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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 TARBP1 |
 Gene summary |
| Gene information | Gene symbol | TARBP1 | Gene ID | 6894 |
| Gene name | TAR (HIV-1) RNA binding protein 1 | |
| Synonyms | TRM3|TRMT3|TRP-185|TRP185 | |
| Cytomap | 1q42.2 | |
| Type of gene | protein-coding | |
| Description | probable methyltransferase TARBP1TAR (HIV) RNA-binding protein 1TAR RNA loop binding proteinTAR RNA-binding protein 1TAR RNA-binding protein of 185 kDatRNA methyltransferase 3 homolog | |
| Modification date | 20200313 | |
| UniProtAcc | Q13395, | |
| 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 TARBP1 |
| 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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ENSG00000059588
| 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 |
| CB | DOWN | ENST00000462259.5 | TARBP1-202:lncRNA:TARBP1 | 1.027071e+03 | -9.157411e-01 | 3.563851e-12 | 4.269179e-10 |
| CB | DOWN | ENST00000496673.5 | TARBP1-209:lncRNA:TARBP1 | 4.384664e+01 | -1.951991e+00 | 1.776919e-08 | 4.921090e-07 |
| TC | DOWN | ENST00000496673.5 | TARBP1-209:lncRNA:TARBP1 | 3.441479e+01 | -1.125803e+00 | 8.796364e-04 | 8.948326e-03 |
| 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 TARBP1 |
| 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_10048 | chr1 | 234401181:234401262:234405312:234405480:234405903:234405993 | 234405312:234405480 |
| exon_skip_101870 | chr1 | 234400251:234400323:234400853:234400948:234401181:234401216 | 234400853:234400948 |
| exon_skip_145492 | chr1 | 234410445:234410531:234418084:234418233:234420702:234420812 | 234418084:234418233 |
| exon_skip_152582 | chr1 | 234393646:234393837:234398382:234398553:234401181:234401216 | 234398382:234398553 |
| exon_skip_157005 | chr1 | 234392416:234392552:234393362:234393476:234393646:234393837 | 234393362:234393476 |
| exon_skip_168165 | chr1 | 234391598:234391745:234392416:234392552:234393362:234393476 | 234392416:234392552 |
| exon_skip_176214 | chr1 | 234392416:234392552:234393362:234393486:234393646:234393837 | 234393362:234393486 |
| exon_skip_187600 | chr1 | 234433410:234433571:234437275:234437372:234446803:234446965 | 234437275:234437372 |
| exon_skip_194303 | chr1 | 234405903:234406099:234410445:234410531:234418084:234418233 | 234410445:234410531 |
| exon_skip_197402 | chr1 | 234398406:234398553:234400853:234400948:234401181:234401216 | 234400853:234400948 |
| exon_skip_20529 | chr1 | 234446803:234446975:234448480:234448579:234450428:234450566 | 234448480:234448579 |
| exon_skip_214624 | chr1 | 234463837:234463934:234465656:234465708:234467502:234467650 | 234465656:234465708 |
| exon_skip_216600 | chr1 | 234425673:234425793:234427317:234427388:234427576:234427766 | 234427317:234427388 |
| exon_skip_233229 | chr1 | 234398382:234398553:234400853:234400948:234401181:234401216 | 234400853:234400948 |
| exon_skip_246152 | chr1 | 234450428:234450566:234457667:234457756:234459230:234459326 | 234457667:234457756 |
| exon_skip_251318 | chr1 | 234430087:234430301:234433410:234433571:234437275:234437372 | 234433410:234433571 |
| exon_skip_266410 | chr1 | 234460261:234460396:234463837:234463934:234465656:234465708 | 234463837:234463934 |
| exon_skip_28055 | chr1 | 234401181:234401262:234405903:234406099:234410445:234410531 | 234405903:234406099 |
| exon_skip_291135 | chr1 | 234393646:234393837:234398382:234398553:234400853:234400902 | 234398382:234398553 |
| exon_skip_32156 | chr1 | 234433410:234433571:234437275:234437372:234446803:234446972 | 234437275:234437372 |
| exon_skip_70143 | chr1 | 234393646:234393837:234400853:234400948:234401181:234401216 | 234400853:234400948 |
| exon_skip_8745 | chr1 | 234430245:234430301:234433410:234433571:234437275:234437372 | 234433410:234433571 |
| exon_skip_93071 | chr1 | 234393646:234393837:234398382:234398553:234400853:234400948 | 234398382:234398553 |
| exon_skip_95722 | chr1 | 234457667:234457756:234459230:234459326:234460261:234460396 | 234459230:234459326 |
| exon_skip_98533 | chr1 | 234433410:234433571:234437275:234437372:234446803:234446975 | 234437275:234437372 |
| exon_skip_98936 | chr1 | 234391598:234391745:234392416:234392552:234393646:234393837 | 234392416:234392552 |
| Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control. |
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| Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
| exon_skip_152582 | ROSMAP_DLPFC | 4.937888e-01 | 3.923404e-01 | 1.014484e-01 | 4.299728e-04 |
| exon_skip_195084 | Mayo_CB | 3.386250e-01 | 5.610390e-01 | -2.224140e-01 | 1.172231e-07 |
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Open reading frame (ORF) annotation in the exon skipping event for TARBP1 |
| 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 |
| ENST00000040877 | 234392416 | 234392552 | Frame-shift |
| ENST00000040877 | 234393362 | 234393486 | Frame-shift |
| ENST00000040877 | 234398382 | 234398553 | Frame-shift |
| ENST00000040877 | 234437275 | 234437372 | Frame-shift |
| ENST00000040877 | 234448480 | 234448579 | Frame-shift |
| ENST00000040877 | 234463837 | 234463934 | Frame-shift |
| ENST00000040877 | 234410445 | 234410531 | In-frame |
| ENST00000040877 | 234427317 | 234427388 | In-frame |
| ENST00000040877 | 234433410 | 234433571 | In-frame |
| ENST00000040877 | 234457667 | 234457756 | 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 |
| ENST00000040877 | 234393362 | 234393486 | Frame-shift |
| ENST00000040877 | 234398382 | 234398553 | Frame-shift |
| ENST00000040877 | 234437275 | 234437372 | Frame-shift |
| ENST00000040877 | 234448480 | 234448579 | Frame-shift |
| ENST00000040877 | 234463837 | 234463934 | Frame-shift |
| ENST00000040877 | 234465656 | 234465708 | Frame-shift |
| ENST00000040877 | 234427317 | 234427388 | In-frame |
| ENST00000040877 | 234433410 | 234433571 | In-frame |
| ENST00000040877 | 234457667 | 234457756 | 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 |
| ENST00000040877 | 234392416 | 234392552 | Frame-shift |
| ENST00000040877 | 234393362 | 234393486 | Frame-shift |
| ENST00000040877 | 234398382 | 234398553 | Frame-shift |
| ENST00000040877 | 234405903 | 234406099 | Frame-shift |
| ENST00000040877 | 234437275 | 234437372 | Frame-shift |
| ENST00000040877 | 234448480 | 234448579 | Frame-shift |
| ENST00000040877 | 234459230 | 234459326 | Frame-shift |
| ENST00000040877 | 234463837 | 234463934 | Frame-shift |
| ENST00000040877 | 234465656 | 234465708 | Frame-shift |
| ENST00000040877 | 234410445 | 234410531 | In-frame |
| ENST00000040877 | 234418084 | 234418233 | In-frame |
| ENST00000040877 | 234427317 | 234427388 | In-frame |
| ENST00000040877 | 234433410 | 234433571 | In-frame |
| ENST00000040877 | 234457667 | 234457756 | In-frame |
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Infer the effects of exon skipping event on protein functional features for TARBP1 |
p-ENSG00000059588_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 |
| ENST00000040877 | 5147 | 1621 | 234457667 | 234457756 | 1633 | 1721 | 544 | 573 |
| ENST00000040877 | 5147 | 1621 | 234433410 | 234433571 | 2233 | 2393 | 744 | 797 |
| ENST00000040877 | 5147 | 1621 | 234427317 | 234427388 | 3252 | 3322 | 1084 | 1107 |
| ENST00000040877 | 5147 | 1621 | 234410445 | 234410531 | 3706 | 3791 | 1235 | 1263 |
| 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 |
| ENST00000040877 | 5147 | 1621 | 234457667 | 234457756 | 1633 | 1721 | 544 | 573 |
| ENST00000040877 | 5147 | 1621 | 234433410 | 234433571 | 2233 | 2393 | 744 | 797 |
| ENST00000040877 | 5147 | 1621 | 234427317 | 234427388 | 3252 | 3322 | 1084 | 1107 |
| 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 |
| ENST00000040877 | 5147 | 1621 | 234457667 | 234457756 | 1633 | 1721 | 544 | 573 |
| ENST00000040877 | 5147 | 1621 | 234433410 | 234433571 | 2233 | 2393 | 744 | 797 |
| ENST00000040877 | 5147 | 1621 | 234427317 | 234427388 | 3252 | 3322 | 1084 | 1107 |
| ENST00000040877 | 5147 | 1621 | 234418084 | 234418233 | 3556 | 3704 | 1185 | 1234 |
| ENST00000040877 | 5147 | 1621 | 234410445 | 234410531 | 3706 | 3791 | 1235 | 1263 |
| 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 |
| Q13395 | 544 | 573 | 1 | 1621 | Chain | ID=PRO_0000273201;Note=Probable methyltransferase TARBP1 |
| Q13395 | 744 | 797 | 1 | 1621 | Chain | ID=PRO_0000273201;Note=Probable methyltransferase TARBP1 |
| Q13395 | 1084 | 1107 | 1 | 1621 | Chain | ID=PRO_0000273201;Note=Probable methyltransferase TARBP1 |
| Q13395 | 1235 | 1263 | 1 | 1621 | Chain | ID=PRO_0000273201;Note=Probable methyltransferase TARBP1 |
| 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 |
| Q13395 | 544 | 573 | 1 | 1621 | Chain | ID=PRO_0000273201;Note=Probable methyltransferase TARBP1 |
| Q13395 | 744 | 797 | 1 | 1621 | Chain | ID=PRO_0000273201;Note=Probable methyltransferase TARBP1 |
| Q13395 | 1084 | 1107 | 1 | 1621 | Chain | ID=PRO_0000273201;Note=Probable methyltransferase TARBP1 |
| 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 |
| Q13395 | 544 | 573 | 1 | 1621 | Chain | ID=PRO_0000273201;Note=Probable methyltransferase TARBP1 |
| Q13395 | 744 | 797 | 1 | 1621 | Chain | ID=PRO_0000273201;Note=Probable methyltransferase TARBP1 |
| Q13395 | 1084 | 1107 | 1 | 1621 | Chain | ID=PRO_0000273201;Note=Probable methyltransferase TARBP1 |
| Q13395 | 1185 | 1234 | 1 | 1621 | Chain | ID=PRO_0000273201;Note=Probable methyltransferase TARBP1 |
| Q13395 | 1235 | 1263 | 1 | 1621 | Chain | ID=PRO_0000273201;Note=Probable methyltransferase TARBP1 |
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3'-UTR located exon skipping events that lost miRNA binding sites in TARBP1 |
| 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 TARBP1 |
| - 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 TARBP1 |
| 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_266410 | 4.639892e-01 | 1.287833e-02 | chr1 | - | 234460261 | 234460396 | 234463837 | 234463934 | 234465656 | 234465708 |
| CDR | MSBB | IFG | exon_skip_266410 | 4.413697e-01 | 1.871247e-02 | chr1 | - | 234460261 | 234460396 | 234463837 | 234463934 | 234465656 | 234465708 |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for TARBP1 |
| 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 TARBP1 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| CB | NUP42 | exon_skip_195084 | 4.859981e-01 | 1.101766e-10 |
| CB | PTBP1 | exon_skip_195084 | -5.149661e-01 | 5.193972e-12 |
| CB | RBM3 | exon_skip_197402 | 4.087968e-01 | 8.811079e-08 |
| CB | NUP42 | exon_skip_197402 | 4.156345e-01 | 5.090545e-08 |
| CB | TRA2A | exon_skip_216600 | -4.346354e-01 | 2.206957e-08 |
| CB | FUBP1 | exon_skip_216600 | -4.596630e-01 | 2.567112e-09 |
| CB | RBM45 | exon_skip_216600 | 4.796612e-01 | 4.043743e-10 |
| DLPFC | DAZAP1 | exon_skip_152582 | -5.001518e-01 | 1.513605e-17 |
| DLPFC | RBM3 | exon_skip_152582 | -5.057982e-01 | 5.721931e-18 |
| DLPFC | UNK | exon_skip_152582 | -4.069959e-01 | 1.358337e-11 |
| DLPFC | KHDRBS2 | exon_skip_152582 | -4.977959e-01 | 2.259359e-17 |
| DLPFC | KHDRBS3 | exon_skip_152582 | -4.023509e-01 | 2.425271e-11 |
| DLPFC | PUF60 | exon_skip_152582 | -4.590820e-01 | 1.069325e-14 |
| DLPFC | HNRNPD | exon_skip_152582 | -4.428431e-01 | 1.133307e-13 |
| DLPFC | RBM42 | exon_skip_152582 | -4.869177e-01 | 1.380816e-16 |
| DLPFC | NOVA1 | exon_skip_152582 | -5.022085e-01 | 1.064228e-17 |
| HCC | KHDRBS2 | exon_skip_266410 | -4.274397e-01 | 2.944003e-12 |
| HCC | RALYL | exon_skip_266410 | -4.094714e-01 | 2.785429e-11 |
| IFG | RBM6 | exon_skip_251318 | -4.505748e-01 | 1.834494e-02 |
| IFG | TIA1 | exon_skip_251318 | -4.098379e-01 | 3.374683e-02 |
| IFG | KHDRBS2 | exon_skip_251318 | -4.672399e-01 | 1.399992e-02 |
| IFG | KHDRBS3 | exon_skip_251318 | -4.049001e-01 | 3.616704e-02 |
| IFG | RALYL | exon_skip_251318 | -4.200221e-01 | 2.916526e-02 |
| IFG | SRSF9 | exon_skip_251318 | -4.842071e-01 | 1.048855e-02 |
| IFG | NOVA1 | exon_skip_251318 | -4.429271e-01 | 2.068025e-02 |
| IFG | TRA2A | exon_skip_20529 | 4.141845e-01 | 4.943075e-02 |
| IFG | PABPC1 | exon_skip_20529 | 4.210956e-01 | 4.538799e-02 |
| IFG | RBMS3 | exon_skip_266410 | 4.486501e-01 | 1.663560e-02 |
| IFG | MSI1 | exon_skip_266410 | 5.205053e-01 | 4.517377e-03 |
| IFG | TIA1 | exon_skip_266410 | 4.093783e-01 | 3.051954e-02 |
| IFG | KHDRBS3 | exon_skip_266410 | -4.373466e-01 | 1.994871e-02 |
| STG | HNRNPA0 | exon_skip_266410 | -4.815626e-01 | 9.255091e-06 |
| TC | RBMS2 | exon_skip_291135 | 4.180312e-01 | 8.250503e-07 |
| TC | KHDRBS2 | exon_skip_291135 | -4.079246e-01 | 1.598967e-06 |
| TC | RBMS2 | exon_skip_152582 | 4.781811e-01 | 2.096816e-10 |
| TC | MSI1 | exon_skip_152582 | 4.676523e-01 | 5.824785e-10 |
| TC | RBM3 | exon_skip_152582 | -4.348574e-01 | 1.134115e-08 |
| TC | KHDRBS2 | exon_skip_152582 | -5.563517e-01 | 3.212411e-14 |
| TC | RALYL | exon_skip_152582 | -5.881771e-01 | 4.442774e-16 |
| TC | PTBP1 | exon_skip_152582 | 5.223768e-01 | 1.927719e-12 |
| TC | NOVA1 | exon_skip_152582 | -5.729238e-01 | 3.662217e-15 |
| TC | NUP42 | exon_skip_170125 | 4.851206e-01 | 1.583452e-10 |
| TC | RALYL | exon_skip_170125 | 6.006632e-01 | 1.434927e-16 |
| TC | PTBP1 | exon_skip_170125 | -4.943044e-01 | 6.291100e-11 |
| TC | RBM3 | exon_skip_233229 | 4.038147e-01 | 1.567640e-07 |
| TC | ELAVL4 | exon_skip_216600 | -4.114509e-01 | 1.689408e-07 |
| TC | KHDRBS2 | exon_skip_216600 | -4.023151e-01 | 3.335352e-07 |
| TC | KHDRBS2 | exon_skip_266410 | -5.760445e-01 | 7.471753e-13 |
| TC | KHDRBS3 | exon_skip_266410 | -5.229341e-01 | 1.742514e-10 |
| TC | RBM24 | exon_skip_266410 | -5.282433e-01 | 1.053620e-10 |
| TC | HNRNPA0 | exon_skip_266410 | -5.056505e-01 | 8.451367e-10 |
| TC | NUP42 | exon_skip_266410 | -4.920097e-01 | 2.765298e-09 |
| TC | RALYL | exon_skip_266410 | -6.412285e-01 | 2.065276e-16 |
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RelatedDrugs for TARBP1 |
| 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 TARBP1 |
| 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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