Human Gene CDH2 (ENST00000269141.8_7) from GENCODE V47lift37
  Description: cadherin 2, transcript variant 1 (from RefSeq NM_001792.5)
Gencode Transcript: ENST00000269141.8_7
Gencode Gene: ENSG00000170558.10_16
Transcript (Including UTRs)
   Position: hg19 chr18:25,530,930-25,757,094 Size: 226,165 Total Exon Count: 16 Strand: -
Coding Region
   Position: hg19 chr18:25,532,117-25,756,986 Size: 224,870 Coding Exon Count: 16 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr18:25,530,930-25,757,094)mRNA (may differ from genome)Protein (906 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CADH2_HUMAN
DESCRIPTION: RecName: Full=Cadherin-2; AltName: Full=CDw325; AltName: Full=Neural cadherin; Short=N-cadherin; AltName: CD_antigen=CD325; 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. CDH2 may be involved in neuronal recognition mechanism. In hippocampal neurons, may regulate dendritic spine density (By similarity).
SUBUNIT: Interacts with CDCP1. Identified in a complex containing FGFR4, NCAM1, CDH2, PLCG1, FRS2, SRC, SHC1, GAP43 and CTTN. Interacts with PCDH8; this complex may also include TAOK2. The interaction with PCDH8 may lead to internalization through TAOK2/p38 MAPK pathway (By similarity).
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


-  MalaCards Disease Associations
  MalaCards Gene Search: CDH2
Diseases sorted by gene-association score: arrhythmogenic right ventricular cardiomyopathy (10), malignant pleural mesothelioma (9), tongue squamous cell carcinoma (9), hypotrichosis, congenital, with juvenile macular dystrophy (8), mesothelioma, somatic (8), hypoplastic left heart syndrome (7), spindle cell synovial sarcoma (6), arrhythmogenic right ventricular dysplasia 5 (5), cardiomyopathy, dilated, 1e (5), cervix small cell carcinoma (4), ovarian cancer, somatic (3), intrahepatic cholangiocarcinoma (2), pancreatic cancer (2), lung cancer (2), bladder cancer, somatic (2), prostate cancer (2), breast cancer (2)

-  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: 52.12 RPKM in Heart - Left Ventricle
Total median expression: 343.72 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 -26.60108-0.246 Picture PostScript Text
3' UTR -270.201187-0.228 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
IPR014868 - Cadherin_pro_dom
IPR009124 - Desmocollin

Pfam Domains:
PF00028 - Cadherin domain
PF01049 - Cadherin cytoplasmic region
PF08758 - Cadherin prodomain like

SCOP Domains:
49373 - Invasin/intimin cell-adhesion fragments
49313 - Cadherin-like
75005 - Arabinanase/levansucrase/invertase

ModBase Predicted Comparative 3D Structure on P19022
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:0005515 protein binding
GO:0008013 beta-catenin binding
GO:0019899 enzyme binding
GO:0019901 protein kinase binding
GO:0019903 protein phosphatase binding
GO:0042802 identical protein binding
GO:0045294 alpha-catenin binding
GO:0045295 gamma-catenin binding
GO:0046872 metal ion binding

Biological Process:
GO:0007155 cell adhesion
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules
GO:0007157 heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules
GO:0009966 regulation of signal transduction
GO:0010001 glial cell differentiation
GO:0016339 calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules
GO:0016477 cell migration
GO:0021537 telencephalon development
GO:0021987 cerebral cortex development
GO:0034332 adherens junction organization
GO:0043410 positive regulation of MAPK cascade
GO:0043687 post-translational protein modification
GO:0044267 cellular protein metabolic process
GO:0044331 cell-cell adhesion mediated by cadherin
GO:0048514 blood vessel morphogenesis
GO:0048854 brain morphogenesis
GO:0048872 homeostasis of number of cells
GO:0051146 striated muscle cell differentiation
GO:0051149 positive regulation of muscle cell differentiation
GO:0060019 radial glial cell differentiation
GO:0060563 neuroepithelial cell differentiation
GO:0070445 regulation of oligodendrocyte progenitor proliferation
GO:0072659 protein localization to plasma membrane
GO:0090090 negative regulation of canonical Wnt signaling pathway
GO:0097118 neuroligin clustering involved in postsynaptic membrane assembly
GO:0097150 neuronal stem cell population maintenance
GO:1902897 regulation of postsynaptic density protein 95 clustering
GO:2000809 positive regulation of synaptic vesicle clustering

Cellular Component:
GO:0005737 cytoplasm
GO:0005788 endoplasmic reticulum lumen
GO:0005886 plasma membrane
GO:0005911 cell-cell junction
GO:0005912 adherens junction
GO:0005913 cell-cell adherens junction
GO:0005916 fascia adherens
GO:0005925 focal adhesion
GO:0009986 cell surface
GO:0014069 postsynaptic density
GO:0014704 intercalated disc
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0016323 basolateral plasma membrane
GO:0016324 apical plasma membrane
GO:0016342 catenin complex
GO:0030027 lamellipodium
GO:0030054 cell junction
GO:0031012 extracellular matrix
GO:0042383 sarcolemma
GO:0044853 plasma membrane raft
GO:0045202 synapse
GO:0030864 cortical actin cytoskeleton


-  Descriptions from all associated GenBank mRNAs
  M34064 - Human N-cadherin mRNA, complete cds.
X57548 - Human mRNA for N-cadherin.
BC036470 - Homo sapiens cadherin 2, type 1, N-cadherin (neuronal), mRNA (cDNA clone MGC:41765 IMAGE:5264944), complete cds.
S42303 - N-cadherin [human, umbilical vein endothelial cells, mRNA, 4132 nt].
AK302831 - Homo sapiens cDNA FLJ53252 complete cds, highly similar to Cadherin-2 precursor.
X54315 - Human mRNA for N-cadherin.
EU832318 - Synthetic construct Homo sapiens clone HAIB:100067347; DKFZo008E0127 cadherin 2, type 1, N-cadherin (neuronal) protein (CDH2) gene, encodes complete protein.
EU832403 - Synthetic construct Homo sapiens clone HAIB:100067432; DKFZo004E0128 cadherin 2, type 1, N-cadherin (neuronal) protein (CDH2) gene, encodes complete protein.
AB384981 - Synthetic construct DNA, clone: pF1KB4700, Homo sapiens CDH2 gene for cadherin-2 precursor, complete cds, without stop codon, in Flexi system.
BX648579 - Homo sapiens mRNA; cDNA DKFZp686N1372 (from clone DKFZp686N1372).
BC021695 - Homo sapiens cadherin 2, type 1, N-cadherin (neuronal), mRNA (cDNA clone IMAGE:4050571), with apparent retained intron.
JD502211 - Sequence 483235 from Patent EP1572962.
JD241977 - Sequence 223001 from Patent EP1572962.
AK129728 - Homo sapiens cDNA FLJ26217 fis, clone ADG08167.
JD271292 - Sequence 252316 from Patent EP1572962.
JD458514 - Sequence 439538 from Patent EP1572962.
JD056228 - Sequence 37252 from Patent EP1572962.
JD458513 - Sequence 439537 from Patent EP1572962.
JD056229 - Sequence 37253 from Patent EP1572962.
JD417032 - Sequence 398056 from Patent EP1572962.
JD150417 - Sequence 131441 from Patent EP1572962.
JD406337 - Sequence 387361 from Patent EP1572962.

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

Protein P19022 (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-8952289 FAM20C phosphorylates FAM20C substrates
R-HSA-375140 CDO binds promyogenic cadherins
R-HSA-376121 Bnip2 interacts with CDO complex
R-HSA-376119 Interaction of Bnip-2 with Cdc42
R-HSA-376117 JLP interacts with CDO complex
R-HSA-449200 Interaction of ABL1 with CDO complex
R-HSA-448957 Interaction of p38 MAPK with JLP
R-HSA-418990 Adherens junctions interactions
R-HSA-421270 Cell-cell junction organization
R-HSA-381426 Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs)
R-HSA-8957275 Post-translational protein phosphorylation
R-HSA-375170 CDO in myogenesis
R-HSA-446728 Cell junction organization
R-HSA-392499 Metabolism of proteins
R-HSA-597592 Post-translational protein modification
R-HSA-525793 Myogenesis
R-HSA-1500931 Cell-Cell communication
R-HSA-1266738 Developmental Biology

-  Other Names for This Gene
  Alternate Gene Symbols: A8MWK3, B0YIY6, CADH2_HUMAN, CDHN, ENST00000269141.1, ENST00000269141.2, ENST00000269141.3, ENST00000269141.4, ENST00000269141.5, ENST00000269141.6, ENST00000269141.7, NCAD, NM_001792, P19022, Q14923, Q8N173, uc317ipx.1, uc317ipx.2
UCSC ID: ENST00000269141.8_7
RefSeq Accession: NM_001792.5
Protein: P19022 (aka CADH2_HUMAN or CAD2_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.