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Open reading frame (ORF) annotation in the exon skipping event | |
3'-UTR located exon skipping events lost miRNA binding sites | |
Splicing Quantitative Trait Loci (sQTLs) in the skipped exons | |
Gene summary for CDH10 |
Gene summary |
Gene information | Gene symbol | CDH10 | Gene ID | 1008 |
Gene name | cadherin 10 | |
Synonyms | - | |
Cytomap | 5p14.2-p14.1 | |
Type of gene | protein-coding | |
Description | cadherin-10T2-cadherincadherin 10 type 2 | |
Modification date | 20200313 | |
UniProtAcc | ||
Context |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
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Gene structures and expression levels for CDH10 |
Skipped exons in the ROSMAP, MSBB, and Mayo based on Ensembl gene isoform structure. * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
Differentially expressed gene analysis across multiple brain tissues between AD and control. |
Tissue type | DEG direction | Base mean exp. | log2FC(AD/control) | P-value | Adj. p-value |
Differentially expressed isoform analysis across multiple brain tissues between AD and control. |
Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
CB | UP | ENST00000510477.5 | CDH10-204:nonsense_mediated_decay:CDH10 | 6.130266e+01 | 1.921045e+00 | 6.175158e-09 | 2.008656e-07 |
Landscape of isoform expressions across multiple brain tissues between AD and control. |
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Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for CDH10 |
Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
All exon skipping events in AD cohorts. |
Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
exon_skip_259733 | chr5 | 24487532:24488153:24491576:24491827:24492817:24492925 | 24491576:24491827 |
exon_skip_286062 | chr5 | 24491576:24491827:24492817:24492925:24498398:24498519 | 24492817:24492925 |
exon_skip_292069 | chr5 | 24498398:24498519:24505112:24505248:24509566:24509819 | 24505112:24505248 |
Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control. |
Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
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Open reading frame (ORF) annotation in the exon skipping event for CDH10 |
Open reading frame (ORF) of individual exon skipping events in ROSMAP based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000264463 | 24505112 | 24505248 | Frame-shift |
Open reading frame (ORF) of individual exon skipping events in MSBB based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000264463 | 24505112 | 24505248 | Frame-shift |
Open reading frame (ORF) of individual exon skipping events in Mayo based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000264463 | 24492817 | 24492925 | Frame-shift |
ENST00000264463 | 24505112 | 24505248 | Frame-shift |
ENST00000264463 | 24491576 | 24491827 | In-frame |
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Infer the effects of exon skipping event on protein functional features for CDH10 |
p-ENSG00000040731_img4.png |
Loci of skipped exons in ROSMAP across genomic, transcript, and protein sequence levels of In-frame cases. |
ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
Loci of skipped exons in MSBB across genomic, transcript, and protein sequence levels of In-frame cases. |
ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
Loci of skipped exons in Mayo across genomic, transcript, and protein sequence levels of In-frame cases. |
ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
ENST00000264463 | 3455 | 788 | 24491576 | 24491827 | 2133 | 2383 | 541 | 625 |
Lost protein functional features of individual exon skipping events in ROSMAP. |
UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
Lost protein functional features of individual exon skipping events in MSBB. |
UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
Lost protein functional features of individual exon skipping events in Mayo. |
UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
Q9Y6N8 | 541 | 625 | 55 | 788 | Chain | ID=PRO_0000003782;Note=Cadherin-10 |
Q9Y6N8 | 541 | 625 | 488 | 606 | Domain | Note=Cadherin 5;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00043 |
Q9Y6N8 | 541 | 625 | 55 | 613 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
Q9Y6N8 | 541 | 625 | 614 | 634 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
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3'-UTR located exon skipping events that lost miRNA binding sites in CDH10 |
3'-UTR exon skipping evnets lost miRNA binding. |
Tissue type | ENST | Exon skip start | Exon skip end | microRNA | Binding site by TargetScan | Binding type by TargetScan | Bdinding site by miRanda | Score of miRanda | Energy by miRanda |
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SNVs in the skipped exons for CDH10 |
- Differential PSIs between mutated versus non-mutated samples. |
- Depth of Coverage in the skipped exon of the mutated samples. |
- Sashimi plot in the skipped exon of the mutated samples. |
- Non-synonymous mutations located in the skipped exons. |
Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
- Non-synonymous mutations located in the skipped exons in CCLE. |
Sample | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
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AD stage-associated exon skippint events for CDH10 |
Associated exon skipping events with Braak staging or Clinical Dementia Rating (CDR). |
AD stage info | Cohort | Tissue | SE id | Coefficient | P-value | Chromosome | Strand | E1 start | E1 end | Skipped start | Skipped end | E2 start | E2 end |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for CDH10 |
sQTL information located at the skipped exons. |
Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
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Correlation with RNA binding proteins (RBPs) for CDH10 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
CB | DAZAP1 | exon_skip_1047 | -4.048289e-01 | 1.321446e-07 |
CB | TARDBP | exon_skip_1047 | -4.659385e-01 | 6.856317e-10 |
CB | U2AF2 | exon_skip_1047 | -5.645303e-01 | 1.116798e-14 |
CB | CNOT4 | exon_skip_1047 | -4.969790e-01 | 3.096510e-11 |
CB | RBM3 | exon_skip_1047 | 4.009441e-01 | 1.784591e-07 |
CB | PCBP1 | exon_skip_1047 | -4.124385e-01 | 7.254226e-08 |
CB | PCBP4 | exon_skip_1047 | 4.910486e-01 | 5.733333e-11 |
CB | TRA2A | exon_skip_1047 | -5.802660e-01 | 1.345037e-15 |
CB | FUBP1 | exon_skip_1047 | -4.827384e-01 | 1.332840e-10 |
CB | HNRNPC | exon_skip_1047 | -5.261150e-01 | 1.256000e-12 |
CB | NUP42 | exon_skip_1047 | 4.715813e-01 | 3.994471e-10 |
CB | PTBP1 | exon_skip_1047 | -4.338214e-01 | 1.239388e-08 |
CB | CNOT4 | exon_skip_292069 | -4.931249e-01 | 8.179879e-11 |
CB | NUP42 | exon_skip_292069 | 5.043552e-01 | 2.577802e-11 |
CB | PTBP1 | exon_skip_292069 | -4.570527e-01 | 2.546492e-09 |
CB | SRSF4 | exon_skip_292069 | -4.455073e-01 | 7.052481e-09 |
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RelatedDrugs for CDH10 |
Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for CDH10 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |