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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 TRIM3 |
Gene summary |
Gene information | Gene symbol | TRIM3 | Gene ID | 10612 |
Gene name | tripartite motif containing 3 | |
Synonyms | BERP|HAC1|RNF22|RNF97 | |
Cytomap | 11p15.4 | |
Type of gene | protein-coding | |
Description | tripartite motif-containing protein 3RING finger protein 97brain expressed ring fingerbrain-expressed RING finger proteinring finger protein 22tripartite motif protein TRIM3 | |
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 TRIM3 |
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 |
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 TRIM3 |
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_115271 | chr11 | 6458070:6458296:6465565:6465732:6473791:6473893 | 6465565:6465732 |
exon_skip_158197 | chr11 | 6465565:6465732:6473084:6473248:6474102:6474394 | 6473084:6473248 |
exon_skip_180704 | chr11 | 6456944:6457029:6457296:6457476:6457696:6457733 | 6457296:6457476 |
exon_skip_186850 | chr11 | 6458138:6458296:6465565:6465732:6473791:6473893 | 6465565:6465732 |
exon_skip_218950 | chr11 | 6465636:6465732:6473084:6473248:6473791:6473893 | 6473084:6473248 |
exon_skip_245919 | chr11 | 6465565:6465732:6473084:6473248:6473791:6473923 | 6473084:6473248 |
exon_skip_51683 | chr11 | 6465565:6465732:6473084:6473248:6473791:6473893 | 6473084:6473248 |
exon_skip_83406 | chr11 | 6450892:6451060:6451271:6451438:6456072:6456144 | 6451271:6451438 |
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 TRIM3 |
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 |
ENST00000345851 | 6465565 | 6465732 | 3UTR-3CDS |
ENST00000359518 | 6473084 | 6473248 | 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 |
ENST00000345851 | 6465565 | 6465732 | 3UTR-3CDS |
ENST00000359518 | 6473084 | 6473248 | 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 |
ENST00000345851 | 6465565 | 6465732 | 3UTR-3CDS |
ENST00000359518 | 6473084 | 6473248 | 3UTR-3UTR |
ENST00000345851 | 6457296 | 6457476 | Frame-shift |
ENST00000359518 | 6457296 | 6457476 | Frame-shift |
ENST00000525074 | 6457296 | 6457476 | Frame-shift |
ENST00000345851 | 6451271 | 6451438 | In-frame |
ENST00000359518 | 6451271 | 6451438 | In-frame |
ENST00000525074 | 6451271 | 6451438 | In-frame |
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Infer the effects of exon skipping event on protein functional features for TRIM3 |
p-ENSG00000110171_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 |
ENST00000345851 | 2896 | 744 | 6451271 | 6451438 | 1765 | 1931 | 511 | 566 |
ENST00000359518 | 3059 | 744 | 6451271 | 6451438 | 1930 | 2096 | 511 | 566 |
ENST00000525074 | 3061 | 744 | 6451271 | 6451438 | 1929 | 2095 | 511 | 566 |
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 |
O75382 | 511 | 566 | 2 | 744 | Chain | ID=PRO_0000056197;Note=Tripartite motif-containing protein 3 |
O75382 | 511 | 566 | 2 | 744 | Chain | ID=PRO_0000056197;Note=Tripartite motif-containing protein 3 |
O75382 | 511 | 566 | 2 | 744 | Chain | ID=PRO_0000056197;Note=Tripartite motif-containing protein 3 |
O75382 | 511 | 566 | 473 | 516 | Repeat | Note=NHL 1 |
O75382 | 511 | 566 | 473 | 516 | Repeat | Note=NHL 1 |
O75382 | 511 | 566 | 473 | 516 | Repeat | Note=NHL 1 |
O75382 | 511 | 566 | 520 | 563 | Repeat | Note=NHL 2 |
O75382 | 511 | 566 | 520 | 563 | Repeat | Note=NHL 2 |
O75382 | 511 | 566 | 520 | 563 | Repeat | Note=NHL 2 |
O75382 | 511 | 566 | 564 | 605 | Repeat | Note=NHL 3 |
O75382 | 511 | 566 | 564 | 605 | Repeat | Note=NHL 3 |
O75382 | 511 | 566 | 564 | 605 | Repeat | Note=NHL 3 |
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3'-UTR located exon skipping events that lost miRNA binding sites in TRIM3 |
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 | ENST00000359518 | 6473084 | 6473248 | hsa-miR-3116 | chr11:6473205-6473212 | 8mer-1a | chr11:6473194-6473217 | 167.00 | -29.59 |
Mayo | ENST00000359518 | 6473084 | 6473248 | hsa-miR-4256 | chr11:6473176-6473183 | 8mer-1a | chr11:6473164-6473192 | 151.00 | -31.08 |
Mayo | ENST00000359518 | 6473084 | 6473248 | hsa-miR-4293 | chr11:6473217-6473224 | 8mer-1a | chr11:6473213-6473235 | 177.00 | -31.46 |
Mayo | ENST00000359518 | 6473084 | 6473248 | hsa-miR-5100 | chr11:6473148-6473155 | 8mer-1a | chr11:6473135-6473155 | 152.00 | -19.12 |
Mayo | ENST00000359518 | 6473084 | 6473248 | hsa-miR-7154-3p | chr11:6473201-6473208 | 8mer-1a | chr11:6473194-6473217 | 167.00 | -29.59 |
Mayo | ENST00000359518 | 6473084 | 6473248 | hsa-miR-1233-3p | chr11:6473212-6473219 | 8mer-1a | chr11:6473205-6473228 | 161.00 | -30.16 |
Mayo | ENST00000359518 | 6473084 | 6473248 | hsa-miR-11181-5p | chr11:6473176-6473183 | 8mer-1a | chr11:6473164-6473192 | 151.00 | -31.08 |
Mayo | ENST00000359518 | 6473084 | 6473248 | hsa-miR-152-5p | chr11:6473179-6473186 | 8mer-1a | chr11:6473179-6473201 | 152.00 | -33.50 |
Mayo | ENST00000359518 | 6473084 | 6473248 | hsa-miR-657 | chr11:6473110-6473117 | 8mer-1a | chr11:6473102-6473124 | 156.00 | -25.21 |
Mayo | ENST00000359518 | 6473084 | 6473248 | hsa-miR-6515-5p | chr11:6473104-6473111 | 8mer-1a | chr11:6473102-6473124 | 156.00 | -25.21 |
Mayo | ENST00000359518 | 6473084 | 6473248 | hsa-miR-5088-3p | chr11:6473165-6473172 | 8mer-1a | chr11:6473153-6473174 | 161.00 | -27.93 |
Mayo | ENST00000359518 | 6473084 | 6473248 | hsa-miR-6829-5p | chr11:6473139-6473146 | 8mer-1a | chr11:6473129-6473150 | 160.00 | -27.85 |
Mayo | ENST00000359518 | 6473084 | 6473248 | hsa-miR-939-3p | chr11:6473142-6473149 | 8mer-1a | chr11:6473129-6473150 | 160.00 | -27.85 |
MSBB | ENST00000359518 | 6473084 | 6473248 | hsa-miR-3116 | chr11:6473205-6473212 | 8mer-1a | chr11:6473194-6473217 | 167.00 | -29.59 |
MSBB | ENST00000359518 | 6473084 | 6473248 | hsa-miR-4256 | chr11:6473176-6473183 | 8mer-1a | chr11:6473164-6473192 | 151.00 | -31.08 |
MSBB | ENST00000359518 | 6473084 | 6473248 | hsa-miR-4293 | chr11:6473217-6473224 | 8mer-1a | chr11:6473213-6473235 | 177.00 | -31.46 |
MSBB | ENST00000359518 | 6473084 | 6473248 | hsa-miR-5100 | chr11:6473148-6473155 | 8mer-1a | chr11:6473135-6473155 | 152.00 | -19.12 |
MSBB | ENST00000359518 | 6473084 | 6473248 | hsa-miR-7154-3p | chr11:6473201-6473208 | 8mer-1a | chr11:6473194-6473217 | 167.00 | -29.59 |
MSBB | ENST00000359518 | 6473084 | 6473248 | hsa-miR-1233-3p | chr11:6473212-6473219 | 8mer-1a | chr11:6473205-6473228 | 161.00 | -30.16 |
MSBB | ENST00000359518 | 6473084 | 6473248 | hsa-miR-11181-5p | chr11:6473176-6473183 | 8mer-1a | chr11:6473164-6473192 | 151.00 | -31.08 |
MSBB | ENST00000359518 | 6473084 | 6473248 | hsa-miR-152-5p | chr11:6473179-6473186 | 8mer-1a | chr11:6473179-6473201 | 152.00 | -33.50 |
MSBB | ENST00000359518 | 6473084 | 6473248 | hsa-miR-657 | chr11:6473110-6473117 | 8mer-1a | chr11:6473102-6473124 | 156.00 | -25.21 |
MSBB | ENST00000359518 | 6473084 | 6473248 | hsa-miR-6515-5p | chr11:6473104-6473111 | 8mer-1a | chr11:6473102-6473124 | 156.00 | -25.21 |
MSBB | ENST00000359518 | 6473084 | 6473248 | hsa-miR-5088-3p | chr11:6473165-6473172 | 8mer-1a | chr11:6473153-6473174 | 161.00 | -27.93 |
MSBB | ENST00000359518 | 6473084 | 6473248 | hsa-miR-6829-5p | chr11:6473139-6473146 | 8mer-1a | chr11:6473129-6473150 | 160.00 | -27.85 |
MSBB | ENST00000359518 | 6473084 | 6473248 | hsa-miR-939-3p | chr11:6473142-6473149 | 8mer-1a | chr11:6473129-6473150 | 160.00 | -27.85 |
ROSMAP | ENST00000359518 | 6473084 | 6473248 | hsa-miR-3116 | chr11:6473205-6473212 | 8mer-1a | chr11:6473194-6473217 | 167.00 | -29.59 |
ROSMAP | ENST00000359518 | 6473084 | 6473248 | hsa-miR-4256 | chr11:6473176-6473183 | 8mer-1a | chr11:6473164-6473192 | 151.00 | -31.08 |
ROSMAP | ENST00000359518 | 6473084 | 6473248 | hsa-miR-4293 | chr11:6473217-6473224 | 8mer-1a | chr11:6473213-6473235 | 177.00 | -31.46 |
ROSMAP | ENST00000359518 | 6473084 | 6473248 | hsa-miR-5100 | chr11:6473148-6473155 | 8mer-1a | chr11:6473135-6473155 | 152.00 | -19.12 |
ROSMAP | ENST00000359518 | 6473084 | 6473248 | hsa-miR-7154-3p | chr11:6473201-6473208 | 8mer-1a | chr11:6473194-6473217 | 167.00 | -29.59 |
ROSMAP | ENST00000359518 | 6473084 | 6473248 | hsa-miR-1233-3p | chr11:6473212-6473219 | 8mer-1a | chr11:6473205-6473228 | 161.00 | -30.16 |
ROSMAP | ENST00000359518 | 6473084 | 6473248 | hsa-miR-11181-5p | chr11:6473176-6473183 | 8mer-1a | chr11:6473164-6473192 | 151.00 | -31.08 |
ROSMAP | ENST00000359518 | 6473084 | 6473248 | hsa-miR-152-5p | chr11:6473179-6473186 | 8mer-1a | chr11:6473179-6473201 | 152.00 | -33.50 |
ROSMAP | ENST00000359518 | 6473084 | 6473248 | hsa-miR-657 | chr11:6473110-6473117 | 8mer-1a | chr11:6473102-6473124 | 156.00 | -25.21 |
ROSMAP | ENST00000359518 | 6473084 | 6473248 | hsa-miR-6515-5p | chr11:6473104-6473111 | 8mer-1a | chr11:6473102-6473124 | 156.00 | -25.21 |
ROSMAP | ENST00000359518 | 6473084 | 6473248 | hsa-miR-5088-3p | chr11:6473165-6473172 | 8mer-1a | chr11:6473153-6473174 | 161.00 | -27.93 |
ROSMAP | ENST00000359518 | 6473084 | 6473248 | hsa-miR-6829-5p | chr11:6473139-6473146 | 8mer-1a | chr11:6473129-6473150 | 160.00 | -27.85 |
ROSMAP | ENST00000359518 | 6473084 | 6473248 | hsa-miR-939-3p | chr11:6473142-6473149 | 8mer-1a | chr11:6473129-6473150 | 160.00 | -27.85 |
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SNVs in the skipped exons for TRIM3 |
- 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 TRIM3 |
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 TRIM3 |
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 TRIM3 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for TRIM3 |
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 TRIM3 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |