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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 COA4 |
Gene summary |
Gene information | Gene symbol | COA4 | Gene ID | 51287 |
Gene name | cytochrome c oxidase assembly factor 4 homolog | |
Synonyms | CHCHD8|CMC3|E2IG2 | |
Cytomap | 11q13.4 | |
Type of gene | protein-coding | |
Description | cytochrome c oxidase assembly factor 4 homolog, mitochondrialE2-induced gene 2 proteincoiled-coil-helix-coiled-coil-helix domain containing 8coiled-coil-helix-coiled-coil-helix domain-containing protein 8 | |
Modification date | 20200313 | |
UniProtAcc | Q9NYJ1, | |
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 COA4 |
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 | ENST00000585056.5 | NCOA4-206:protein_coding:NCOA4 | 5.860762e+01 | 1.069791e+00 | 9.368197e-06 | 9.982955e-05 |
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 COA4 |
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_100188 | chr11 | 73873251:73873394:73876479:73876575:73876757:73876843 | 73876479:73876575 |
exon_skip_121199 | chr11 | 73872997:73873394:73876479:73876575:73876757:73876843 | 73876479:73876575 |
exon_skip_193693 | chr11 | 73873264:73873394:73876479:73876575:73876757:73876843 | 73876479:73876575 |
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 COA4 |
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 |
ENST00000537289 | 73876479 | 73876575 | 3UTR-3UTR |
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 |
ENST00000537289 | 73876479 | 73876575 | 3UTR-3UTR |
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 |
ENST00000537289 | 73876479 | 73876575 | 3UTR-3UTR |
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Infer the effects of exon skipping event on protein functional features for COA4 |
p-ENSG00000181924_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 |
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 |
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3'-UTR located exon skipping events that lost miRNA binding sites in COA4 |
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 |
Mayo | ENST00000537289 | 73876479 | 73876575 | hsa-miR-5189-3p | chr11:73876548-73876555 | 8mer-1a | chr11:73876536-73876555 | 161.00 | -27.59 |
Mayo | ENST00000537289 | 73876479 | 73876575 | hsa-miR-3921 | chr11:73876524-73876531 | 8mer-1a | chr11:73876510-73876531 | 160.00 | -20.79 |
Mayo | ENST00000537289 | 73876479 | 73876575 | hsa-miR-4653-5p | chr11:73876524-73876531 | 8mer-1a | chr11:73876510-73876531 | 160.00 | -20.79 |
Mayo | ENST00000537289 | 73876479 | 73876575 | hsa-miR-508-5p | chr11:73876498-73876505 | 8mer-1a | chr11:73876483-73876505 | 156.00 | -23.85 |
MSBB | ENST00000537289 | 73876479 | 73876575 | hsa-miR-5189-3p | chr11:73876548-73876555 | 8mer-1a | chr11:73876536-73876555 | 161.00 | -27.59 |
MSBB | ENST00000537289 | 73876479 | 73876575 | hsa-miR-3921 | chr11:73876524-73876531 | 8mer-1a | chr11:73876510-73876531 | 160.00 | -20.79 |
MSBB | ENST00000537289 | 73876479 | 73876575 | hsa-miR-4653-5p | chr11:73876524-73876531 | 8mer-1a | chr11:73876510-73876531 | 160.00 | -20.79 |
MSBB | ENST00000537289 | 73876479 | 73876575 | hsa-miR-508-5p | chr11:73876498-73876505 | 8mer-1a | chr11:73876483-73876505 | 156.00 | -23.85 |
ROSMAP | ENST00000537289 | 73876479 | 73876575 | hsa-miR-5189-3p | chr11:73876548-73876555 | 8mer-1a | chr11:73876536-73876555 | 161.00 | -27.59 |
ROSMAP | ENST00000537289 | 73876479 | 73876575 | hsa-miR-3921 | chr11:73876524-73876531 | 8mer-1a | chr11:73876510-73876531 | 160.00 | -20.79 |
ROSMAP | ENST00000537289 | 73876479 | 73876575 | hsa-miR-4653-5p | chr11:73876524-73876531 | 8mer-1a | chr11:73876510-73876531 | 160.00 | -20.79 |
ROSMAP | ENST00000537289 | 73876479 | 73876575 | hsa-miR-508-5p | chr11:73876498-73876505 | 8mer-1a | chr11:73876483-73876505 | 156.00 | -23.85 |
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SNVs in the skipped exons for COA4 |
- 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 COA4 |
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 COA4 |
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 COA4 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for COA4 |
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 COA4 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |