Human Gene CDH13 (ENST00000567109.6_7) from GENCODE V47lift37
  Description: cadherin 13, transcript variant 1 (from RefSeq NM_001257.5)
Gencode Transcript: ENST00000567109.6_7
Gencode Gene: ENSG00000140945.17_11
Transcript (Including UTRs)
   Position: hg19 chr16:82,660,574-83,834,245 Size: 1,173,672 Total Exon Count: 14 Strand: +
Coding Region
   Position: hg19 chr16:82,660,698-83,828,635 Size: 1,167,938 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesMicroarray 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 (chr16:82,660,574-83,834,245)mRNA (may differ from genome)Protein (713 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CAD13_HUMAN
DESCRIPTION: RecName: Full=Cadherin-13; AltName: Full=Heart cadherin; Short=H-cadherin; AltName: Full=P105; AltName: Full=Truncated cadherin; Short=T-cad; Short=T-cadherin; 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. May act as a negative regulator of neural cell growth.
SUBCELLULAR LOCATION: Cell membrane; Lipid-anchor, GPI-anchor.
TISSUE SPECIFICITY: Highly expressed in heart. In the CNS, expressed in cerebral cortex, medulla, hippocampus, amygdala, thalamus and substantia nigra. No expression detected in cerebellum or spinal cord.
DEVELOPMENTAL STAGE: Expressed at higher levels in adult brain than in developing brain.
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


-  MalaCards Disease Associations
  MalaCards Gene Search: CDH13
Diseases sorted by gene-association score: lung cancer (4), attention deficit-hyperactivity disorder (2), colorectal cancer (1)

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

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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -40.40124-0.326 Picture PostScript Text
3' UTR -1452.305610-0.259 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
IPR014868 - Cadherin_pro_dom

Pfam Domains:
PF00028 - Cadherin domain
PF08758 - Cadherin prodomain like
PF11617 - Putative metal-binding motif

SCOP Domains:
49313 - Cadherin-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2V37 - NMR MuPIT


ModBase Predicted Comparative 3D Structure on P55290
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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    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005509 calcium ion binding
GO:0030169 low-density lipoprotein particle binding
GO:0042803 protein homodimerization activity
GO:0045296 cadherin binding
GO:0046872 metal ion binding
GO:0055100 adiponectin binding
GO:0071813 lipoprotein particle binding

Biological Process:
GO:0000278 mitotic cell cycle
GO:0001938 positive regulation of endothelial cell proliferation
GO:0001954 positive regulation of cell-matrix adhesion
GO:0002040 sprouting angiogenesis
GO:0007155 cell adhesion
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules
GO:0007162 negative regulation of cell adhesion
GO:0007266 Rho protein signal transduction
GO:0008285 negative regulation of cell proliferation
GO:0010033 response to organic substance
GO:0016339 calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules
GO:0016601 Rac protein signal transduction
GO:0030032 lamellipodium assembly
GO:0030100 regulation of endocytosis
GO:0030335 positive regulation of cell migration
GO:0034332 adherens junction organization
GO:0042058 regulation of epidermal growth factor receptor signaling pathway
GO:0043542 endothelial cell migration
GO:0043616 keratinocyte proliferation
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0048661 positive regulation of smooth muscle cell proliferation
GO:0050850 positive regulation of calcium-mediated signaling
GO:0050927 positive regulation of positive chemotaxis
GO:0051668 localization within membrane
GO:0055096 low-density lipoprotein particle mediated signaling

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005737 cytoplasm
GO:0005886 plasma membrane
GO:0005901 caveola
GO:0005925 focal adhesion
GO:0009897 external side of plasma membrane
GO:0016020 membrane
GO:0031012 extracellular matrix
GO:0031225 anchored component of membrane
GO:0043005 neuron projection
GO:0048471 perinuclear region of cytoplasm
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  AK304592 - Homo sapiens cDNA FLJ54302 complete cds, highly similar to Cadherin-13 precursor.
EU190357 - Homo sapiens cadherin 13 soluble isoform 2 (CDH13) mRNA, complete cds, alternatively spliced.
EU190358 - Homo sapiens cadherin 13 soluble isoform 1 (CDH13) mRNA, complete cds, alternatively spliced.
AK307862 - Homo sapiens cDNA, FLJ97810.
AK298612 - Homo sapiens cDNA FLJ50610 complete cds, highly similar to Cadherin-13 precursor.
AK295886 - Homo sapiens cDNA FLJ50547 complete cds, highly similar to Cadherin-13 precursor.
BC028624 - Homo sapiens cadherin 13, H-cadherin (heart), mRNA (cDNA clone MGC:33612 IMAGE:4825734), complete cds.
BC030653 - Homo sapiens cadherin 13, H-cadherin (heart), mRNA (cDNA clone MGC:33162 IMAGE:4811561), complete cds.
L34058 - Homo sapiens cadherin-13 mRNA, complete cds.
U59288 - Human H-cadherin mRNA, complete cds.
U59289 - Human H-cadherin mRNA, complete cds.
BC012615 - Homo sapiens, clone IMAGE:4042282, mRNA.
AK304733 - Homo sapiens cDNA FLJ52398 complete cds, highly similar to Cadherin-13 precursor.
CU688968 - Synthetic construct Homo sapiens gateway clone IMAGE:100020037 5' read CDH13 mRNA.
KJ896582 - Synthetic construct Homo sapiens clone ccsbBroadEn_05976 CDH13 gene, encodes complete protein.
AB384879 - Synthetic construct DNA, clone: pF1KB3963, Homo sapiens CDH13 gene for cadherin-13 precursor, complete cds, without stop codon, in Flexi system.
DQ891713 - Synthetic construct clone IMAGE:100004343; FLH179340.01X; RZPDo839F05130D cadherin 13, H-cadherin (heart) (CDH13) gene, encodes complete protein.
DQ894890 - Synthetic construct Homo sapiens clone IMAGE:100009350; FLH179336.01L; RZPDo839F05129D cadherin 13, H-cadherin (heart) (CDH13) gene, encodes complete protein.
AK294277 - Homo sapiens cDNA FLJ54304 complete cds, highly similar to Cadherin-13 precursor.
DM110831 - Novel Cancer Marker and Use Thereof.
JD163076 - Sequence 144100 from Patent EP1572962.
JD557897 - Sequence 538921 from Patent EP1572962.
JD370849 - Sequence 351873 from Patent EP1572962.
JD333836 - Sequence 314860 from Patent EP1572962.
JD375823 - Sequence 356847 from Patent EP1572962.
JD373679 - Sequence 354703 from Patent EP1572962.
JD331264 - Sequence 312288 from Patent EP1572962.
JD330025 - Sequence 311049 from Patent EP1572962.
JD161051 - Sequence 142075 from Patent EP1572962.
JD247906 - Sequence 228930 from Patent EP1572962.
JD506520 - Sequence 487544 from Patent EP1572962.
JD326691 - Sequence 307715 from Patent EP1572962.
JD096836 - Sequence 77860 from Patent EP1572962.
JD373995 - Sequence 355019 from Patent EP1572962.
JD251249 - Sequence 232273 from Patent EP1572962.
JD037829 - Sequence 18853 from Patent EP1572962.
JD229001 - Sequence 210025 from Patent EP1572962.
JD267545 - Sequence 248569 from Patent EP1572962.
JD254845 - Sequence 235869 from Patent EP1572962.
JD334227 - Sequence 315251 from Patent EP1572962.
JD068613 - Sequence 49637 from Patent EP1572962.
JD373638 - Sequence 354662 from Patent EP1572962.
JD438780 - Sequence 419804 from Patent EP1572962.
JD161110 - Sequence 142134 from Patent EP1572962.
JD486306 - Sequence 467330 from Patent EP1572962.
JD239694 - Sequence 220718 from Patent EP1572962.
JD363887 - Sequence 344911 from Patent EP1572962.
JD083534 - Sequence 64558 from Patent EP1572962.
JD171476 - Sequence 152500 from Patent EP1572962.
JD303911 - Sequence 284935 from Patent EP1572962.
JD496303 - Sequence 477327 from Patent EP1572962.
JD277902 - Sequence 258926 from Patent EP1572962.
JD112179 - Sequence 93203 from Patent EP1572962.
JD478581 - Sequence 459605 from Patent EP1572962.
JD508659 - Sequence 489683 from Patent EP1572962.
JD463829 - Sequence 444853 from Patent EP1572962.
JD148318 - Sequence 129342 from Patent EP1572962.
JD148373 - Sequence 129397 from Patent EP1572962.
JD463889 - Sequence 444913 from Patent EP1572962.
JD249863 - Sequence 230887 from Patent EP1572962.
JD220441 - Sequence 201465 from Patent EP1572962.
JD319534 - Sequence 300558 from Patent EP1572962.

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

Protein P55290 (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: A8W476, A8W477, B7Z590, C9JRI6, CAD13_HUMAN, CDHH, ENST00000567109.1, ENST00000567109.2, ENST00000567109.3, ENST00000567109.4, ENST00000567109.5, J3KN62, NM_001257, P55290, Q6GTW4, Q8TBX3, uc325wlx.1, uc325wlx.2
UCSC ID: ENST00000567109.6_7
RefSeq Accession: NM_001257.5
Protein: P55290 (aka CAD13_HUMAN or CADD_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.