Isoforom Switch Analysis
WANG Ziyi
Date: 19 5月 2022
ENSG00000110321
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENST00000339995 | ENSG00000110321 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | EIF4G2 | protein_coding | protein_coding | 327.0281 | 221.7388 | 466.0454 | 11.68631 | 11.49251 | 1.071575 | 135.90149 | 53.89430 | 205.80204 | 9.231052 | 10.492401 | 1.9328550 | 0.3904000 | 0.2464000 | 0.4414000 | 0.1950000 | 3.109179e-02 | 9.235067e-46 | FALSE | TRUE |
| ENST00000396525 | ENSG00000110321 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | EIF4G2 | protein_coding | protein_coding | 327.0281 | 221.7388 | 466.0454 | 11.68631 | 11.49251 | 1.071575 | 57.00569 | 10.85790 | 116.08910 | 6.064436 | 3.592981 | 3.4172111 | 0.1467542 | 0.0508000 | 0.2490333 | 0.1982333 | 4.221584e-01 | 9.235067e-46 | FALSE | TRUE |
| ENST00000525681 | ENSG00000110321 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | EIF4G2 | protein_coding | protein_coding | 327.0281 | 221.7388 | 466.0454 | 11.68631 | 11.49251 | 1.071575 | 75.68928 | 70.34455 | 92.14434 | 10.252738 | 11.193496 | 0.3894083 | 0.2469208 | 0.3146333 | 0.1977667 | -0.1168667 | 6.379989e-02 | 9.235067e-46 | FALSE | TRUE |
| MSTRG.5172.8 | ENSG00000110321 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | EIF4G2 | protein_coding | 327.0281 | 221.7388 | 466.0454 | 11.68631 | 11.49251 | 1.071575 | 22.20053 | 66.84606 | 0.00000 | 13.766715 | 0.000000 | -12.7068426 | 0.1112542 | 0.2993000 | 0.0000000 | -0.2993000 | 9.235067e-46 | 9.235067e-46 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENSG00000110321 | E001 | 3.949052 | 1.050546e-02 | 1.693960e-02 | 4.479622e-02 | 11 | 10797050 | 10797052 | 3 | - | 0.510 | 0.891 | 1.604 |
| ENSG00000110321 | E002 | 3.949052 | 1.050546e-02 | 1.693960e-02 | 4.479622e-02 | 11 | 10797053 | 10797053 | 1 | - | 0.510 | 0.891 | 1.604 |
| ENSG00000110321 | E003 | 194.206677 | 9.692504e-03 | 8.033334e-11 | 1.440719e-09 | 11 | 10797054 | 10797099 | 46 | - | 2.092 | 2.492 | 1.337 |
| ENSG00000110321 | E004 | 267.277770 | 1.403502e-02 | 6.890888e-08 | 7.221252e-07 | 11 | 10797100 | 10797101 | 2 | - | 2.235 | 2.624 | 1.295 |
| ENSG00000110321 | E005 | 683.958190 | 1.185745e-02 | 1.816993e-17 | 8.612055e-16 | 11 | 10797102 | 10797156 | 55 | - | 2.564 | 3.087 | 1.740 |
| ENSG00000110321 | E006 | 945.239008 | 1.332155e-02 | 6.237372e-14 | 1.824662e-12 | 11 | 10797157 | 10797158 | 2 | - | 2.726 | 3.213 | 1.621 |
| ENSG00000110321 | E007 | 1106.672500 | 1.218322e-02 | 1.419138e-16 | 5.994459e-15 | 11 | 10797159 | 10797169 | 11 | - | 2.781 | 3.290 | 1.694 |
| ENSG00000110321 | E008 | 1219.939507 | 1.191346e-02 | 1.157142e-13 | 3.258280e-12 | 11 | 10797170 | 10797176 | 7 | - | 2.855 | 3.310 | 1.513 |
| ENSG00000110321 | E009 | 1692.293217 | 9.369732e-03 | 8.800135e-18 | 4.359726e-16 | 11 | 10797177 | 10797232 | 56 | - | 2.994 | 3.454 | 1.532 |
| ENSG00000110321 | E010 | 5430.806884 | 5.100991e-03 | 3.251244e-20 | 2.126125e-18 | 11 | 10797233 | 10797711 | 479 | - | 3.559 | 3.911 | 1.167 |
| ENSG00000110321 | E011 | 1255.651775 | 3.037180e-04 | 3.840768e-74 | 6.496625e-71 | 11 | 10797712 | 10797727 | 16 | - | 2.961 | 3.239 | 0.922 |
| ENSG00000110321 | E012 | 2699.064369 | 1.010468e-03 | 1.406997e-38 | 4.435131e-36 | 11 | 10797728 | 10797881 | 154 | - | 3.303 | 3.559 | 0.850 |
| ENSG00000110321 | E013 | 23.519193 | 2.881343e-02 | 1.880280e-01 | 3.112366e-01 | 11 | 10798743 | 10798991 | 249 | - | 1.390 | 1.276 | -0.399 |
| ENSG00000110321 | E014 | 2756.848694 | 1.513892e-03 | 1.612780e-12 | 3.816415e-11 | 11 | 10798992 | 10799113 | 122 | - | 3.345 | 3.525 | 0.596 |
| ENSG00000110321 | E015 | 3624.998586 | 3.721164e-04 | 1.612165e-19 | 9.748478e-18 | 11 | 10799213 | 10799424 | 212 | - | 3.482 | 3.619 | 0.455 |
| ENSG00000110321 | E016 | 22.184835 | 8.162470e-04 | 2.772526e-04 | 1.287023e-03 | 11 | 10799425 | 10799551 | 127 | - | 1.407 | 1.131 | -0.971 |
| ENSG00000110321 | E017 | 1861.704409 | 2.356023e-04 | 1.156825e-16 | 4.934856e-15 | 11 | 10799552 | 10799609 | 58 | - | 3.195 | 3.326 | 0.434 |
| ENSG00000110321 | E018 | 2683.946035 | 3.085939e-04 | 1.306813e-13 | 3.655275e-12 | 11 | 10799610 | 10799756 | 147 | - | 3.358 | 3.476 | 0.391 |
| ENSG00000110321 | E019 | 120.477317 | 6.740860e-03 | 3.637894e-14 | 1.101820e-12 | 11 | 10799757 | 10800089 | 333 | - | 2.149 | 1.735 | -1.390 |
| ENSG00000110321 | E020 | 1284.412455 | 6.226424e-04 | 1.399900e-02 | 3.822470e-02 | 11 | 10800090 | 10800091 | 2 | - | 3.054 | 3.128 | 0.249 |
| ENSG00000110321 | E021 | 2123.616692 | 7.912021e-05 | 1.556017e-05 | 9.893037e-05 | 11 | 10800092 | 10800168 | 77 | - | 3.272 | 3.348 | 0.255 |
| ENSG00000110321 | E022 | 1950.296192 | 1.270670e-04 | 4.722318e-02 | 1.042290e-01 | 11 | 10800169 | 10800243 | 75 | - | 3.242 | 3.299 | 0.190 |
| ENSG00000110321 | E023 | 2379.099943 | 5.274070e-05 | 2.848353e-03 | 9.818802e-03 | 11 | 10800244 | 10800348 | 105 | - | 3.327 | 3.389 | 0.208 |
| ENSG00000110321 | E024 | 2015.213561 | 1.368783e-04 | 1.000160e-02 | 2.876622e-02 | 11 | 10800432 | 10800530 | 99 | - | 3.255 | 3.318 | 0.211 |
| ENSG00000110321 | E025 | 2573.877214 | 1.225203e-04 | 4.990273e-06 | 3.552370e-05 | 11 | 10800531 | 10800647 | 117 | - | 3.383 | 3.379 | -0.015 |
| ENSG00000110321 | E026 | 2456.081773 | 2.531606e-04 | 7.280647e-06 | 4.991484e-05 | 11 | 10800731 | 10800835 | 105 | - | 3.365 | 3.353 | -0.041 |
| ENSG00000110321 | E027 | 2062.312979 | 4.893282e-04 | 3.344238e-02 | 7.866644e-02 | 11 | 10800962 | 10801054 | 93 | - | 3.283 | 3.290 | 0.024 |
| ENSG00000110321 | E028 | 1194.562566 | 1.527218e-03 | 6.519046e-01 | 7.626837e-01 | 11 | 10801055 | 10801087 | 33 | - | 3.040 | 3.065 | 0.084 |
| ENSG00000110321 | E029 | 17.896113 | 1.497697e-02 | 5.346628e-02 | 1.153214e-01 | 11 | 10801088 | 10801466 | 379 | - | 1.299 | 1.129 | -0.600 |
| ENSG00000110321 | E030 | 12.497769 | 6.071936e-02 | 4.421204e-01 | 5.837595e-01 | 11 | 10801467 | 10801608 | 142 | - | 1.127 | 1.055 | -0.261 |
| ENSG00000110321 | E031 | 1816.345345 | 9.910787e-04 | 1.712571e-01 | 2.898196e-01 | 11 | 10801661 | 10801774 | 114 | - | 3.226 | 3.238 | 0.038 |
| ENSG00000110321 | E032 | 26.075176 | 8.181720e-04 | 1.573097e-06 | 1.251442e-05 | 11 | 10801775 | 10802048 | 274 | - | 1.492 | 1.131 | -1.261 |
| ENSG00000110321 | E033 | 1355.279322 | 1.632204e-03 | 4.879881e-04 | 2.114206e-03 | 11 | 10802049 | 10802059 | 11 | - | 3.116 | 3.073 | -0.143 |
| ENSG00000110321 | E034 | 2480.028457 | 1.192744e-03 | 9.229540e-07 | 7.716959e-06 | 11 | 10802060 | 10802185 | 126 | - | 3.382 | 3.325 | -0.188 |
| ENSG00000110321 | E035 | 1431.950547 | 6.775781e-05 | 1.186749e-16 | 5.054541e-15 | 11 | 10802186 | 10802209 | 24 | - | 3.143 | 3.090 | -0.175 |
| ENSG00000110321 | E036 | 2920.023121 | 7.474235e-04 | 1.000048e-21 | 7.710873e-20 | 11 | 10802294 | 10802435 | 142 | - | 3.468 | 3.357 | -0.369 |
| ENSG00000110321 | E037 | 2614.083434 | 8.572386e-04 | 3.578635e-25 | 3.973984e-23 | 11 | 10803030 | 10803128 | 99 | - | 3.426 | 3.292 | -0.446 |
| ENSG00000110321 | E038 | 1758.962336 | 6.284993e-04 | 4.426343e-30 | 7.520694e-28 | 11 | 10803211 | 10803260 | 50 | - | 3.257 | 3.115 | -0.472 |
| ENSG00000110321 | E039 | 1588.759829 | 2.146540e-04 | 2.272102e-36 | 6.037067e-34 | 11 | 10803261 | 10803294 | 34 | - | 3.206 | 3.089 | -0.390 |
| ENSG00000110321 | E040 | 1520.428613 | 6.607642e-05 | 1.321262e-38 | 4.185770e-36 | 11 | 10803480 | 10803511 | 32 | - | 3.183 | 3.081 | -0.340 |
| ENSG00000110321 | E041 | 1643.339419 | 5.710663e-05 | 8.023979e-43 | 3.283194e-40 | 11 | 10803512 | 10803560 | 49 | - | 3.217 | 3.113 | -0.345 |
| ENSG00000110321 | E042 | 1393.960226 | 1.502674e-04 | 1.299447e-31 | 2.425383e-29 | 11 | 10803561 | 10803590 | 30 | - | 3.146 | 3.041 | -0.348 |
| ENSG00000110321 | E043 | 23.334107 | 7.866800e-04 | 2.439148e-11 | 4.773157e-10 | 11 | 10803591 | 10803898 | 308 | - | 1.477 | 0.861 | -2.212 |
| ENSG00000110321 | E044 | 1294.098231 | 6.091163e-04 | 1.180200e-13 | 3.319261e-12 | 11 | 10803899 | 10803941 | 43 | - | 3.108 | 3.022 | -0.286 |
| ENSG00000110321 | E045 | 1787.102394 | 2.519840e-03 | 5.288693e-06 | 3.742583e-05 | 11 | 10803942 | 10804050 | 109 | - | 3.248 | 3.162 | -0.288 |
| ENSG00000110321 | E046 | 14.776355 | 1.224950e-03 | 2.115317e-07 | 2.018031e-06 | 11 | 10804051 | 10804136 | 86 | - | 1.285 | 0.714 | -2.129 |
| ENSG00000110321 | E047 | 1322.783576 | 6.771774e-03 | 1.135705e-04 | 5.842341e-04 | 11 | 10804137 | 10804180 | 44 | - | 3.129 | 3.000 | -0.430 |
| ENSG00000110321 | E048 | 1198.893401 | 6.349977e-03 | 1.833450e-05 | 1.147251e-04 | 11 | 10804181 | 10804203 | 23 | - | 3.089 | 2.947 | -0.475 |
| ENSG00000110321 | E049 | 1071.811567 | 8.187289e-03 | 1.932904e-04 | 9.350944e-04 | 11 | 10804287 | 10804291 | 5 | - | 3.040 | 2.901 | -0.463 |
| ENSG00000110321 | E050 | 1062.825432 | 8.239680e-03 | 2.671182e-04 | 1.245758e-03 | 11 | 10804292 | 10804296 | 5 | - | 3.035 | 2.900 | -0.451 |
| ENSG00000110321 | E051 | 1439.918488 | 4.933417e-03 | 3.460328e-07 | 3.161252e-06 | 11 | 10804297 | 10804339 | 43 | - | 3.171 | 3.020 | -0.504 |
| ENSG00000110321 | E052 | 1151.127409 | 2.704755e-03 | 3.510752e-12 | 7.878482e-11 | 11 | 10804340 | 10804363 | 24 | - | 3.077 | 2.913 | -0.546 |
| ENSG00000110321 | E053 | 881.364424 | 2.458497e-03 | 9.960480e-13 | 2.446814e-11 | 11 | 10804364 | 10804371 | 8 | - | 2.962 | 2.795 | -0.556 |
| ENSG00000110321 | E054 | 918.807119 | 3.475008e-03 | 1.080253e-08 | 1.323802e-07 | 11 | 10804372 | 10804380 | 9 | - | 2.976 | 2.826 | -0.498 |
| ENSG00000110321 | E055 | 1224.473102 | 2.773554e-03 | 1.846738e-08 | 2.167876e-07 | 11 | 10804381 | 10804418 | 38 | - | 3.095 | 2.969 | -0.419 |
| ENSG00000110321 | E056 | 18.237087 | 1.716008e-02 | 1.857007e-05 | 1.160802e-04 | 11 | 10804419 | 10804912 | 494 | - | 1.359 | 0.863 | -1.798 |
| ENSG00000110321 | E057 | 892.409006 | 4.364348e-03 | 1.412957e-05 | 9.064386e-05 | 11 | 10804913 | 10804915 | 3 | - | 2.956 | 2.836 | -0.397 |
| ENSG00000110321 | E058 | 973.401050 | 4.311326e-03 | 5.365817e-07 | 4.717989e-06 | 11 | 10804916 | 10804926 | 11 | - | 2.999 | 2.858 | -0.471 |
| ENSG00000110321 | E059 | 979.804458 | 4.439121e-03 | 1.810155e-05 | 1.134210e-04 | 11 | 10804927 | 10804945 | 19 | - | 2.996 | 2.878 | -0.391 |
| ENSG00000110321 | E060 | 1100.574220 | 7.058445e-03 | 3.830014e-05 | 2.218031e-04 | 11 | 10804946 | 10804984 | 39 | - | 3.053 | 2.909 | -0.478 |
| ENSG00000110321 | E061 | 921.445612 | 8.109134e-03 | 4.494901e-04 | 1.964757e-03 | 11 | 10804985 | 10805015 | 31 | - | 2.972 | 2.844 | -0.425 |
| ENSG00000110321 | E062 | 1228.753217 | 1.977493e-03 | 1.710979e-17 | 8.140125e-16 | 11 | 10805907 | 10805940 | 34 | - | 3.109 | 2.931 | -0.594 |
| ENSG00000110321 | E063 | 1524.699694 | 2.438446e-03 | 5.590533e-14 | 1.647138e-12 | 11 | 10805941 | 10806010 | 70 | - | 3.200 | 3.034 | -0.552 |
| ENSG00000110321 | E064 | 949.919318 | 2.989071e-03 | 5.224698e-13 | 1.340652e-11 | 11 | 10806011 | 10806024 | 14 | - | 2.999 | 2.814 | -0.617 |
| ENSG00000110321 | E065 | 895.795153 | 2.316154e-03 | 1.919456e-17 | 9.057569e-16 | 11 | 10806025 | 10806047 | 23 | - | 2.977 | 2.775 | -0.672 |
| ENSG00000110321 | E066 | 58.917565 | 9.351911e-03 | 7.722298e-19 | 4.325743e-17 | 11 | 10806048 | 10806502 | 455 | - | 1.877 | 1.149 | -2.506 |
| ENSG00000110321 | E067 | 41.719084 | 6.349172e-04 | 5.983585e-24 | 5.916105e-22 | 11 | 10806503 | 10806819 | 317 | - | 1.735 | 0.946 | -2.769 |
| ENSG00000110321 | E068 | 1108.458177 | 2.716604e-03 | 3.012185e-12 | 6.834944e-11 | 11 | 10806820 | 10806885 | 66 | - | 3.061 | 2.895 | -0.554 |
| ENSG00000110321 | E069 | 10.525585 | 1.648286e-03 | 7.790169e-05 | 4.181115e-04 | 11 | 10806886 | 10807073 | 188 | - | 1.139 | 0.668 | -1.807 |
| ENSG00000110321 | E070 | 9.003762 | 1.886710e-03 | 1.214014e-03 | 4.688247e-03 | 11 | 10807074 | 10807254 | 181 | - | 1.063 | 0.668 | -1.529 |
| ENSG00000110321 | E071 | 749.586715 | 1.357457e-03 | 1.043934e-12 | 2.554479e-11 | 11 | 10807255 | 10807288 | 34 | - | 2.883 | 2.751 | -0.441 |
| ENSG00000110321 | E072 | 561.959075 | 1.580956e-03 | 4.014028e-10 | 6.401056e-09 | 11 | 10807289 | 10807309 | 21 | - | 2.757 | 2.629 | -0.426 |
| ENSG00000110321 | E073 | 371.009925 | 1.588813e-03 | 4.462587e-08 | 4.860992e-07 | 11 | 10807310 | 10807319 | 10 | - | 2.575 | 2.453 | -0.408 |
| ENSG00000110321 | E074 | 420.236346 | 5.947773e-03 | 1.155106e-01 | 2.135836e-01 | 11 | 10807320 | 10807381 | 62 | - | 2.605 | 2.570 | -0.115 |
| ENSG00000110321 | E075 | 10.379744 | 1.664776e-02 | 4.302195e-03 | 1.399063e-02 | 11 | 10807382 | 10807533 | 152 | - | 1.113 | 0.756 | -1.351 |
| ENSG00000110321 | E076 | 2.557058 | 1.035122e-02 | 1.509049e-02 | 4.069188e-02 | 11 | 10807534 | 10807548 | 15 | - | 0.628 | 0.182 | -2.637 |
| ENSG00000110321 | E077 | 8.413598 | 1.939461e-03 | 4.903579e-06 | 3.497358e-05 | 11 | 10807549 | 10807744 | 196 | - | 1.070 | 0.409 | -2.779 |
| ENSG00000110321 | E078 | 8.974709 | 1.838391e-03 | 1.405988e-07 | 1.388739e-06 | 11 | 10807745 | 10808084 | 340 | - | 1.106 | 0.310 | -3.495 |
| ENSG00000110321 | E079 | 4.433154 | 5.495976e-02 | 6.829082e-03 | 2.077911e-02 | 11 | 10808174 | 10808276 | 103 | - | 0.825 | 0.309 | -2.453 |
| ENSG00000110321 | E080 | 9.092608 | 1.841460e-03 | 9.408917e-04 | 3.757280e-03 | 11 | 10808277 | 10808508 | 232 | - | 1.070 | 0.668 | -1.557 |
| ENSG00000110321 | E081 | 5.601029 | 4.438097e-03 | 1.460704e-03 | 5.509508e-03 | 11 | 10808509 | 10808630 | 122 | - | 0.898 | 0.409 | -2.139 |
| ENSG00000110321 | E082 | 320.708777 | 7.071970e-03 | 3.686569e-02 | 8.521137e-02 | 11 | 10808705 | 10808743 | 39 | - | 2.497 | 2.431 | -0.221 |
| ENSG00000110321 | E083 | 687.547839 | 5.610893e-03 | 1.224759e-03 | 4.724156e-03 | 11 | 10808744 | 10808881 | 138 | - | 2.836 | 2.739 | -0.323 |
| ENSG00000110321 | E084 | 441.628884 | 2.310311e-03 | 5.045841e-05 | 2.841363e-04 | 11 | 10808882 | 10809051 | 170 | - | 2.642 | 2.553 | -0.297 |