Isoforom Switch Analysis
WANG Ziyi
Date: 19 5月 2022
ENSG00000125844
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENST00000246043 | ENSG00000125844 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | RRBP1 | protein_coding | protein_coding | 51.41607 | 62.34398 | 46.25737 | 2.91174 | 1.10692 | -0.4304864 | 17.7688450 | 20.89861903 | 15.905485 | 1.36391843 | 1.2806573 | -0.3936667 | 0.35290833 | 0.337166667 | 0.34390000 | 0.006733333 | 9.761214e-01 | 1.267081e-18 | FALSE | TRUE |
| ENST00000377813 | ENSG00000125844 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | RRBP1 | protein_coding | protein_coding | 51.41607 | 62.34398 | 46.25737 | 2.91174 | 1.10692 | -0.4304864 | 0.9395801 | 0.00000000 | 3.275636 | 0.00000000 | 2.1691390 | 8.3600290 | 0.01910417 | 0.000000000 | 0.06890000 | 0.068900000 | 1.659444e-01 | 1.267081e-18 | FALSE | TRUE |
| ENST00000398782 | ENSG00000125844 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | RRBP1 | protein_coding | protein_coding | 51.41607 | 62.34398 | 46.25737 | 2.91174 | 1.10692 | -0.4304864 | 0.7283530 | 0.00000000 | 4.015411 | 0.00000000 | 0.9095012 | 8.6529924 | 0.01576667 | 0.000000000 | 0.08703333 | 0.087033333 | 1.267081e-18 | 1.267081e-18 | FALSE | TRUE |
| MSTRG.20406.16 | ENSG00000125844 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | RRBP1 | protein_coding | 51.41607 | 62.34398 | 46.25737 | 2.91174 | 1.10692 | -0.4304864 | 2.5203447 | 0.18986206 | 3.294129 | 0.18986206 | 0.5730803 | 4.0471937 | 0.05470833 | 0.002966667 | 0.07100000 | 0.068033333 | 8.165018e-03 | 1.267081e-18 | FALSE | TRUE | |
| MSTRG.20406.17 | ENSG00000125844 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | RRBP1 | protein_coding | 51.41607 | 62.34398 | 46.25737 | 2.91174 | 1.10692 | -0.4304864 | 2.7535794 | 2.03498288 | 4.008854 | 0.91218921 | 0.1410150 | 0.9746955 | 0.05580833 | 0.031366667 | 0.08666667 | 0.055300000 | 2.404941e-01 | 1.267081e-18 | FALSE | TRUE | |
| MSTRG.20406.32 | ENSG00000125844 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | RRBP1 | protein_coding | 51.41607 | 62.34398 | 46.25737 | 2.91174 | 1.10692 | -0.4304864 | 3.1971193 | 0.05735318 | 5.279634 | 0.05735318 | 1.4339657 | 6.2952781 | 0.06699583 | 0.001000000 | 0.11396667 | 0.112966667 | 5.228063e-06 | 1.267081e-18 | FALSE | TRUE | |
| MSTRG.20406.35 | ENSG00000125844 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | RRBP1 | protein_coding | 51.41607 | 62.34398 | 46.25737 | 2.91174 | 1.10692 | -0.4304864 | 0.6915161 | 3.21842491 | 0.000000 | 0.75931194 | 0.0000000 | -8.3346867 | 0.01230000 | 0.051500000 | 0.00000000 | -0.051500000 | 2.116948e-16 | 1.267081e-18 | FALSE | TRUE | |
| MSTRG.20406.37 | ENSG00000125844 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | RRBP1 | protein_coding | 51.41607 | 62.34398 | 46.25737 | 2.91174 | 1.10692 | -0.4304864 | 4.3503229 | 2.33694335 | 4.993048 | 1.30513783 | 1.1844892 | 1.0920241 | 0.09085417 | 0.035666667 | 0.10926667 | 0.073600000 | 5.343176e-01 | 1.267081e-18 | FALSE | TRUE | |
| MSTRG.20406.38 | ENSG00000125844 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | RRBP1 | protein_coding | 51.41607 | 62.34398 | 46.25737 | 2.91174 | 1.10692 | -0.4304864 | 5.6897964 | 13.32771608 | 1.024593 | 1.43406520 | 0.1846250 | -3.6883767 | 0.10023333 | 0.216900000 | 0.02203333 | -0.194866667 | 2.485996e-13 | 1.267081e-18 | FALSE | TRUE | |
| MSTRG.20406.9 | ENSG00000125844 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | RRBP1 | protein_coding | 51.41607 | 62.34398 | 46.25737 | 2.91174 | 1.10692 | -0.4304864 | 4.4338076 | 6.92952530 | 0.000000 | 3.00430420 | 0.0000000 | -9.4386932 | 0.07788750 | 0.107733333 | 0.00000000 | -0.107733333 | 4.839385e-11 | 1.267081e-18 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENSG00000125844 | E001 | 0.5180316 | 0.0230462084 | 1.949139e-01 | 3.198845e-01 | 20 | 17613678 | 17613678 | 1 | - | 0.000 | 0.241 | 9.971 |
| ENSG00000125844 | E002 | 25.6661530 | 0.0128065982 | 2.767117e-02 | 6.735821e-02 | 20 | 17613679 | 17613728 | 50 | - | 1.267 | 1.458 | 0.663 |
| ENSG00000125844 | E003 | 35.6894697 | 0.0107523129 | 4.652037e-03 | 1.496391e-02 | 20 | 17613729 | 17613822 | 94 | - | 1.381 | 1.601 | 0.753 |
| ENSG00000125844 | E004 | 14.6575648 | 0.0012313939 | 3.627348e-04 | 1.629726e-03 | 20 | 17613823 | 17613826 | 4 | - | 0.894 | 1.246 | 1.281 |
| ENSG00000125844 | E005 | 19.1746195 | 0.0009767165 | 4.162678e-03 | 1.359925e-02 | 20 | 17613827 | 17613831 | 5 | - | 1.098 | 1.334 | 0.835 |
| ENSG00000125844 | E006 | 22.3663113 | 0.0012729677 | 3.271034e-02 | 7.722059e-02 | 20 | 17613832 | 17613832 | 1 | - | 1.226 | 1.381 | 0.545 |
| ENSG00000125844 | E007 | 25.7985637 | 0.0012746823 | 1.199002e-01 | 2.198292e-01 | 20 | 17613833 | 17613833 | 1 | - | 1.324 | 1.424 | 0.347 |
| ENSG00000125844 | E008 | 33.4248531 | 0.0017535713 | 4.114749e-02 | 9.315680e-02 | 20 | 17613834 | 17613837 | 4 | - | 1.418 | 1.541 | 0.421 |
| ENSG00000125844 | E009 | 75.2739439 | 0.0011186809 | 9.857763e-09 | 1.217262e-07 | 20 | 17613838 | 17613856 | 19 | - | 1.661 | 1.924 | 0.887 |
| ENSG00000125844 | E010 | 83.4530161 | 0.0007076243 | 3.684140e-07 | 3.346515e-06 | 20 | 17613857 | 17613860 | 4 | - | 1.746 | 1.956 | 0.710 |
| ENSG00000125844 | E011 | 124.7575793 | 0.0002578255 | 3.943941e-14 | 1.187300e-12 | 20 | 17613861 | 17613875 | 15 | - | 1.877 | 2.137 | 0.872 |
| ENSG00000125844 | E012 | 146.8983146 | 0.0002362194 | 4.037650e-16 | 1.605964e-14 | 20 | 17613876 | 17613900 | 25 | - | 1.947 | 2.206 | 0.866 |
| ENSG00000125844 | E013 | 173.6694680 | 0.0002141322 | 8.992451e-19 | 4.997339e-17 | 20 | 17613901 | 17613921 | 21 | - | 2.022 | 2.281 | 0.865 |
| ENSG00000125844 | E014 | 608.3404533 | 0.0023253509 | 3.114435e-13 | 8.248573e-12 | 20 | 17613922 | 17614127 | 206 | - | 2.617 | 2.810 | 0.643 |
| ENSG00000125844 | E015 | 466.8800537 | 0.0035999433 | 1.664833e-08 | 1.969881e-07 | 20 | 17614128 | 17614220 | 93 | - | 2.511 | 2.693 | 0.606 |
| ENSG00000125844 | E016 | 228.9531282 | 0.0015589827 | 2.518088e-13 | 6.767545e-12 | 20 | 17614737 | 17614739 | 3 | - | 2.169 | 2.393 | 0.750 |
| ENSG00000125844 | E017 | 284.4442680 | 0.0020607845 | 1.304263e-08 | 1.574114e-07 | 20 | 17614740 | 17614769 | 30 | - | 2.306 | 2.474 | 0.562 |
| ENSG00000125844 | E018 | 477.7012458 | 0.0013288860 | 1.800254e-11 | 3.591919e-10 | 20 | 17614770 | 17614880 | 111 | - | 2.542 | 2.696 | 0.512 |
| ENSG00000125844 | E019 | 425.9694876 | 0.0004290021 | 3.871841e-15 | 1.355588e-13 | 20 | 17615431 | 17615529 | 99 | - | 2.494 | 2.645 | 0.501 |
| ENSG00000125844 | E020 | 487.9432965 | 0.0009038388 | 2.660015e-19 | 1.569881e-17 | 20 | 17615926 | 17616009 | 84 | - | 2.521 | 2.712 | 0.637 |
| ENSG00000125844 | E021 | 605.8589180 | 0.0003124801 | 2.127620e-23 | 1.967160e-21 | 20 | 17616732 | 17616839 | 108 | - | 2.637 | 2.799 | 0.538 |
| ENSG00000125844 | E022 | 493.6057308 | 0.0006411766 | 1.155040e-10 | 2.017507e-09 | 20 | 17618596 | 17618679 | 84 | - | 2.580 | 2.701 | 0.403 |
| ENSG00000125844 | E023 | 13.0591755 | 0.0072680905 | 1.413532e-02 | 3.853195e-02 | 20 | 17618680 | 17619632 | 953 | - | 1.268 | 1.009 | -0.928 |
| ENSG00000125844 | E024 | 448.9560904 | 0.0011405604 | 1.496896e-07 | 1.469796e-06 | 20 | 17619633 | 17619728 | 96 | - | 2.545 | 2.659 | 0.378 |
| ENSG00000125844 | E025 | 4.7145650 | 0.0033929887 | 8.426140e-01 | 9.019346e-01 | 20 | 17619729 | 17619817 | 89 | - | 0.722 | 0.737 | 0.062 |
| ENSG00000125844 | E026 | 309.0321310 | 0.0031666311 | 5.812718e-02 | 1.234162e-01 | 20 | 17620299 | 17620370 | 72 | - | 2.428 | 2.481 | 0.177 |
| ENSG00000125844 | E027 | 314.3006780 | 0.0001783553 | 9.629685e-01 | 9.806035e-01 | 20 | 17620715 | 17620807 | 93 | - | 2.479 | 2.465 | -0.048 |
| ENSG00000125844 | E028 | 292.4615825 | 0.0001745614 | 3.992640e-02 | 9.090178e-02 | 20 | 17621458 | 17621547 | 90 | - | 2.417 | 2.448 | 0.102 |
| ENSG00000125844 | E029 | 371.2316101 | 0.0007247643 | 2.518532e-03 | 8.818562e-03 | 20 | 17621690 | 17621773 | 84 | - | 2.504 | 2.560 | 0.186 |
| ENSG00000125844 | E030 | 423.9481741 | 0.0012814698 | 3.494603e-03 | 1.170968e-02 | 20 | 17621855 | 17621947 | 93 | - | 2.560 | 2.618 | 0.195 |
| ENSG00000125844 | E031 | 1.9249947 | 0.0086161627 | 7.701119e-01 | 8.515526e-01 | 20 | 17622848 | 17623330 | 483 | - | 0.496 | 0.437 | -0.302 |
| ENSG00000125844 | E032 | 396.2933859 | 0.0013201011 | 7.857383e-04 | 3.208513e-03 | 20 | 17624576 | 17624668 | 93 | - | 2.521 | 2.593 | 0.241 |
| ENSG00000125844 | E033 | 366.7007487 | 0.0012379959 | 6.594220e-03 | 2.017107e-02 | 20 | 17625512 | 17625602 | 91 | - | 2.498 | 2.554 | 0.184 |
| ENSG00000125844 | E034 | 179.9092333 | 0.0019563188 | 7.289531e-01 | 8.212834e-01 | 20 | 17627348 | 17627359 | 12 | - | 2.229 | 2.225 | -0.011 |
| ENSG00000125844 | E035 | 204.1912482 | 0.0005204408 | 7.991608e-02 | 1.594327e-01 | 20 | 17627360 | 17627382 | 23 | - | 2.257 | 2.291 | 0.114 |
| ENSG00000125844 | E036 | 485.6222822 | 0.0009863269 | 1.051421e-02 | 3.001182e-02 | 20 | 17627504 | 17627682 | 179 | - | 2.626 | 2.670 | 0.146 |
| ENSG00000125844 | E037 | 423.6078169 | 0.0030393834 | 4.452909e-02 | 9.933346e-02 | 20 | 17629823 | 17629961 | 139 | - | 2.562 | 2.614 | 0.173 |
| ENSG00000125844 | E038 | 397.8450857 | 0.0001399420 | 5.656368e-06 | 3.977366e-05 | 20 | 17633460 | 17633613 | 154 | - | 2.519 | 2.592 | 0.244 |
| ENSG00000125844 | E039 | 351.5710134 | 0.0001486712 | 8.120339e-06 | 5.506582e-05 | 20 | 17635546 | 17635664 | 119 | - | 2.463 | 2.540 | 0.257 |
| ENSG00000125844 | E040 | 489.1649971 | 0.0004595292 | 3.818218e-01 | 5.260918e-01 | 20 | 17636577 | 17636729 | 153 | - | 2.657 | 2.659 | 0.007 |
| ENSG00000125844 | E041 | 1.2210915 | 0.0116517968 | 7.772064e-01 | 8.566059e-01 | 20 | 17641445 | 17641796 | 352 | - | 0.358 | 0.299 | -0.369 |
| ENSG00000125844 | E042 | 440.0324671 | 0.0002297442 | 5.801803e-03 | 1.809155e-02 | 20 | 17641797 | 17641919 | 123 | - | 2.657 | 2.590 | -0.222 |
| ENSG00000125844 | E043 | 471.7807791 | 0.0009797923 | 2.167959e-01 | 3.465527e-01 | 20 | 17642979 | 17643127 | 149 | - | 2.671 | 2.629 | -0.142 |
| ENSG00000125844 | E044 | 161.8980161 | 0.0004427533 | 3.571781e-01 | 5.015776e-01 | 20 | 17658596 | 17658604 | 9 | - | 2.170 | 2.183 | 0.043 |
| ENSG00000125844 | E045 | 329.1063720 | 0.0001775242 | 3.301620e-02 | 7.783597e-02 | 20 | 17658605 | 17658689 | 85 | - | 2.466 | 2.496 | 0.100 |
| ENSG00000125844 | E046 | 288.9137256 | 0.0008985270 | 6.429565e-01 | 7.556074e-01 | 20 | 17658690 | 17658748 | 59 | - | 2.434 | 2.431 | -0.008 |
| ENSG00000125844 | E047 | 223.0328437 | 0.0021154520 | 8.821064e-02 | 1.723981e-01 | 20 | 17658749 | 17658770 | 22 | - | 2.368 | 2.297 | -0.237 |
| ENSG00000125844 | E048 | 397.5748942 | 0.0002799391 | 2.546626e-03 | 8.902452e-03 | 20 | 17658771 | 17658898 | 128 | - | 2.620 | 2.546 | -0.248 |
| ENSG00000125844 | E049 | 246.9805946 | 0.0001726056 | 1.172397e-02 | 3.287408e-02 | 20 | 17658899 | 17658920 | 22 | - | 2.413 | 2.338 | -0.251 |
| ENSG00000125844 | E050 | 317.1190202 | 0.0001617758 | 1.268570e-11 | 2.597285e-10 | 20 | 17658921 | 17659087 | 167 | - | 2.571 | 2.415 | -0.520 |
| ENSG00000125844 | E051 | 204.3054888 | 0.0044424226 | 1.894388e-16 | 7.868582e-15 | 20 | 17659088 | 17659244 | 157 | - | 2.486 | 2.134 | -1.175 |
| ENSG00000125844 | E052 | 70.9406788 | 0.0006931487 | 2.088389e-13 | 5.672658e-12 | 20 | 17659245 | 17659274 | 30 | - | 2.020 | 1.689 | -1.117 |
| ENSG00000125844 | E053 | 59.3416947 | 0.0235076900 | 8.688058e-06 | 5.854265e-05 | 20 | 17659275 | 17659297 | 23 | - | 1.978 | 1.575 | -1.361 |
| ENSG00000125844 | E054 | 63.4699937 | 0.0230420232 | 5.203130e-05 | 2.918828e-04 | 20 | 17659298 | 17659304 | 7 | - | 1.991 | 1.623 | -1.241 |
| ENSG00000125844 | E055 | 71.7149345 | 0.0086082204 | 4.392109e-11 | 8.227389e-10 | 20 | 17659305 | 17659343 | 39 | - | 2.067 | 1.649 | -1.410 |
| ENSG00000125844 | E056 | 56.7612291 | 0.0908845384 | 7.350685e-04 | 3.025591e-03 | 20 | 17659344 | 17659364 | 21 | - | 2.007 | 1.492 | -1.744 |
| ENSG00000125844 | E057 | 63.7396195 | 0.0007549608 | 2.522339e-28 | 3.670120e-26 | 20 | 17659365 | 17659394 | 30 | - | 2.059 | 1.543 | -1.743 |
| ENSG00000125844 | E058 | 44.7675183 | 0.0004920846 | 2.642845e-25 | 2.962598e-23 | 20 | 17659395 | 17659424 | 30 | - | 1.926 | 1.363 | -1.917 |
| ENSG00000125844 | E059 | 149.4968512 | 0.0072380170 | 3.280662e-12 | 7.398948e-11 | 20 | 17659425 | 17659574 | 150 | - | 2.359 | 1.991 | -1.232 |
| ENSG00000125844 | E060 | 128.1332658 | 0.0015635218 | 1.761054e-19 | 1.061828e-17 | 20 | 17659575 | 17659604 | 30 | - | 2.282 | 1.939 | -1.150 |
| ENSG00000125844 | E061 | 102.0904078 | 0.0003023864 | 2.154677e-21 | 1.616622e-19 | 20 | 17659605 | 17659605 | 1 | - | 2.189 | 1.838 | -1.176 |
| ENSG00000125844 | E062 | 109.3390340 | 0.0002909548 | 1.875186e-21 | 1.415332e-19 | 20 | 17659606 | 17659613 | 8 | - | 2.212 | 1.871 | -1.142 |
| ENSG00000125844 | E063 | 132.0178992 | 0.0002783718 | 4.076831e-23 | 3.660396e-21 | 20 | 17659614 | 17659634 | 21 | - | 2.287 | 1.962 | -1.087 |
| ENSG00000125844 | E064 | 170.9318496 | 0.0002450349 | 1.732364e-25 | 1.995083e-23 | 20 | 17659635 | 17659694 | 60 | - | 2.386 | 2.082 | -1.017 |
| ENSG00000125844 | E065 | 174.3666127 | 0.0024016821 | 1.778242e-17 | 8.438945e-16 | 20 | 17659695 | 17659724 | 30 | - | 2.400 | 2.082 | -1.063 |
| ENSG00000125844 | E066 | 338.3061612 | 0.0007788307 | 5.408232e-25 | 5.915551e-23 | 20 | 17659725 | 17659844 | 120 | - | 2.655 | 2.399 | -0.852 |
| ENSG00000125844 | E067 | 384.2469501 | 0.0031835584 | 3.054376e-12 | 6.924634e-11 | 20 | 17659845 | 17659979 | 135 | - | 2.702 | 2.461 | -0.802 |
| ENSG00000125844 | E068 | 766.2674206 | 0.0064106506 | 3.987505e-10 | 6.361439e-09 | 20 | 17659980 | 17660528 | 549 | - | 3.013 | 2.753 | -0.864 |
| ENSG00000125844 | E069 | 4.4015219 | 0.0052564330 | 1.398666e-01 | 2.478491e-01 | 20 | 17679995 | 17679998 | 4 | - | 0.844 | 0.625 | -0.893 |
| ENSG00000125844 | E070 | 64.1726983 | 0.0175485990 | 3.533628e-07 | 3.220857e-06 | 20 | 17679999 | 17680075 | 77 | - | 2.016 | 1.608 | -1.376 |
| ENSG00000125844 | E071 | 167.1487052 | 0.0284690199 | 1.897008e-05 | 1.182919e-04 | 20 | 17682028 | 17682295 | 268 | - | 2.410 | 2.039 | -1.241 |