Isoforom Switch Analysis
WANG Ziyi
Date: 19 5月 2022
ENSG00000075151
1 Isoform Switch
Summary Plot
Only the isoforms with fraction > 5% are shown below.
Notes on IDR and IDR_w_binding: As the prediction of Intrinsically Disordered Regions (IDR) and Intrinsically Disordered Binding Regions (IDBR) are done by two different tools we require two things to annotate the Intrinsically Disordered Binding Regions (IDBR). Firstly the IDBR (predicted by ANCHOR2) must be a region of at least 15 amino acids (after the smoothing). Secondly the fraction of the IDBR which overlaps the IDR predictions (done by IUPred3, again after smoothing) must be at least 80%. When that is the case the IDR type will be annotated as “IDR_w_binding_region” instead of just “IDR”. The current default parameters have not been rigorously tested and should be considered experimental.
For the function of any other domain, please Click HERE to search it through Pfam database.
Results
| isoform_id | gene_id | condition_1 | condition_2 | gene_name | gene_biotype | iso_biotype | gene_overall_mean | gene_value_1 | gene_value_2 | gene_stderr_1 | gene_stderr_2 | gene_log2_fold_change | iso_overall_mean | iso_value_1 | iso_value_2 | iso_stderr_1 | iso_stderr_2 | iso_log2_fold_change | IF_overall | IF1 | IF2 | dIF | isoform_switch_q_value | gene_switch_q_value | PTC | codingPotential |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENST00000264211 | ENSG00000075151 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | EIF4G3 | protein_coding | protein_coding | 37.99174 | 32.09479 | 43.95748 | 2.162531 | 0.4937278 | 0.4536482 | 18.0824462 | 11.658153 | 21.3611570 | 1.1733149 | 0.904843297 | 0.8730889 | 0.46367083 | 0.3620667 | 0.48576667 | 0.12370000 | 6.112115e-03 | 1.356001e-26 | FALSE | TRUE |
| ENST00000400422 | ENSG00000075151 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | EIF4G3 | protein_coding | protein_coding | 37.99174 | 32.09479 | 43.95748 | 2.162531 | 0.4937278 | 0.4536482 | 2.2405261 | 0.000000 | 5.7123096 | 0.0000000 | 1.273919567 | 9.1604537 | 0.05326667 | 0.0000000 | 0.12990000 | 0.12990000 | 9.266936e-17 | 1.356001e-26 | FALSE | TRUE |
| ENST00000435383 | ENSG00000075151 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | EIF4G3 | protein_coding | nonsense_mediated_decay | 37.99174 | 32.09479 | 43.95748 | 2.162531 | 0.4937278 | 0.4536482 | 2.7177992 | 6.575362 | 0.5175415 | 0.9991682 | 0.296687636 | -3.6419061 | 0.08197500 | 0.2055000 | 0.01163333 | -0.19386667 | 5.876727e-05 | 1.356001e-26 | FALSE | TRUE |
| ENST00000634778 | ENSG00000075151 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | EIF4G3 | protein_coding | processed_transcript | 37.99174 | 32.09479 | 43.95748 | 2.162531 | 0.4937278 | 0.4536482 | 4.9245742 | 6.126520 | 3.0672479 | 0.2416395 | 0.006338202 | -0.9957801 | 0.14453333 | 0.1919667 | 0.06976667 | -0.12220000 | 8.736517e-17 | 1.356001e-26 | FALSE | |
| ENST00000681717 | ENSG00000075151 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | EIF4G3 | protein_coding | nonsense_mediated_decay | 37.99174 | 32.09479 | 43.95748 | 2.162531 | 0.4937278 | 0.4536482 | 0.5730896 | 1.870168 | 0.0000000 | 0.5405684 | 0.000000000 | -7.5547180 | 0.01771250 | 0.0598000 | 0.00000000 | -0.05980000 | 1.111379e-09 | 1.356001e-26 | FALSE | TRUE |
| ENST00000693470 | ENSG00000075151 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | EIF4G3 | protein_coding | protein_coding | 37.99174 | 32.09479 | 43.95748 | 2.162531 | 0.4937278 | 0.4536482 | 1.5424842 | 0.000000 | 3.5260606 | 0.0000000 | 0.349167079 | 8.4659992 | 0.03650000 | 0.0000000 | 0.08026667 | 0.08026667 | 1.356001e-26 | 1.356001e-26 | FALSE | TRUE |
- Note:
- The comparisons made can be identified as “from ‘condition_1’ to ‘condition_2’”, meaning ‘condition_1’ is considered the ground state and ‘condition_2’ the changed state. This also means that a positive dIF value indicates that the isoform usage is increased in ‘condition_2’ compared to ‘condition_1’. Since the ‘isoformFeatures’ entry is the most relevant part of the switchAnalyzeRlist object, the most-used standard methods have also been implemented to work directly on isoformFeatures.
2 Differential Exon Usage
Counts
All exons whithin this gene region are shown and numbering below.
Expression
All exons whithin this gene region are shown and numbering below.
Splicing
All exons whithin this gene region are shown and numbering below.
Transcripts
All isoforms whithin this gene region are shown below.
Results
| groupID | featureID | exonBaseMean | dispersion | pvalue | padj | seqnames | start | end | width | strand | HEK293_TMG_2hB | HEK293_OSMI2_2hA | log2fold_HEK293_OSMI2_2hA_HEK293_TMG_2hB |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENSG00000075151 | E001 | 1.9069220 | 0.3235259975 | 4.931631e-02 | 1.079484e-01 | 1 | 20806292 | 20806478 | 187 | - | 0.183 | 0.685 | 2.876 |
| ENSG00000075151 | E002 | 1.6134561 | 0.1437707259 | 6.723543e-03 | 2.050409e-02 | 1 | 20806479 | 20806482 | 4 | - | 0.101 | 0.657 | 3.755 |
| ENSG00000075151 | E003 | 2.1617784 | 0.0420366410 | 2.013716e-03 | 7.268601e-03 | 1 | 20806483 | 20806487 | 5 | - | 0.183 | 0.733 | 3.071 |
| ENSG00000075151 | E004 | 37.1876404 | 0.0049976895 | 2.339656e-12 | 5.405375e-11 | 1 | 20806488 | 20806580 | 93 | - | 1.310 | 1.785 | 1.625 |
| ENSG00000075151 | E005 | 315.9312735 | 0.0045133026 | 4.499870e-26 | 5.402325e-24 | 1 | 20806581 | 20807003 | 423 | - | 2.269 | 2.679 | 1.367 |
| ENSG00000075151 | E006 | 67.2239505 | 0.0069819099 | 3.602822e-27 | 4.723486e-25 | 1 | 20807004 | 20807024 | 21 | - | 1.405 | 2.082 | 2.297 |
| ENSG00000075151 | E007 | 68.8151070 | 0.0116693912 | 2.430102e-19 | 1.442279e-17 | 1 | 20807025 | 20807045 | 21 | - | 1.443 | 2.083 | 2.165 |
| ENSG00000075151 | E008 | 71.9814324 | 0.0111871177 | 1.831449e-17 | 8.678404e-16 | 1 | 20807046 | 20807098 | 53 | - | 1.501 | 2.090 | 1.991 |
| ENSG00000075151 | E009 | 73.5495092 | 0.0059190026 | 6.676262e-15 | 2.261394e-13 | 1 | 20807099 | 20807103 | 5 | - | 1.615 | 2.059 | 1.499 |
| ENSG00000075151 | E010 | 86.6930870 | 0.0049843985 | 4.617226e-15 | 1.597661e-13 | 1 | 20807104 | 20807114 | 11 | - | 1.709 | 2.119 | 1.379 |
| ENSG00000075151 | E011 | 103.6630787 | 0.0054409925 | 2.023693e-11 | 4.006926e-10 | 1 | 20807115 | 20807125 | 11 | - | 1.831 | 2.172 | 1.145 |
| ENSG00000075151 | E012 | 111.0319921 | 0.0026179961 | 1.967013e-11 | 3.903265e-10 | 1 | 20807126 | 20807151 | 26 | - | 1.898 | 2.180 | 0.946 |
| ENSG00000075151 | E013 | 245.1908838 | 0.0002497234 | 5.361671e-33 | 1.121140e-30 | 1 | 20807152 | 20807318 | 167 | - | 2.235 | 2.520 | 0.951 |
| ENSG00000075151 | E014 | 354.5340051 | 0.0015371566 | 8.896358e-18 | 4.405093e-16 | 1 | 20807319 | 20807500 | 182 | - | 2.428 | 2.659 | 0.769 |
| ENSG00000075151 | E015 | 326.0187489 | 0.0044019421 | 5.240541e-06 | 3.711559e-05 | 1 | 20810738 | 20810884 | 147 | - | 2.424 | 2.599 | 0.583 |
| ENSG00000075151 | E016 | 266.4171202 | 0.0002310457 | 2.242133e-17 | 1.043906e-15 | 1 | 20813158 | 20813239 | 82 | - | 2.325 | 2.519 | 0.644 |
| ENSG00000075151 | E017 | 144.3339183 | 0.0002137166 | 6.598726e-10 | 1.012644e-08 | 1 | 20817392 | 20817397 | 6 | - | 2.063 | 2.250 | 0.624 |
| ENSG00000075151 | E018 | 316.8207036 | 0.0001622873 | 1.225120e-13 | 3.438960e-12 | 1 | 20817398 | 20817535 | 138 | - | 2.421 | 2.575 | 0.512 |
| ENSG00000075151 | E019 | 133.4008892 | 0.0003468564 | 6.525820e-06 | 4.525742e-05 | 1 | 20817536 | 20817538 | 3 | - | 2.052 | 2.196 | 0.482 |
| ENSG00000075151 | E020 | 335.0602378 | 0.0001873313 | 1.424433e-05 | 9.129663e-05 | 1 | 20825100 | 20825198 | 99 | - | 2.479 | 2.568 | 0.297 |
| ENSG00000075151 | E021 | 262.3501921 | 0.0010693548 | 4.453366e-02 | 9.933908e-02 | 1 | 20827617 | 20827698 | 82 | - | 2.388 | 2.444 | 0.189 |
| ENSG00000075151 | E022 | 296.7406247 | 0.0004759830 | 1.180695e-04 | 6.049961e-04 | 1 | 20829147 | 20829272 | 126 | - | 2.424 | 2.514 | 0.301 |
| ENSG00000075151 | E023 | 330.9485559 | 0.0003212015 | 7.093956e-04 | 2.932741e-03 | 1 | 20840856 | 20841028 | 173 | - | 2.481 | 2.554 | 0.243 |
| ENSG00000075151 | E024 | 2.4558901 | 0.1328072165 | 4.261345e-01 | 5.689852e-01 | 1 | 20847806 | 20847943 | 138 | - | 0.591 | 0.422 | -0.818 |
| ENSG00000075151 | E025 | 279.6999807 | 0.0001585661 | 1.164007e-01 | 2.148228e-01 | 1 | 20849415 | 20849530 | 116 | - | 2.426 | 2.462 | 0.119 |
| ENSG00000075151 | E026 | 420.5126992 | 0.0001380312 | 8.870736e-01 | 9.318080e-01 | 1 | 20851258 | 20851478 | 221 | - | 2.617 | 2.621 | 0.014 |
| ENSG00000075151 | E027 | 250.9139532 | 0.0001963719 | 2.576588e-01 | 3.948219e-01 | 1 | 20853560 | 20853677 | 118 | - | 2.406 | 2.382 | -0.083 |
| ENSG00000075151 | E028 | 204.6007298 | 0.0028077368 | 4.003418e-01 | 5.440363e-01 | 1 | 20854978 | 20855071 | 94 | - | 2.321 | 2.294 | -0.093 |
| ENSG00000075151 | E029 | 211.0994091 | 0.0021331030 | 9.495450e-01 | 9.724069e-01 | 1 | 20857403 | 20857497 | 95 | - | 2.322 | 2.322 | 0.000 |
| ENSG00000075151 | E030 | 287.7507513 | 0.0021810174 | 7.689405e-01 | 8.506877e-01 | 1 | 20860385 | 20860517 | 133 | - | 2.458 | 2.452 | -0.019 |
| ENSG00000075151 | E031 | 256.7435421 | 0.0006821328 | 4.426410e-03 | 1.433502e-02 | 1 | 20862228 | 20862332 | 105 | - | 2.434 | 2.364 | -0.235 |
| ENSG00000075151 | E032 | 325.1849244 | 0.0002237636 | 3.667207e-04 | 1.645449e-03 | 1 | 20864476 | 20864712 | 237 | - | 2.538 | 2.466 | -0.243 |
| ENSG00000075151 | E033 | 263.4373968 | 0.0002060012 | 2.822412e-12 | 6.434544e-11 | 1 | 20865116 | 20865262 | 147 | - | 2.482 | 2.321 | -0.537 |
| ENSG00000075151 | E034 | 293.1744061 | 0.0024665536 | 1.423640e-06 | 1.143833e-05 | 1 | 20879323 | 20879520 | 198 | - | 2.525 | 2.374 | -0.505 |
| ENSG00000075151 | E035 | 299.3452236 | 0.0028032915 | 2.085343e-06 | 1.616060e-05 | 1 | 20886201 | 20886371 | 171 | - | 2.534 | 2.380 | -0.512 |
| ENSG00000075151 | E036 | 66.3384767 | 0.0003778795 | 1.426899e-04 | 7.151178e-04 | 1 | 20892619 | 20892729 | 111 | - | 1.892 | 1.721 | -0.575 |
| ENSG00000075151 | E037 | 0.4449813 | 0.0216606823 | 8.360143e-01 | 8.974596e-01 | 1 | 20893111 | 20893516 | 406 | - | 0.183 | 0.147 | -0.382 |
| ENSG00000075151 | E038 | 261.3067179 | 0.0040945327 | 8.457312e-06 | 5.713209e-05 | 1 | 20893517 | 20893636 | 120 | - | 2.480 | 2.313 | -0.557 |
| ENSG00000075151 | E039 | 250.4875689 | 0.0050685389 | 1.167706e-03 | 4.531299e-03 | 1 | 20895368 | 20895501 | 134 | - | 2.449 | 2.319 | -0.434 |
| ENSG00000075151 | E040 | 346.8540715 | 0.0001619674 | 1.060028e-14 | 3.472577e-13 | 1 | 20899697 | 20899943 | 247 | - | 2.598 | 2.443 | -0.516 |
| ENSG00000075151 | E041 | 231.7174787 | 0.0007856314 | 2.216274e-12 | 5.141642e-11 | 1 | 20904883 | 20904971 | 89 | - | 2.435 | 2.243 | -0.641 |
| ENSG00000075151 | E042 | 0.3268771 | 0.0297806301 | 7.562613e-01 | 1 | 20929370 | 20929592 | 223 | - | 0.101 | 0.147 | 0.621 | |
| ENSG00000075151 | E043 | 0.0000000 | 1 | 20941242 | 20941246 | 5 | - | ||||||
| ENSG00000075151 | E044 | 0.2214452 | 0.0386526435 | 3.238717e-01 | 1 | 20941247 | 20941258 | 12 | - | 0.000 | 0.148 | 11.816 | |
| ENSG00000075151 | E045 | 6.3163043 | 0.0586993108 | 1.225660e-01 | 2.236110e-01 | 1 | 20941259 | 20941395 | 137 | - | 0.961 | 0.700 | -1.021 |
| ENSG00000075151 | E046 | 0.2998086 | 0.0300159719 | 7.574495e-01 | 1 | 20941396 | 20941490 | 95 | - | 0.101 | 0.147 | 0.617 | |
| ENSG00000075151 | E047 | 683.4346777 | 0.0053129464 | 4.743333e-09 | 6.218325e-08 | 1 | 20941491 | 20942330 | 840 | - | 2.911 | 2.703 | -0.694 |
| ENSG00000075151 | E048 | 83.0487863 | 0.0052130591 | 2.312175e-06 | 1.774210e-05 | 1 | 20950003 | 20950005 | 3 | - | 2.013 | 1.761 | -0.849 |
| ENSG00000075151 | E049 | 155.6995571 | 0.0011102449 | 2.556186e-13 | 6.860204e-12 | 1 | 20950006 | 20950108 | 103 | - | 2.282 | 2.035 | -0.824 |
| ENSG00000075151 | E050 | 35.0495174 | 0.0006112494 | 8.688847e-09 | 1.083230e-07 | 1 | 20950109 | 20950111 | 3 | - | 1.679 | 1.309 | -1.271 |
| ENSG00000075151 | E051 | 167.4697839 | 0.0018320073 | 4.798047e-13 | 1.239062e-11 | 1 | 20969474 | 20969596 | 123 | - | 2.317 | 2.061 | -0.857 |
| ENSG00000075151 | E052 | 116.1473935 | 0.0007417364 | 6.667875e-16 | 2.579557e-14 | 1 | 20973002 | 20973046 | 45 | - | 2.172 | 1.872 | -1.006 |
| ENSG00000075151 | E053 | 141.1851231 | 0.0002704358 | 7.577163e-21 | 5.378310e-19 | 1 | 20973047 | 20973099 | 53 | - | 2.257 | 1.953 | -1.016 |
| ENSG00000075151 | E054 | 152.5965208 | 0.0002473981 | 6.758663e-25 | 7.337584e-23 | 1 | 20980334 | 20980448 | 115 | - | 2.295 | 1.972 | -1.081 |
| ENSG00000075151 | E055 | 182.2006687 | 0.0003967505 | 2.668856e-22 | 2.198290e-20 | 1 | 20981048 | 20981227 | 180 | - | 2.361 | 2.078 | -0.946 |
| ENSG00000075151 | E056 | 0.0000000 | 1 | 20982388 | 20982408 | 21 | - | ||||||
| ENSG00000075151 | E057 | 0.0000000 | 1 | 20982409 | 20982445 | 37 | - | ||||||
| ENSG00000075151 | E058 | 1.6252878 | 0.0083342988 | 9.746656e-01 | 9.882131e-01 | 1 | 20997601 | 20997633 | 33 | - | 0.411 | 0.417 | 0.035 |
| ENSG00000075151 | E059 | 16.5675198 | 0.0052557368 | 4.295607e-05 | 2.458357e-04 | 1 | 21001199 | 21001307 | 109 | - | 1.372 | 0.977 | -1.412 |
| ENSG00000075151 | E060 | 8.9627714 | 0.0018453283 | 6.424532e-03 | 1.972623e-02 | 1 | 21001308 | 21001312 | 5 | - | 1.108 | 0.795 | -1.172 |
| ENSG00000075151 | E061 | 2.8366927 | 0.0113051278 | 2.856956e-02 | 6.914883e-02 | 1 | 21001313 | 21001324 | 12 | - | 0.716 | 0.344 | -1.797 |
| ENSG00000075151 | E062 | 125.3102302 | 0.0002958153 | 3.183785e-15 | 1.127610e-13 | 1 | 21002713 | 21002787 | 75 | - | 2.195 | 1.927 | -0.898 |
| ENSG00000075151 | E063 | 83.5146430 | 0.0003352411 | 4.349353e-14 | 1.301693e-12 | 1 | 21002788 | 21002808 | 21 | - | 2.034 | 1.718 | -1.064 |
| ENSG00000075151 | E064 | 145.3456961 | 0.0002369439 | 3.675583e-19 | 2.130095e-17 | 1 | 21050866 | 21050994 | 129 | - | 2.263 | 1.980 | -0.948 |
| ENSG00000075151 | E065 | 0.3729606 | 0.0304219178 | 7.557815e-01 | 8.410217e-01 | 1 | 21064531 | 21064645 | 115 | - | 0.101 | 0.147 | 0.623 |
| ENSG00000075151 | E066 | 0.1817044 | 0.0397245359 | 3.246677e-01 | 1 | 21064760 | 21064991 | 232 | - | 0.000 | 0.147 | 11.813 | |
| ENSG00000075151 | E067 | 98.8375342 | 0.0006489962 | 1.679863e-15 | 6.166343e-14 | 1 | 21089138 | 21089213 | 76 | - | 2.106 | 1.789 | -1.063 |
| ENSG00000075151 | E068 | 8.5773524 | 0.1441537463 | 4.964754e-02 | 1.085367e-01 | 1 | 21111323 | 21111383 | 61 | - | 1.098 | 0.744 | -1.345 |
| ENSG00000075151 | E069 | 3.3015579 | 0.0774656858 | 1.364160e-03 | 5.190001e-03 | 1 | 21111384 | 21113129 | 1746 | - | 0.813 | 0.148 | -3.760 |
| ENSG00000075151 | E070 | 0.1482932 | 0.0422978599 | 3.253559e-01 | 1 | 21167961 | 21168039 | 79 | - | 0.000 | 0.147 | 11.809 | |
| ENSG00000075151 | E071 | 0.0000000 | 1 | 21169664 | 21169721 | 58 | - | ||||||
| ENSG00000075151 | E072 | 0.1472490 | 0.0432910714 | 7.157073e-01 | 1 | 21174710 | 21174737 | 28 | - | 0.101 | 0.000 | -10.848 | |
| ENSG00000075151 | E073 | 192.7094546 | 0.0013470367 | 1.390624e-68 | 1.980824e-65 | 1 | 21175114 | 21176174 | 1061 | - | 1.945 | 2.511 | 1.891 |
| ENSG00000075151 | E074 | 123.4953048 | 0.0062105316 | 9.246916e-03 | 2.690235e-02 | 1 | 21176175 | 21176358 | 184 | - | 2.144 | 2.014 | -0.434 |
| ENSG00000075151 | E075 | 7.5253257 | 0.0094098021 | 2.663849e-01 | 4.045648e-01 | 1 | 21176359 | 21176377 | 19 | - | 0.985 | 0.848 | -0.519 |
| ENSG00000075151 | E076 | 32.2647810 | 0.0120125403 | 2.538321e-01 | 3.904429e-01 | 1 | 21176378 | 21176721 | 344 | - | 1.555 | 1.467 | -0.304 |
| ENSG00000075151 | E077 | 96.0329169 | 0.0045259722 | 1.794426e-02 | 4.701656e-02 | 1 | 21176722 | 21177285 | 564 | - | 2.030 | 1.915 | -0.383 |