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| Open reading frame (ORF) annotation in the exon skipping event |
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| 3'-UTR located exon skipping events lost miRNA binding sites |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
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Gene summary for MSI2 |
 Gene summary |
| Gene information | Gene symbol | MSI2 | Gene ID | 124540 |
| Gene name | musashi RNA binding protein 2 | |
| Synonyms | MSI2H | |
| Cytomap | 17q22 | |
| Type of gene | protein-coding | |
| Description | RNA-binding protein Musashi homolog 2musashi homolog 2musashi-2 | |
| Modification date | 20200313 | |
| UniProtAcc | ||
| Context | - 30367664(Formation of Toxic Oligomeric Assemblies of RNA-binding Protein: Musashi in Alzheimer's disease) |
| 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 MSI2 |
| 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. |
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ENSG00000153944
| 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. |
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| Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
| STG | UP | ENST00000416426.6 | MSI2-203:protein_coding:MSI2 | 3.825647e+01 | 1.152333e+00 | 5.070996e-04 | 2.731574e-02 |
| PG | UP | ENST00000582772.1 | MSI2-216:lncRNA:MSI2 | 3.660839e+00 | 9.928968e-01 | 1.397275e-06 | 1.137262e-04 |
| CB | UP | ENST00000322684.7 | MSI2-202:protein_coding:MSI2 | 7.360598e+01 | 9.290906e-01 | 1.208165e-02 | 4.053369e-02 |
| 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 MSI2 |
| Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
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| All exon skipping events in AD cohorts. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
| exon_skip_112573 | chr17 | 57627229:57627303:57652099:57652161:57674972:57675056 | 57652099:57652161 |
| exon_skip_122817 | chr17 | 57258270:57258354:57259977:57260054:57262151:57262192 | 57259977:57260054 |
| exon_skip_145368 | chr17 | 57258272:57258354:57259977:57260054:57262151:57262192 | 57259977:57260054 |
| exon_skip_189920 | chr17 | 57674972:57675126:57676987:57677059:57679549:57680121 | 57676987:57677059 |
| exon_skip_226907 | chr17 | 57257124:57257138:57257466:57257547:57258270:57258354 | 57257466:57257547 |
| exon_skip_255341 | chr17 | 57257466:57257547:57258270:57258354:57262151:57262192 | 57258270:57258354 |
| exon_skip_74040 | chr17 | 57257470:57257547:57258270:57258354:57262151:57262192 | 57258270:57258354 |
| 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 MSI2 |
| 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 |
| ENST00000284073 | 57676987 | 57677059 | 3UTR-3CDS |
| ENST00000284073 | 57258270 | 57258354 | Frame-shift |
| ENST00000284073 | 57652099 | 57652161 | 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 |
| ENST00000284073 | 57676987 | 57677059 | 3UTR-3CDS |
| 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 |
| ENST00000284073 | 57676987 | 57677059 | 3UTR-3CDS |
| ENST00000284073 | 57257466 | 57257547 | Frame-shift |
| ENST00000284073 | 57258270 | 57258354 | Frame-shift |
| ENST00000284073 | 57652099 | 57652161 | In-frame |
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Infer the effects of exon skipping event on protein functional features for MSI2 |
p-ENSG00000153944_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 |
| ENST00000284073 | 6381 | 328 | 57652099 | 57652161 | 938 | 999 | 243 | 263 |
| 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 |
| ENST00000284073 | 6381 | 328 | 57652099 | 57652161 | 938 | 999 | 243 | 263 |
| 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 |
| Q96DH6 | 243 | 263 | 243 | 255 | Alternative sequence | ID=VSP_011170;Note=In isoform 2 and isoform 3. GFPAAAYGPVAAA->DYLPVSQDIIFIN;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:14702039,ECO:0000303|PubMed:15489334;Dbxref=PMID:14702039,PMID:15489334 |
| Q96DH6 | 243 | 263 | 256 | 328 | Alternative sequence | ID=VSP_011171;Note=In isoform 2 and isoform 3. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:14702039,ECO:0000303|PubMed:15489334;Dbxref=PMID:14702039,PMID:15489334 |
| Q96DH6 | 243 | 263 | 1 | 328 | Chain | ID=PRO_0000081652;Note=RNA-binding protein Musashi homolog 2 |
| Q96DH6 | 243 | 263 | 253 | 260 | Compositional bias | Note=Poly-Ala |
| Q96DH6 | 243 | 263 | 261 | 261 | Modified residue | Note=Omega-N-methylarginine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:24129315;Dbxref=PMID:24129315 |
| 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 |
| Q96DH6 | 243 | 263 | 243 | 255 | Alternative sequence | ID=VSP_011170;Note=In isoform 2 and isoform 3. GFPAAAYGPVAAA->DYLPVSQDIIFIN;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:14702039,ECO:0000303|PubMed:15489334;Dbxref=PMID:14702039,PMID:15489334 |
| Q96DH6 | 243 | 263 | 256 | 328 | Alternative sequence | ID=VSP_011171;Note=In isoform 2 and isoform 3. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:14702039,ECO:0000303|PubMed:15489334;Dbxref=PMID:14702039,PMID:15489334 |
| Q96DH6 | 243 | 263 | 1 | 328 | Chain | ID=PRO_0000081652;Note=RNA-binding protein Musashi homolog 2 |
| Q96DH6 | 243 | 263 | 253 | 260 | Compositional bias | Note=Poly-Ala |
| Q96DH6 | 243 | 263 | 261 | 261 | Modified residue | Note=Omega-N-methylarginine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:24129315;Dbxref=PMID:24129315 |
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3'-UTR located exon skipping events that lost miRNA binding sites in MSI2 |
| 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 MSI2 |
| - 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 MSI2 |
| 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 |
| ADstage | MSBB | IFG | exon_skip_189920 | 4.283930e-01 | 2.294164e-02 | chr17 | + | 57674972 | 57675126 | 57676987 | 57677059 | 57679549 | 57680121 |
| CDR | MSBB | IFG | exon_skip_189920 | 4.865698e-01 | 8.650057e-03 | chr17 | + | 57674972 | 57675126 | 57676987 | 57677059 | 57679549 | 57680121 |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for MSI2 |
| sQTL information located at the skipped exons. |
| Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
| TC | exon_skip_189920 | rs9303396 | chr17:57747757 | 2.186233e-04 | 3.047801e-02 |
| HCC | exon_skip_122817 | rs12946796 | chr17:57238704 | 9.793808e-14 | 5.646077e-11 |
| PCC | exon_skip_122817 | rs10515136 | chr17:57270840 | 2.966093e-05 | 6.430113e-03 |
| PCC | exon_skip_122817 | rs9905801 | chr17:57223776 | 2.130721e-04 | 3.127744e-02 |
| PCC | exon_skip_122817 | rs2097730 | chr17:57226567 | 2.130721e-04 | 3.127744e-02 |
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Correlation with RNA binding proteins (RBPs) for MSI2 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| HCC | FUBP1 | exon_skip_122817 | 4.046107e-01 | 3.544949e-12 |
| TC | RBM3 | exon_skip_145368 | -4.469306e-01 | 3.135956e-09 |
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RelatedDrugs for MSI2 |
| 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 MSI2 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
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