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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 TRRAP |
 Gene summary |
| Gene information | Gene symbol | TRRAP | Gene ID | 8295 |
| Gene name | transformation/transcription domain associated protein | |
| Synonyms | DEDDFA|DFNA75|PAF350/400|PAF400|STAF40|TR-AP|Tra1 | |
| Cytomap | 7q22.1 | |
| Type of gene | protein-coding | |
| Description | transformation/transcription domain-associated protein350/400 kDa PCAF-associated factortra1 homolog | |
| 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 |
| TRRAP | GO:0016578 | histone deubiquitination | 18206972 |
| TRRAP | GO:0043967 | histone H4 acetylation | 14966270 |
| TRRAP | GO:0043968 | histone H2A acetylation | 14966270 |
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Gene structures and expression levels for TRRAP |
| 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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ENSG00000196367
| 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 TRRAP |
| 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_102905 | chr7 | 98945747:98945800:98945930:98945950:98948221:98948340 | 98945930:98945950 |
| exon_skip_104204 | chr7 | 98962302:98962427:98964629:98964775:98965696:98965895 | 98964629:98964775 |
| exon_skip_106434 | chr7 | 98992137:98992227:98993538:98993737:98994587:98994848 | 98993538:98993737 |
| exon_skip_106859 | chr7 | 98927167:98927366:98929989:98930206:98930633:98930830 | 98929989:98930206 |
| exon_skip_106958 | chr7 | 98978769:98978904:98981769:98981960:98983264:98983459 | 98981769:98981960 |
| exon_skip_129591 | chr7 | 98967485:98967698:98970112:98970291:98971799:98971945 | 98970112:98970291 |
| exon_skip_136177 | chr7 | 98956399:98956533:98957981:98958091:98959344:98959490 | 98957981:98958091 |
| exon_skip_143211 | chr7 | 98967485:98967698:98970112:98970291:98971799:98971939 | 98970112:98970291 |
| exon_skip_180201 | chr7 | 98942949:98943017:98945747:98945800:98948221:98948340 | 98945747:98945800 |
| exon_skip_19688 | chr7 | 99030595:99030764:99030885:99031000:99031345:99031465 | 99030885:99031000 |
| exon_skip_197951 | chr7 | 98927217:98927366:98929989:98930206:98930633:98930830 | 98929989:98930206 |
| exon_skip_213724 | chr7 | 98897741:98897866:98899422:98899499:98899679:98899767 | 98899422:98899499 |
| exon_skip_218230 | chr7 | 99032894:99033039:99045542:99045792:99047655:99050831 | 99045542:99045792 |
| exon_skip_226175 | chr7 | 98942949:98943017:98945747:98945800:98945930:98945950 | 98945747:98945800 |
| exon_skip_232611 | chr7 | 98992137:98992227:98993592:98993737:98994587:98994848 | 98993592:98993737 |
| exon_skip_242087 | chr7 | 98903379:98903517:98906177:98906255:98908728:98908962 | 98906177:98906255 |
| exon_skip_252092 | chr7 | 98906177:98906255:98908728:98908962:98910056:98910419 | 98908728:98908962 |
| exon_skip_269044 | chr7 | 98956146:98956304:98956399:98956533:98957981:98958091 | 98956399:98956533 |
| exon_skip_276049 | chr7 | 99005131:99005348:99008377:99008561:99011052:99011255 | 99008377:99008561 |
| exon_skip_282323 | chr7 | 98959344:98959490:98961261:98961474:98962302:98962427 | 98961261:98961474 |
| exon_skip_4193 | chr7 | 98881975:98882024:98890335:98890445:98892424:98892528 | 98890335:98890445 |
| exon_skip_51373 | chr7 | 99030595:99030757:99030885:99031000:99031345:99031465 | 99030885:99031000 |
| exon_skip_78666 | chr7 | 98893798:98893881:98895764:98895820:98897741:98897866 | 98895764:98895820 |
| exon_skip_79138 | chr7 | 99014618:99014955:99030885:99031000:99031345:99031465 | 99030885:99031000 |
| exon_skip_88101 | chr7 | 99014618:99014955:99030595:99030757:99030885:99031000 | 99030595:99030757 |
| 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 TRRAP |
| 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 |
| ENST00000359863 | 98908728 | 98908962 | Frame-shift |
| ENST00000359863 | 98929989 | 98930206 | Frame-shift |
| ENST00000359863 | 98961261 | 98961474 | Frame-shift |
| ENST00000359863 | 98993592 | 98993737 | Frame-shift |
| ENST00000359863 | 98890335 | 98890445 | In-frame |
| ENST00000359863 | 98899422 | 98899499 | In-frame |
| ENST00000359863 | 98945747 | 98945800 | In-frame |
