Human Gene CDH18 (ENST00000382275.6_7) from GENCODE V47lift37
  Description: cadherin 18, transcript variant 1 (from RefSeq NM_004934.5)
Gencode Transcript: ENST00000382275.6_7
Gencode Gene: ENSG00000145526.12_12
Transcript (Including UTRs)
   Position: hg19 chr5:19,471,405-19,988,309 Size: 516,905 Total Exon Count: 13 Strand: -
Coding Region
   Position: hg19 chr5:19,473,335-19,839,095 Size: 365,761 Coding Exon Count: 11 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:19,471,405-19,988,309)mRNA (may differ from genome)Protein (790 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CAD18_HUMAN
DESCRIPTION: RecName: Full=Cadherin-18; AltName: Full=Cadherin-14; Flags: Precursor;
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.
SUBCELLULAR LOCATION: Cell membrane; Single-pass type I membrane protein.
SIMILARITY: Contains 5 cadherin domains.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 9.92 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 40.93 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -139.70490-0.285 Picture PostScript Text
3' UTR -442.101930-0.229 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR002126 - Cadherin
IPR015919 - Cadherin-like
IPR020894 - Cadherin_CS
IPR000233 - Cadherin_cytoplasmic-dom

Pfam Domains:
PF00028 - Cadherin domain
PF01049 - Cadherin cytoplasmic region

SCOP Domains:
49313 - Cadherin-like

ModBase Predicted Comparative 3D Structure on Q13634
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005509 calcium ion binding
GO:0046872 metal ion binding

Biological Process:
GO:0007155 cell adhesion
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules
GO:0034332 adherens junction organization

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  U59325 - Human cadherin-14 mRNA, complete cds.
AK289547 - Homo sapiens cDNA FLJ78636 complete cds, highly similar to Homo sapiens cadherin 18, type 2 (CDH18), mRNA.
BC031051 - Homo sapiens cadherin 18, type 2, mRNA (cDNA clone MGC:33098 IMAGE:5278717), complete cds.
AK295087 - Homo sapiens cDNA FLJ61259 complete cds, highly similar to Cadherin-18 precursor.
DQ893551 - Synthetic construct clone IMAGE:100006181; FLH165866.01X; RZPDo839H09160D cadherin 18, type 2 (CDH18) gene, encodes complete protein.
DQ893936 - Synthetic construct Homo sapiens clone IMAGE:100008396; FLH165862.01L; RZPDo839H09159D cadherin 18, type 2 (CDH18) gene, encodes complete protein.
KJ896584 - Synthetic construct Homo sapiens clone ccsbBroadEn_05978 CDH18 gene, encodes complete protein.
AK308745 - Homo sapiens cDNA, FLJ98786.
CU689092 - Synthetic construct Homo sapiens gateway clone IMAGE:100020089 5' read CDH18 mRNA.
AK124789 - Homo sapiens cDNA FLJ42799 fis, clone BRAWH3009285.
JD171687 - Sequence 152711 from Patent EP1572962.
JD354630 - Sequence 335654 from Patent EP1572962.
JD332910 - Sequence 313934 from Patent EP1572962.
JD563331 - Sequence 544355 from Patent EP1572962.
JD292218 - Sequence 273242 from Patent EP1572962.
JD234453 - Sequence 215477 from Patent EP1572962.
JD535282 - Sequence 516306 from Patent EP1572962.
JD548324 - Sequence 529348 from Patent EP1572962.
JD089611 - Sequence 70635 from Patent EP1572962.
JD102270 - Sequence 83294 from Patent EP1572962.
JD205392 - Sequence 186416 from Patent EP1572962.
JD348893 - Sequence 329917 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q13634 (Reactome details) participates in the following event(s):

R-HSA-419001 Connection of adjacent cells through calcium-dependent trans-dimerization of cadherin
R-HSA-419002 Interaction of cadherin with Beta/gamma catenin, alpha catenin and p120 catenin
R-HSA-418990 Adherens junctions interactions
R-HSA-421270 Cell-cell junction organization
R-HSA-446728 Cell junction organization
R-HSA-1500931 Cell-Cell communication

-  Other Names for This Gene
  Alternate Gene Symbols: A8K0I2, B4DHG6, CAD18_HUMAN, CDH14, ENST00000382275.1, ENST00000382275.2, ENST00000382275.3, ENST00000382275.4, ENST00000382275.5, NM_004934, Q13634, Q8N5Z2, uc318qtf.1, uc318qtf.2
UCSC ID: ENST00000382275.6_7
RefSeq Accession: NM_004934.5
Protein: Q13634 (aka CAD18_HUMAN or CADI_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.