|
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 TRPM3 |
Gene summary |
Gene information | Gene symbol | TRPM3 | Gene ID | 80036 |
Gene name | transient receptor potential cation channel subfamily M member 3 | |
Synonyms | GON-2|LTRPC3|MLSN2 | |
Cytomap | 9q21.12-q21.13 | |
Type of gene | protein-coding | |
Description | transient receptor potential cation channel subfamily M member 3long transient receptor potential channel 3melastatin-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 |
TRPM3 | GO:0006812 | cation transport | 15824111 |
Top |
Gene structures and expression levels for TRPM3 |
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 |
PG | UP | ENST00000358082.7 | TRPM3-203:protein_coding:TRPM3 | 1.577248e+01 | 1.570743e+00 | 3.904526e-03 | 3.843033e-02 |
CB | UP | ENST00000377111.6 | TRPM3-210:protein_coding:TRPM3 | 8.125824e+01 | 1.168493e+00 | 3.305721e-07 | 5.850704e-06 |
TC | UP | ENST00000377111.6 | TRPM3-210:protein_coding:TRPM3 | 9.390631e+00 | 8.217355e-01 | 4.467563e-04 | 5.263276e-03 |
TC | UP | ENST00000408909.6 | TRPM3-215:protein_coding:TRPM3 | 9.179545e+00 | 1.315549e+00 | 9.027334e-04 | 9.133975e-03 |
TC | UP | ENST00000358082.7 | TRPM3-203:protein_coding:TRPM3 | 9.571970e+00 | 1.018509e+00 | 4.547723e-03 | 3.119878e-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 TRPM3 |
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_213507 | chr9 | 70639114:70639194:70640560:70640660:70681506:70681578 | 70640560:70640660 |
exon_skip_216605 | chr9 | 70598419:70598670:70603342:70603470:70610609:70610749 | 70603342:70603470 |
exon_skip_270890 | chr9 | 70784105:70784279:70811170:70811244:70827847:70828018 | 70811170:70811244 |
exon_skip_271533 | chr9 | 70625191:70625331:70625482:70625517:70635211:70635261 | 70625482:70625517 |
exon_skip_71 | chr9 | 70620076:70620365:70621244:70621273:70625191:70625331 | 70621244:70621273 |
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 TRPM3 |
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 |
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 |
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 |
Top |
Infer the effects of exon skipping event on protein functional features for TRPM3 |
p-ENSG00000083067_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 TRPM3 |
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 TRPM3 |
- 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 TRPM3 |
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 TRPM3 |
sQTL information located at the skipped exons. |
Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
PCC | exon_skip_71 | rs12682832 | chr9:70605775 | 3.332778e-05 | 7.076764e-03 |
PCC | exon_skip_71 | rs2185339 | chr9:70614606 | 5.833747e-05 | 1.139516e-02 |
PCC | exon_skip_71 | rs3763619 | chr9:70610886 | 1.623891e-04 | 2.523720e-02 |
PCC | exon_skip_71 | rs11142508 | chr9:70616746 | 3.481507e-04 | 4.579067e-02 |
Top |
Correlation with RNA binding proteins (RBPs) for TRPM3 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
IFG | SRSF1 | exon_skip_71 | 5.544529e-01 | 3.289010e-03 |
IFG | SRSF9 | exon_skip_71 | 6.311020e-01 | 5.462050e-04 |
IFG | ILF2 | exon_skip_271533 | -5.341050e-01 | 5.957448e-03 |
IFG | NUP42 | exon_skip_271533 | -4.959547e-01 | 1.169071e-02 |
IFG | RALYL | exon_skip_271533 | -4.778429e-01 | 1.569876e-02 |
IFG | ESRP1 | exon_skip_271533 | -5.073510e-01 | 9.633528e-03 |
PCC | RBMS2 | exon_skip_271533 | 4.308397e-01 | 6.752328e-10 |
PCC | ELAVL4 | exon_skip_270890 | -4.395014e-01 | 1.797925e-10 |
PCC | RALYL | exon_skip_270890 | -4.021934e-01 | 7.354451e-09 |
STG | NOVA1 | exon_skip_270890 | -4.409164e-01 | 4.763867e-05 |
Top |
RelatedDrugs for TRPM3 |
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 TRPM3 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |