Human Gene CDH8 (ENST00000577390.6) from GENCODE V44
  Description: Homo sapiens cadherin 8 (CDH8), mRNA. (from RefSeq NM_001796)
RefSeq Summary (NM_001796): This gene encodes a type II classical cadherin from the cadherin superfamily, integral membrane proteins that mediate calcium-dependent cell-cell adhesion. Mature cadherin proteins are composed of a large N-terminal extracellular domain, a single membrane-spanning domain, and a small, highly conserved C-terminal cytoplasmic domain. The extracellular domain consists of 5 subdomains, each containing a cadherin motif, and appears to determine the specificity of the protein's homophilic cell adhesion activity. Type II (atypical) cadherins are defined based on their lack of a HAV cell adhesion recognition sequence specific to type I cadherins. This particular cadherin is expressed in brain and is putatively involved in synaptic adhesion, axon outgrowth and guidance. [provided by RefSeq, Jul 2008]. Sequence Note: This RefSeq record was created from transcript and genomic sequence data to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on transcript alignments.
Gencode Transcript: ENST00000577390.6
Gencode Gene: ENSG00000150394.14
Transcript (Including UTRs)
   Position: hg38 chr16:61,647,250-62,036,438 Size: 389,189 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg38 chr16:61,653,608-62,021,403 Size: 367,796 Coding Exon Count: 11 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:61,647,250-62,036,438)mRNA (may differ from genome)Protein (799 aa)
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HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CADH8_HUMAN
DESCRIPTION: RecName: Full=Cadherin-8; 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.
TISSUE SPECIFICITY: Mainly expressed in brain. Found in certain nerve cell lines, such as retinoblasts, glioma cells and neuroblasts.
SIMILARITY: Contains 5 cadherin domains.
SEQUENCE CAUTION: Sequence=AAA35628.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: CDH8
Diseases sorted by gene-association score: learning disability (23), autism spectrum disorder (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 3.40 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 25.29 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 -191.70558-0.344 Picture PostScript Text
3' UTR -1511.816358-0.238 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

ModBase Predicted Comparative 3D Structure on P55286
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-  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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005509 calcium ion binding
GO:0042802 identical protein binding
GO:0046872 metal ion binding

Biological Process:
GO:0007155 cell adhesion
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules
GO:0007268 chemical synaptic transmission
GO:0009409 response to cold
GO:0034332 adherens junction organization
GO:0035249 synaptic transmission, glutamatergic

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0043083 synaptic cleft
GO:0043679 axon terminus


-  Descriptions from all associated GenBank mRNAs
  BC113416 - Homo sapiens cadherin 8, type 2, mRNA (cDNA clone MGC:141976 IMAGE:8322468), complete cds.
AK124734 - Homo sapiens cDNA FLJ42744 fis, clone BRAWH3000088, highly similar to CADHERIN-8 PRECURSOR.
FW340075 - Screening.
L34060 - Homo sapiens cadherin-8 mRNA, complete cds.
AB035305 - Homo sapiens CDH8 mRNA for cadherin-8, complete cds.
HQ258504 - Synthetic construct Homo sapiens clone IMAGE:100072933 cadherin 8, type 2 (CDH8) gene, encodes complete protein.
KJ896580 - Synthetic construct Homo sapiens clone ccsbBroadEn_05974 CDH8 gene, encodes complete protein.
AB074170 - Homo sapiens primary neuroblastoma cDNA, clone:Nbla04261, full insert sequence.
JD177374 - Sequence 158398 from Patent EP1572962.
AF451288 - Homo sapiens cadherin-8 truncated variant mRNA, partial cds, alternatively spliced.
JD231004 - Sequence 212028 from Patent EP1572962.
JD440255 - Sequence 421279 from Patent EP1572962.

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

Protein P55286 (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: B3KWC1, CADH8_HUMAN, ENST00000577390.1, ENST00000577390.2, ENST00000577390.3, ENST00000577390.4, ENST00000577390.5, NM_001796, P55286, Q14DC6, Q9ULB2, uc002eog.1, uc002eog.2, uc002eog.3, uc002eog.4
UCSC ID: ENST00000577390.6
RefSeq Accession: NM_001796
Protein: P55286 (aka CADH8_HUMAN or CAD8_HUMAN)
CCDS: CCDS10802.1

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