Human Gene CDH26 (uc002ybe.3) Description and Page Index
  Description: Homo sapiens cadherin 26 (CDH26), transcript variant a, mRNA.
RefSeq Summary (NM_177980): This gene encodes a member of the cadherin protein family. Cadherins are a family of calcium-dependent adhesion molecules that mediate cell-cell adhesion in all solid tissues and modulate a wide variety of processes, including cell polarization, migration and differentiation. Cadherin domains occur as repeats in the extracellular region and are thought to contribute to the sorting of heterogeneous cell types and the maintenance of orderly structures such as epithelium. This protein is expressed in gastrointestinal epithelial cells and may be upregulated during allergic inflammation. This protein interacts with alpha integrins and may also be involved in leukocyte migration and adhesion. [provided by RefSeq, Jan 2017].
Transcript (Including UTRs)
   Position: hg19 chr20:58,533,471-58,588,168 Size: 54,698 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr20:58,533,782-58,587,785 Size: 54,004 Coding Exon Count: 18 

Page IndexSequence and LinksGenetic AssociationsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr20:58,533,471-58,588,168)mRNA (may differ from genome)Protein (832 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
OMIMPubMedStanford SOURCETreefamUniProtKB

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CDH26
CDC HuGE Published Literature: CDH26
Positive Disease Associations: Blood Pressure
Related Studies:
  1. Blood Pressure
    Daniel Levy et al. BMC medical genetics 2007, Framingham Heart Study 100K Project: genome-wide associations for blood pressure and arterial stiffness., BMC medical genetics. [PubMed 17903302]
    These results of genome-wide association testing for blood pressure and arterial stiffness phenotypes in an unselected community-based sample of adults may aid in the identification of the genetic basis of hypertension and arterial disease, help identify high risk individuals, and guide novel therapies for hypertension. Additional studies are needed to replicate any associations identified in these analyses.

-  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: 3.85 RPKM in Prostate
Total median expression: 22.96 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 -95.09311-0.306 Picture PostScript Text
3' UTR -86.57383-0.226 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
  Pfam Domains:
PF00028 - Cadherin domain

SCOP Domains:
49313 - Cadherin-like

ModBase Predicted Comparative 3D Structure on Q8IXH8-4
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 orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Descriptions from all associated GenBank mRNAs
  AF169690 - Homo sapiens cadherin-like protein VR20 mRNA, partial cds.
AK074477 - Homo sapiens cDNA FLJ23897 fis, clone LNG15183.
AK055202 - Homo sapiens cDNA FLJ30640 fis, clone CTONG2002816, highly similar to Homo sapiens cadherin-like 26 (CDH26), transcript variant a, mRNA.
JD535697 - Sequence 516721 from Patent EP1572962.
JD263314 - Sequence 244338 from Patent EP1572962.
JD433830 - Sequence 414854 from Patent EP1572962.
JD424190 - Sequence 405214 from Patent EP1572962.
BC136306 - Homo sapiens cadherin-like 26, mRNA (cDNA clone MGC:167916 IMAGE:9020293), complete cds.
BC143931 - Homo sapiens cDNA clone IMAGE:9052449.
BC062570 - Homo sapiens cadherin-like 26, mRNA (cDNA clone IMAGE:5176769), complete cds.
KJ903030 - Synthetic construct Homo sapiens clone ccsbBroadEn_12424 CDH26 gene, encodes complete protein.
JD127325 - Sequence 108349 from Patent EP1572962.
JD241373 - Sequence 222397 from Patent EP1572962.
JD327156 - Sequence 308180 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_177980, NP_817089, Q8IXH8-4
UCSC ID: uc002ybe.3
RefSeq Accession: NM_177980
Protein: Q8IXH8-4, splice isoform of Q8IXH8 CCDS: CCDS13485.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_177980.2
exon count: 18CDS single in 3' UTR: no RNA size: 3193
ORF size: 2499CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 5048.50frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.