|
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 MYD88 |
Gene summary |
Gene information | Gene symbol | MYD88 | Gene ID | 4615 |
Gene name | MYD88 innate immune signal transduction adaptor | |
Synonyms | MYD88D | |
Cytomap | 3p22.2 | |
Type of gene | protein-coding | |
Description | myeloid differentiation primary response protein MyD88mutant myeloid differentiation primary response 88myeloid differentiation primary response 88myeloid differentiation primary response gene (88) | |
Modification date | 20200327 | |
UniProtAcc | A0A0A0MS70, | |
Context |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
MYD88 | GO:0070935 | 3'-UTR-mediated mRNA stabilization | 15294994 |
Top |
Gene structures and expression levels for MYD88 |
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 | DOWN | ENST00000650112.1 | MYD88-213:protein_coding:MYD88 | 3.791687e+01 | -1.361848e+00 | 1.372488e-02 | 4.487790e-02 |
TC | DOWN | ENST00000421516.3 | MYD88-204:protein_coding:MYD88 | 1.971235e+00 | -3.567672e+00 | 6.937873e-03 | 4.273565e-02 |
Landscape of isoform expressions across multiple brain tissues between AD and control. |
Top |
Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for MYD88 |
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_102487 | chr3 | 38138552:38139028:38139864:38139998:38140388:38140568 | 38139864:38139998 |
exon_skip_131553 | chr3 | 38138657:38139028:38139864:38139998:38140757:38140848 | 38139864:38139998 |
exon_skip_166870 | chr3 | 38138662:38139028:38139864:38139998:38140388:38140549 | 38139864:38139998 |
exon_skip_184291 | chr3 | 38139864:38139998:38140388:38140549:38140757:38140848 | 38140388:38140549 |
exon_skip_215699 | chr3 | 38138662:38139028:38140388:38140568:38140757:38140848 | 38140388:38140568 |
exon_skip_234415 | chr3 | 38138478:38139028:38140388:38140568:38140757:38140848 | 38140388:38140568 |
exon_skip_33315 | chr3 | 38138662:38139028:38139864:38139998:38140757:38140848 | 38139864:38139998 |
exon_skip_60608 | chr3 | 38139864:38139998:38140388:38140592:38140757:38140848 | 38140388:38140592 |
exon_skip_90469 | chr3 | 38139864:38139998:38140388:38140568:38140757:38140848 | 38140388:38140568 |
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 |
Top |
Open reading frame (ORF) annotation in the exon skipping event for MYD88 |
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 |
ENST00000396334 | 38140388 | 38140568 | Frame-shift |
ENST00000396334 | 38139864 | 38139998 | In-frame |
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 |
ENST00000396334 | 38140388 | 38140568 | 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 |
ENST00000396334 | 38140388 | 38140568 | Frame-shift |
ENST00000396334 | 38139864 | 38139998 | In-frame |
Top |
Infer the effects of exon skipping event on protein functional features for MYD88 |
p-ENSG00000172936_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 |
Top |
3'-UTR located exon skipping events that lost miRNA binding sites in MYD88 |
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 |
Top |
SNVs in the skipped exons for MYD88 |
- 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 |
Top |
AD stage-associated exon skippint events for MYD88 |
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 |
Top |
Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for MYD88 |
sQTL information located at the skipped exons. |
Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
CB | exon_skip_166870 | rs7744 | chr3:38142530 | 3.513425e-13 | 5.951179e-10 |
Top |
Correlation with RNA binding proteins (RBPs) for MYD88 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
Top |
RelatedDrugs for MYD88 |
Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Top |
RelatedDiseases for MYD88 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |