Isoforom Switch Analysis
WANG Ziyi
Date: 19 5月 2022
ENSG00000148337
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENST00000372938 | ENSG00000148337 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | CIZ1 | protein_coding | protein_coding | 121.7391 | 168.2224 | 82.6112 | 4.94769 | 1.841061 | -1.025872 | 29.705745 | 41.827061 | 16.9602290 | 2.6230805 | 0.7762033 | -1.3017755 | 0.23680417 | 0.24843333 | 0.205566667 | -0.0428666667 | 2.447512e-01 | 2.727812e-15 | FALSE | |
| ENST00000415526 | ENSG00000148337 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | CIZ1 | protein_coding | protein_coding | 121.7391 | 168.2224 | 82.6112 | 4.94769 | 1.841061 | -1.025872 | 24.190599 | 39.187294 | 14.8477062 | 1.6206267 | 1.1053794 | -1.3995426 | 0.19434583 | 0.23333333 | 0.179966667 | -0.0533666667 | 1.690834e-01 | 2.727812e-15 | FALSE | |
| ENST00000471773 | ENSG00000148337 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | CIZ1 | protein_coding | processed_transcript | 121.7391 | 168.2224 | 82.6112 | 4.94769 | 1.841061 | -1.025872 | 5.796413 | 10.233805 | 0.6193908 | 2.2345540 | 0.6193908 | -4.0246519 | 0.04007500 | 0.06146667 | 0.007433333 | -0.0540333333 | 6.359156e-02 | 2.727812e-15 | FALSE | |
| ENST00000476541 | ENSG00000148337 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | CIZ1 | protein_coding | retained_intron | 121.7391 | 168.2224 | 82.6112 | 4.94769 | 1.841061 | -1.025872 | 7.523796 | 5.844058 | 7.3196114 | 0.5155062 | 0.2570809 | 0.3242998 | 0.06852083 | 0.03463333 | 0.088600000 | 0.0539666667 | 2.727812e-15 | 2.727812e-15 | FALSE | |
| ENST00000485862 | ENSG00000148337 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | CIZ1 | protein_coding | processed_transcript | 121.7391 | 168.2224 | 82.6112 | 4.94769 | 1.841061 | -1.025872 | 6.465692 | 7.287658 | 4.7944865 | 0.6336482 | 0.4468357 | -0.6030513 | 0.05567917 | 0.04330000 | 0.057900000 | 0.0146000000 | 2.204547e-01 | 2.727812e-15 | FALSE | |
| MSTRG.33444.20 | ENSG00000148337 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | CIZ1 | protein_coding | 121.7391 | 168.2224 | 82.6112 | 4.94769 | 1.841061 | -1.025872 | 23.580115 | 34.319394 | 16.8303383 | 3.9457479 | 0.5807648 | -1.0275233 | 0.19697083 | 0.20310000 | 0.203866667 | 0.0007666667 | 1.000000e+00 | 2.727812e-15 | FALSE | ||
| MSTRG.33444.26 | ENSG00000148337 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | CIZ1 | protein_coding | 121.7391 | 168.2224 | 82.6112 | 4.94769 | 1.841061 | -1.025872 | 2.591488 | 0.000000 | 4.5650161 | 0.0000000 | 2.5798932 | 8.8376330 | 0.02464167 | 0.00000000 | 0.054266667 | 0.0542666667 | 1.290401e-01 | 2.727812e-15 | FALSE |
- 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENSG00000148337 | E001 | 1.5896985 | 0.0198044022 | 4.281234e-01 | 5.709287e-01 | 9 | 128160212 | 128161028 | 817 | - | 0.486 | 0.348 | -0.746 |
| ENSG00000148337 | E002 | 0.6599951 | 0.0192935097 | 2.200206e-01 | 3.504354e-01 | 9 | 128161251 | 128161273 | 23 | - | 0.000 | 0.260 | 12.197 |
| ENSG00000148337 | E003 | 90.9063993 | 0.0003051951 | 9.772745e-12 | 2.039455e-10 | 9 | 128161274 | 128162835 | 1562 | - | 2.076 | 1.818 | -0.866 |
| ENSG00000148337 | E004 | 15.1085274 | 0.0019148210 | 1.672922e-04 | 8.235373e-04 | 9 | 128162836 | 128162947 | 112 | - | 1.365 | 1.036 | -1.168 |
| ENSG00000148337 | E005 | 2.3550118 | 0.0922102213 | 6.630696e-01 | 7.712186e-01 | 9 | 128166064 | 128166064 | 1 | - | 0.553 | 0.479 | -0.358 |
| ENSG00000148337 | E006 | 3.2354080 | 0.0675570583 | 8.522913e-01 | 9.084538e-01 | 9 | 128166065 | 128166065 | 1 | - | 0.612 | 0.584 | -0.124 |
| ENSG00000148337 | E007 | 5.4926644 | 0.0030460719 | 5.183902e-01 | 6.526238e-01 | 9 | 128166066 | 128166066 | 1 | - | 0.824 | 0.742 | -0.327 |
| ENSG00000148337 | E008 | 6.8513513 | 0.0024376144 | 8.723863e-01 | 9.219366e-01 | 9 | 128166067 | 128166068 | 2 | - | 0.856 | 0.842 | -0.054 |
| ENSG00000148337 | E009 | 10.6447300 | 0.0016209134 | 3.265364e-01 | 4.699707e-01 | 9 | 128166069 | 128166070 | 2 | - | 0.915 | 1.036 | 0.451 |
| ENSG00000148337 | E010 | 43.2746220 | 0.0134368348 | 1.762149e-01 | 2.963092e-01 | 9 | 128166071 | 128166088 | 18 | - | 1.490 | 1.616 | 0.429 |
| ENSG00000148337 | E011 | 132.8355232 | 0.0052708297 | 4.675446e-03 | 1.502722e-02 | 9 | 128166089 | 128166151 | 63 | - | 1.943 | 2.099 | 0.523 |
| ENSG00000148337 | E012 | 245.1561488 | 0.0086216009 | 8.283714e-04 | 3.360798e-03 | 9 | 128166152 | 128166256 | 105 | - | 2.178 | 2.369 | 0.637 |
| ENSG00000148337 | E013 | 141.5272436 | 0.0070275920 | 1.083956e-04 | 5.607041e-04 | 9 | 128166257 | 128166268 | 12 | - | 1.911 | 2.137 | 0.759 |
| ENSG00000148337 | E014 | 222.0052186 | 0.0028309329 | 2.173225e-09 | 3.025062e-08 | 9 | 128166269 | 128166306 | 38 | - | 2.085 | 2.335 | 0.835 |
| ENSG00000148337 | E015 | 457.3239416 | 0.0023792041 | 1.960958e-09 | 2.750204e-08 | 9 | 128166307 | 128166406 | 100 | - | 2.438 | 2.639 | 0.670 |
| ENSG00000148337 | E016 | 3.7912163 | 0.0045579491 | 2.840876e-01 | 4.243005e-01 | 9 | 128166621 | 128166758 | 138 | - | 0.486 | 0.672 | 0.843 |
| ENSG00000148337 | E017 | 944.2976474 | 0.0029193616 | 1.000677e-08 | 1.233893e-07 | 9 | 128166759 | 128166880 | 122 | - | 2.768 | 2.950 | 0.606 |
| ENSG00000148337 | E018 | 4.7552483 | 0.0035748157 | 7.139257e-01 | 8.102768e-01 | 9 | 128166881 | 128167094 | 214 | - | 0.663 | 0.725 | 0.258 |
| ENSG00000148337 | E019 | 1021.2655908 | 0.0028420515 | 1.403161e-07 | 1.386164e-06 | 9 | 128167095 | 128167164 | 70 | - | 2.817 | 2.981 | 0.545 |
| ENSG00000148337 | E020 | 84.8603151 | 0.0047535463 | 8.654343e-06 | 5.833206e-05 | 9 | 128167165 | 128167473 | 309 | - | 2.024 | 1.801 | -0.747 |
| ENSG00000148337 | E021 | 58.1994323 | 0.0009523641 | 1.436859e-10 | 2.469460e-09 | 9 | 128167539 | 128167683 | 145 | - | 1.919 | 1.613 | -1.033 |
| ENSG00000148337 | E022 | 65.1642960 | 0.0003659353 | 4.156523e-20 | 2.674731e-18 | 9 | 128168735 | 128169051 | 317 | - | 2.017 | 1.616 | -1.355 |
| ENSG00000148337 | E023 | 798.5983832 | 0.0035006697 | 1.303568e-05 | 8.427942e-05 | 9 | 128169052 | 128169075 | 24 | - | 2.719 | 2.872 | 0.510 |
| ENSG00000148337 | E024 | 1453.1865020 | 0.0018690501 | 2.835694e-04 | 1.313032e-03 | 9 | 128169076 | 128169201 | 126 | - | 3.025 | 3.120 | 0.317 |
| ENSG00000148337 | E025 | 1300.3052534 | 0.0012039938 | 1.997403e-01 | 3.259109e-01 | 9 | 128169406 | 128169519 | 114 | - | 3.022 | 3.059 | 0.122 |
| ENSG00000148337 | E026 | 7.6818826 | 0.0041994422 | 4.828387e-05 | 2.730925e-04 | 9 | 128169623 | 128169700 | 78 | - | 1.174 | 0.709 | -1.758 |
| ENSG00000148337 | E027 | 675.8657370 | 0.0022438001 | 8.125679e-01 | 8.811241e-01 | 9 | 128170020 | 128170035 | 16 | - | 2.753 | 2.771 | 0.060 |
| ENSG00000148337 | E028 | 824.5888809 | 0.0003794670 | 1.167644e-01 | 2.153429e-01 | 9 | 128170036 | 128170107 | 72 | - | 2.825 | 2.860 | 0.118 |
| ENSG00000148337 | E029 | 926.4499760 | 0.0009679688 | 1.820667e-01 | 3.038032e-01 | 9 | 128176351 | 128176475 | 125 | - | 2.875 | 2.911 | 0.120 |
| ENSG00000148337 | E030 | 433.4924450 | 0.0028106237 | 1.642212e-01 | 2.806655e-01 | 9 | 128177566 | 128177568 | 3 | - | 2.532 | 2.586 | 0.181 |
| ENSG00000148337 | E031 | 496.3214545 | 0.0027272806 | 1.566558e-01 | 2.706474e-01 | 9 | 128177569 | 128177587 | 19 | - | 2.591 | 2.645 | 0.178 |
| ENSG00000148337 | E032 | 1068.7584013 | 0.0005639409 | 1.631117e-02 | 4.341327e-02 | 9 | 128177588 | 128177763 | 176 | - | 2.926 | 2.975 | 0.164 |
| ENSG00000148337 | E033 | 939.7719069 | 0.0002852863 | 5.995356e-01 | 7.209062e-01 | 9 | 128178369 | 128178490 | 122 | - | 2.896 | 2.912 | 0.055 |
| ENSG00000148337 | E034 | 29.6836050 | 0.0006991147 | 3.133108e-18 | 1.623073e-16 | 9 | 128178491 | 128178708 | 218 | - | 1.761 | 1.215 | -1.879 |
| ENSG00000148337 | E035 | 980.2030215 | 0.0004217656 | 8.163317e-01 | 8.837898e-01 | 9 | 128178709 | 128178892 | 184 | - | 2.922 | 2.928 | 0.018 |
| ENSG00000148337 | E036 | 349.9048744 | 0.0001385241 | 8.647354e-01 | 9.168072e-01 | 9 | 128178893 | 128178904 | 12 | - | 2.469 | 2.481 | 0.039 |
| ENSG00000148337 | E037 | 350.8847103 | 0.0001929959 | 5.609700e-01 | 6.888792e-01 | 9 | 128178905 | 128178952 | 48 | - | 2.465 | 2.486 | 0.071 |
| ENSG00000148337 | E038 | 344.9966726 | 0.0004708603 | 6.053187e-03 | 1.875013e-02 | 9 | 128178953 | 128178988 | 36 | - | 2.416 | 2.492 | 0.252 |
| ENSG00000148337 | E039 | 264.8350950 | 0.0142944064 | 4.035246e-01 | 5.473015e-01 | 9 | 128178989 | 128179000 | 12 | - | 2.305 | 2.377 | 0.240 |
| ENSG00000148337 | E040 | 266.2597226 | 0.0103740895 | 3.329991e-01 | 4.766795e-01 | 9 | 128179001 | 128179018 | 18 | - | 2.313 | 2.380 | 0.222 |
| ENSG00000148337 | E041 | 257.7128645 | 0.0001981459 | 3.184039e-02 | 7.554531e-02 | 9 | 128179019 | 128179036 | 18 | - | 2.296 | 2.361 | 0.215 |
| ENSG00000148337 | E042 | 267.2956352 | 0.0002024784 | 2.980380e-01 | 4.394270e-01 | 9 | 128179037 | 128179050 | 14 | - | 2.336 | 2.371 | 0.115 |
| ENSG00000148337 | E043 | 283.7379029 | 0.0001773804 | 6.676917e-01 | 7.748619e-01 | 9 | 128179051 | 128179072 | 22 | - | 2.374 | 2.393 | 0.062 |
| ENSG00000148337 | E044 | 424.1854927 | 0.0018978165 | 8.871544e-01 | 9.318773e-01 | 9 | 128179073 | 128179102 | 30 | - | 2.559 | 2.565 | 0.018 |
| ENSG00000148337 | E045 | 345.1050667 | 0.0001499397 | 4.379613e-01 | 5.798440e-01 | 9 | 128179103 | 128179116 | 14 | - | 2.454 | 2.479 | 0.084 |
| ENSG00000148337 | E046 | 339.4961228 | 0.0006982611 | 6.871957e-01 | 7.895873e-01 | 9 | 128179117 | 128179126 | 10 | - | 2.453 | 2.472 | 0.062 |
| ENSG00000148337 | E047 | 602.0996164 | 0.0012045367 | 2.806108e-01 | 4.204668e-01 | 9 | 128179127 | 128179198 | 72 | - | 2.726 | 2.710 | -0.052 |
| ENSG00000148337 | E048 | 476.8315099 | 0.0031718796 | 1.032346e-01 | 1.954042e-01 | 9 | 128179199 | 128179213 | 15 | - | 2.647 | 2.603 | -0.146 |
| ENSG00000148337 | E049 | 517.0276779 | 0.0019997398 | 1.282199e-01 | 2.316682e-01 | 9 | 128179214 | 128179243 | 30 | - | 2.673 | 2.640 | -0.109 |
| ENSG00000148337 | E050 | 877.0596677 | 0.0021255729 | 6.223774e-02 | 1.304070e-01 | 9 | 128179244 | 128179372 | 129 | - | 2.907 | 2.869 | -0.126 |
| ENSG00000148337 | E051 | 445.2195727 | 0.0019779729 | 7.423536e-02 | 1.503058e-01 | 9 | 128179373 | 128179377 | 5 | - | 2.615 | 2.573 | -0.137 |
| ENSG00000148337 | E052 | 539.4912821 | 0.0026654922 | 4.953283e-02 | 1.083385e-01 | 9 | 128179378 | 128179415 | 38 | - | 2.704 | 2.655 | -0.163 |
| ENSG00000148337 | E053 | 530.5294113 | 0.0011222583 | 1.461744e-04 | 7.306678e-04 | 9 | 128180415 | 128180447 | 33 | - | 2.718 | 2.639 | -0.264 |
| ENSG00000148337 | E054 | 733.4796058 | 0.0019856015 | 1.636106e-04 | 8.075962e-04 | 9 | 128180448 | 128180523 | 76 | - | 2.864 | 2.778 | -0.289 |
| ENSG00000148337 | E055 | 632.3395794 | 0.0021969960 | 2.935512e-04 | 1.353528e-03 | 9 | 128180721 | 128180798 | 78 | - | 2.802 | 2.713 | -0.299 |
| ENSG00000148337 | E056 | 304.9759763 | 0.0040492880 | 3.728476e-02 | 8.600792e-02 | 9 | 128180799 | 128180799 | 1 | - | 2.473 | 2.402 | -0.236 |
| ENSG00000148337 | E057 | 309.7539854 | 0.0038437882 | 1.102278e-01 | 2.058772e-01 | 9 | 128180800 | 128180814 | 15 | - | 2.464 | 2.414 | -0.167 |
| ENSG00000148337 | E058 | 621.1171112 | 0.0032270814 | 5.212410e-04 | 2.239326e-03 | 9 | 128185547 | 128185628 | 82 | - | 2.801 | 2.702 | -0.330 |
| ENSG00000148337 | E059 | 613.3926830 | 0.0013725519 | 2.483108e-08 | 2.842058e-07 | 9 | 128185629 | 128185734 | 106 | - | 2.812 | 2.690 | -0.406 |
| ENSG00000148337 | E060 | 353.0153352 | 0.0008787596 | 1.527044e-08 | 1.819001e-07 | 9 | 128185735 | 128185776 | 42 | - | 2.580 | 2.448 | -0.438 |
| ENSG00000148337 | E061 | 366.8328321 | 0.0004734521 | 1.040726e-06 | 8.602197e-06 | 9 | 128187863 | 128187934 | 72 | - | 2.574 | 2.472 | -0.339 |
| ENSG00000148337 | E062 | 232.9033726 | 0.0014824192 | 1.644275e-03 | 6.102398e-03 | 9 | 128190329 | 128190356 | 28 | - | 2.369 | 2.279 | -0.301 |
| ENSG00000148337 | E063 | 312.8619513 | 0.0019633919 | 1.706164e-03 | 6.301594e-03 | 9 | 128190357 | 128190444 | 88 | - | 2.495 | 2.408 | -0.290 |
| ENSG00000148337 | E064 | 4.1299291 | 0.0041369915 | 4.934977e-04 | 2.135342e-03 | 9 | 128190445 | 128190467 | 23 | - | 0.966 | 0.485 | -2.005 |
| ENSG00000148337 | E065 | 211.1671438 | 0.0024937279 | 1.210557e-02 | 3.378905e-02 | 9 | 128190688 | 128190723 | 36 | - | 2.320 | 2.238 | -0.272 |
| ENSG00000148337 | E066 | 230.3260150 | 0.0040409836 | 4.859757e-04 | 2.106547e-03 | 9 | 128190724 | 128190824 | 101 | - | 2.391 | 2.262 | -0.429 |
| ENSG00000148337 | E067 | 161.4294309 | 0.0061502074 | 2.679174e-05 | 1.612586e-04 | 9 | 128190825 | 128190862 | 38 | - | 2.281 | 2.089 | -0.644 |
| ENSG00000148337 | E068 | 0.4449813 | 0.0215432640 | 1.699365e-01 | 2.881355e-01 | 9 | 128191280 | 128191431 | 152 | - | 0.308 | 0.081 | -2.329 |
| ENSG00000148337 | E069 | 146.6477850 | 0.0116564074 | 4.828039e-05 | 2.730810e-04 | 9 | 128191432 | 128191589 | 158 | - | 2.268 | 2.032 | -0.788 |
| ENSG00000148337 | E070 | 10.7579307 | 0.0016175820 | 9.320890e-02 | 1.801429e-01 | 9 | 128191732 | 128191854 | 123 | - | 1.126 | 0.955 | -0.625 |
| ENSG00000148337 | E071 | 7.6932648 | 0.0138372879 | 8.403510e-01 | 9.003262e-01 | 9 | 128191855 | 128192106 | 252 | - | 0.857 | 0.891 | 0.133 |
| ENSG00000148337 | E072 | 1.7597602 | 0.0080457147 | 1.632585e-01 | 2.794084e-01 | 9 | 128196847 | 128198310 | 1464 | - | 0.181 | 0.455 | 1.844 |
| ENSG00000148337 | E073 | 0.8449086 | 0.0136968632 | 6.833173e-01 | 7.865622e-01 | 9 | 128198311 | 128198367 | 57 | - | 0.181 | 0.260 | 0.673 |
| ENSG00000148337 | E074 | 0.3299976 | 0.0274424043 | 6.005990e-01 | 9 | 128199920 | 128200184 | 265 | - | 0.000 | 0.149 | 11.197 | |
| ENSG00000148337 | E075 | 1.0694743 | 0.0121989077 | 9.356686e-02 | 1.807001e-01 | 9 | 128202764 | 128202936 | 173 | - | 0.000 | 0.349 | 12.784 |
| ENSG00000148337 | E076 | 0.0000000 | 9 | 128204068 | 128204185 | 118 | - | ||||||
| ENSG00000148337 | E077 | 0.5514428 | 0.0197010953 | 3.501412e-01 | 4.943304e-01 | 9 | 128204186 | 128204383 | 198 | - | 0.000 | 0.209 | 11.785 |