| ENST00000359863 | 98956399 | 98956533 | In-frame |
| ENST00000359863 | 98957981 | 98958091 | In-frame |
| ENST00000359863 | 98964629 | 98964775 | In-frame |
| ENST00000359863 | 98970112 | 98970291 | 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 |
| ENST00000359863 | 98908728 | 98908962 | Frame-shift |
| ENST00000359863 | 98993592 | 98993737 | Frame-shift |
| ENST00000359863 | 98890335 | 98890445 | In-frame |
| ENST00000359863 | 98945747 | 98945800 | In-frame |
| 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 |
| ENST00000359863 | 98906177 | 98906255 | Frame-shift |
| ENST00000359863 | 98908728 | 98908962 | Frame-shift |
| ENST00000359863 | 98929989 | 98930206 | Frame-shift |
| ENST00000359863 | 98961261 | 98961474 | Frame-shift |
| ENST00000359863 | 98993592 | 98993737 | Frame-shift |
| ENST00000359863 | 99008377 | 99008561 | Frame-shift |
| ENST00000359863 | 98890335 | 98890445 | In-frame |
| ENST00000359863 | 98895764 | 98895820 | In-frame |
| ENST00000359863 | 98945747 | 98945800 | In-frame |
| ENST00000359863 | 98957981 | 98958091 | In-frame |
| ENST00000359863 | 98970112 | 98970291 | In-frame |
| ENST00000359863 | 98981769 | 98981960 | In-frame |
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Infer the effects of exon skipping event on protein functional features for TRRAP |
p-ENSG00000196367_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 |
| ENST00000359863 | 12694 | 3859 | 98890335 | 98890445 | 361 | 470 | 50 | 87 |
| ENST00000359863 | 12694 | 3859 | 98899422 | 98899499 | 844 | 920 | 211 | 237 |
| ENST00000359863 | 12694 | 3859 | 98945747 | 98945800 | 4684 | 4736 | 1491 | 1509 |
| ENST00000359863 | 12694 | 3859 | 98956399 | 98956533 | 6286 | 6419 | 2025 | 2070 |
| ENST00000359863 | 12694 | 3859 | 98957981 | 98958091 | 6421 | 6530 | 2070 | 2107 |
| ENST00000359863 | 12694 | 3859 | 98964629 | 98964775 | 7019 | 7164 | 2270 | 2318 |
| ENST00000359863 | 12694 | 3859 | 98970112 | 98970291 | 7702 | 7880 | 2497 | 2557 |
| 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 |
| ENST00000359863 | 12694 | 3859 | 98890335 | 98890445 | 361 | 470 | 50 | 87 |
| ENST00000359863 | 12694 | 3859 | 98945747 | 98945800 | 4684 | 4736 | 1491 | 1509 |
| 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 |
| ENST00000359863 | 12694 | 3859 | 98890335 | 98890445 | 361 | 470 | 50 | 87 |
| ENST00000359863 | 12694 | 3859 | 98895764 | 98895820 | 661 | 716 | 150 | 169 |
| ENST00000359863 | 12694 | 3859 | 98945747 | 98945800 | 4684 | 4736 | 1491 | 1509 |
| ENST00000359863 | 12694 | 3859 | 98957981 | 98958091 | 6421 | 6530 | 2070 | 2107 |
| ENST00000359863 | 12694 | 3859 | 98970112 | 98970291 | 7702 | 7880 | 2497 | 2557 |
| ENST00000359863 | 12694 | 3859 | 98981769 | 98981960 | 8824 | 9014 | 2871 | 2935 |
| 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 |
| Q9Y4A5 | 50 | 87 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 211 | 237 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 1491 | 1509 | 1492 | 1509 | Alternative sequence | ID=VSP_009102;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:9708738;Dbxref=PMID:9708738 |
| Q9Y4A5 | 1491 | 1509 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 2025 | 2070 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 2025 | 2070 | 2051 | 2051 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:18691976,ECO:0000244|PubMed:23186163;Dbxref=PMID:18669648,PMID:18691976,PMID:23186163 |
| Q9Y4A5 | 2025 | 2070 | 2047 | 2062 | Motif | Note=Bipartite nuclear localization signal;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q9Y4A5 | 2025 | 2070 | 2010 | 2388 | Region | Note=Interaction with TP53;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:12138177;Dbxref=PMID:12138177 |
| Q9Y4A5 | 2070 | 2107 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 2070 | 2107 | 2077 | 2077 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:23186163;Dbxref=PMID:18669648,PMID:23186163 |
| Q9Y4A5 | 2070 | 2107 | 2010 | 2388 | Region | Note=Interaction with TP53;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:12138177;Dbxref=PMID:12138177 |
| Q9Y4A5 | 2270 | 2318 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 2270 | 2318 | 2302 | 2302 | Natural variant | ID=VAR_041666;Note=In a colorectal adenocarcinoma sample%3B somatic mutation. R->W;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:17344846;Dbxref=dbSNP:rs528967912,PMID:17344846 |
| Q9Y4A5 | 2270 | 2318 | 2010 | 2388 | Region | Note=Interaction with TP53;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:12138177;Dbxref=PMID:12138177 |
| Q9Y4A5 | 2497 | 2557 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 2497 | 2557 | 2543 | 2543 | Cross-link | Note=Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2);Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:28112733;Dbxref=PMID:28112733 |
| 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 |
| Q9Y4A5 | 50 | 87 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 1491 | 1509 | 1492 | 1509 | Alternative sequence | ID=VSP_009102;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:9708738;Dbxref=PMID:9708738 |
| Q9Y4A5 | 1491 | 1509 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| 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 |
| Q9Y4A5 | 50 | 87 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 150 | 169 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 1491 | 1509 | 1492 | 1509 | Alternative sequence | ID=VSP_009102;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:9708738;Dbxref=PMID:9708738 |
| Q9Y4A5 | 1491 | 1509 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 2070 | 2107 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 2070 | 2107 | 2077 | 2077 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:23186163;Dbxref=PMID:18669648,PMID:23186163 |
| Q9Y4A5 | 2070 | 2107 | 2010 | 2388 | Region | Note=Interaction with TP53;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:12138177;Dbxref=PMID:12138177 |
| Q9Y4A5 | 2497 | 2557 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 2497 | 2557 | 2543 | 2543 | Cross-link | Note=Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2);Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:28112733;Dbxref=PMID:28112733 |
| Q9Y4A5 | 2871 | 2935 | 2 | 3859 | Chain | ID=PRO_0000088851;Note=Transformation/transcription domain-associated protein |
| Q9Y4A5 | 2871 | 2935 | 2704 | 3275 | Domain | Note=FAT;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00534 |
| Q9Y4A5 | 2871 | 2935 | 2931 | 2931 | Natural variant | ID=VAR_041671;Note=In a colorectal adenocarcinoma sample%3B somatic mutation. T->M;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:17344846;Dbxref=PMID:17344846 |
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3'-UTR located exon skipping events that lost miRNA binding sites in TRRAP |
| 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 TRRAP |
| - 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 TRRAP |
| 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 TRRAP |
| sQTL information located at the skipped exons. |
| Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
| TC | exon_skip_252092 | rs6465724 | chr7:98838872 | 1.661787e-05 | 3.745949e-03 |
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Correlation with RNA binding proteins (RBPs) for TRRAP |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| CB | CNOT4 | exon_skip_106434 | -5.466478e-01 | 1.556510e-13 |
| CB | PCBP1 | exon_skip_106434 | -4.666828e-01 | 8.217585e-10 |
| CB | PCBP4 | exon_skip_106434 | 5.235588e-01 | 2.335070e-12 |
| CB | TRA2A | exon_skip_106434 | -5.423453e-01 | 2.619132e-13 |
| CB | RBM6 | exon_skip_232611 | -4.320261e-01 | 1.970529e-06 |
| CB | PCBP4 | exon_skip_232611 | 4.669825e-01 | 2.099701e-07 |
| CB | TRA2A | exon_skip_232611 | -4.511876e-01 | 5.956100e-07 |
| CB | SNRPA | exon_skip_232611 | -4.244347e-01 | 3.103334e-06 |
| CB | NUP42 | exon_skip_232611 | 4.208812e-01 | 3.824085e-06 |
| CB | ZC3H10 | exon_skip_232611 | 4.147828e-01 | 5.442525e-06 |
| PCC | ILF2 | exon_skip_159414 | 4.266721e-01 | 1.395058e-09 |
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RelatedDrugs for TRRAP |
| 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 TRRAP |
| 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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