miotto E. … Negrini M. (Cancer Res. 2004) 3 23
  5. Functional cis-heterodimers of N- and R-cadherins. (PMID: 10662782) Shan W.S. … Shapiro L. (J. Cell Biol. 2000) 3 23

Products for CDH4 Gene

Sources for CDH4 Gene

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