Isoforom Switch Analysis
WANG Ziyi
Date: 19 5月 2022
ENSG00000101972
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENST00000371145 | ENSG00000101972 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | STAG2 | protein_coding | protein_coding | 39.75067 | 8.033067 | 75.57321 | 0.9526894 | 1.917569 | 3.232248 | 1.3163599 | 0.06207659 | 4.611057 | 0.0352017 | 0.08981085 | 6.002548 | 0.02026250 | 0.00710000 | 0.061100000 | 0.05400000 | 3.607126e-08 | 9.373351e-19 | FALSE | TRUE |
| ENST00000371157 | ENSG00000101972 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | STAG2 | protein_coding | protein_coding | 39.75067 | 8.033067 | 75.57321 | 0.9526894 | 1.917569 | 3.232248 | 12.2263392 | 0.16676859 | 20.780825 | 0.1667686 | 2.74266488 | 6.877941 | 0.21259583 | 0.02673333 | 0.273633333 | 0.24690000 | 3.387752e-02 | 9.373351e-19 | FALSE | TRUE |
| ENST00000428941 | ENSG00000101972 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | STAG2 | protein_coding | protein_coding | 39.75067 | 8.033067 | 75.57321 | 0.9526894 | 1.917569 | 3.232248 | 3.6323169 | 0.00000000 | 6.974141 | 0.0000000 | 0.67289837 | 9.447939 | 0.05746667 | 0.00000000 | 0.092033333 | 0.09203333 | 1.033200e-15 | 9.373351e-19 | FALSE | FALSE |
| ENST00000688971 | ENSG00000101972 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | STAG2 | protein_coding | retained_intron | 39.75067 | 8.033067 | 75.57321 | 0.9526894 | 1.917569 | 3.232248 | 0.8008031 | 3.19678369 | 0.126717 | 1.6257649 | 0.12671702 | -4.551862 | 0.09353333 | 0.36873333 | 0.001666667 | -0.36706667 | 1.602255e-04 | 9.373351e-19 | FALSE | |
| MSTRG.34847.17 | ENSG00000101972 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | STAG2 | protein_coding | 39.75067 | 8.033067 | 75.57321 | 0.9526894 | 1.917569 | 3.232248 | 2.4793238 | 0.00000000 | 8.823770 | 0.0000000 | 0.79019938 | 9.786885 | 0.04947500 | 0.00000000 | 0.116533333 | 0.11653333 | 9.373351e-19 | 9.373351e-19 | FALSE | TRUE | |
| MSTRG.34847.3 | ENSG00000101972 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | STAG2 | protein_coding | 39.75067 | 8.033067 | 75.57321 | 0.9526894 | 1.917569 | 3.232248 | 2.3989654 | 1.08015628 | 5.082087 | 0.4119412 | 1.47789238 | 2.223722 | 0.11529167 | 0.12546667 | 0.066933333 | -0.05853333 | 4.361388e-01 | 9.373351e-19 | FALSE | TRUE | |
| MSTRG.34847.35 | ENSG00000101972 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | STAG2 | protein_coding | 39.75067 | 8.033067 | 75.57321 | 0.9526894 | 1.917569 | 3.232248 | 2.1891476 | 1.66026733 | 4.627338 | 0.8399741 | 2.31438265 | 1.473218 | 0.08423750 | 0.23516667 | 0.061533333 | -0.17363333 | 8.235488e-01 | 9.373351e-19 | FALSE | TRUE | |
| MSTRG.34847.36 | ENSG00000101972 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | STAG2 | protein_coding | 39.75067 | 8.033067 | 75.57321 | 0.9526894 | 1.917569 | 3.232248 | 3.5120922 | 0.64179516 | 2.727315 | 0.3703709 | 1.39580251 | 2.070271 | 0.12529167 | 0.07360000 | 0.036733333 | -0.03686667 | 9.208659e-01 | 9.373351e-19 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENSG00000101972 | E001 | 0.0000000 | X | 123960088 | 123960211 | 124 | + | ||||||
| ENSG00000101972 | E002 | 0.0000000 | X | 123960212 | 123960288 | 77 | + | ||||||
| ENSG00000101972 | E003 | 0.5963950 | 0.3647651316 | 1.145157e-02 | 3.223911e-02 | X | 123960289 | 123960518 | 230 | + | 0.034 | 0.677 | 5.531 |
| ENSG00000101972 | E004 | 0.8178402 | 0.0465054255 | 1.364618e-04 | 6.878534e-04 | X | 123960519 | 123960559 | 41 | + | 0.034 | 0.793 | 6.010 |
| ENSG00000101972 | E005 | 1.4122460 | 0.1377303602 | 4.628699e-05 | 2.629759e-04 | X | 123960560 | 123960651 | 92 | + | 0.065 | 0.949 | 5.606 |
| ENSG00000101972 | E006 | 2.8303474 | 0.0294432774 | 3.304578e-03 | 1.116199e-02 | X | 123960652 | 123960669 | 18 | + | 0.294 | 0.947 | 3.018 |
| ENSG00000101972 | E007 | 15.2503795 | 0.0012490628 | 3.077675e-01 | 4.500072e-01 | X | 123960670 | 123960694 | 25 | + | 0.918 | 1.188 | 0.985 |
| ENSG00000101972 | E008 | 48.6440026 | 0.0241959508 | 7.346081e-03 | 2.211810e-02 | X | 123960695 | 123960863 | 169 | + | 1.365 | 1.798 | 1.479 |
| ENSG00000101972 | E009 | 24.5431739 | 0.0012064988 | 5.922082e-05 | 3.275872e-04 | X | 123960864 | 123960866 | 3 | + | 1.070 | 1.591 | 1.819 |
| ENSG00000101972 | E010 | 3.4707507 | 0.0157440056 | 1.754267e-03 | 6.453717e-03 | X | 123960867 | 123960942 | 76 | + | 0.345 | 1.007 | 2.918 |
| ENSG00000101972 | E011 | 0.2998086 | 0.0293132175 | 8.122516e-02 | X | 123961314 | 123961317 | 4 | + | 0.034 | 0.363 | 4.015 | |
| ENSG00000101972 | E012 | 3.9953325 | 0.0037546626 | 9.110144e-01 | 9.474774e-01 | X | 123961318 | 123961386 | 69 | + | 0.480 | 0.558 | 0.373 |
| ENSG00000101972 | E013 | 3.7018666 | 0.0043565045 | 4.235440e-01 | 5.665926e-01 | X | 123961387 | 123961388 | 2 | + | 0.468 | 0.363 | -0.568 |
| ENSG00000101972 | E014 | 3.7061330 | 0.0042820244 | 4.236766e-01 | 5.667339e-01 | X | 123961389 | 123961403 | 15 | + | 0.468 | 0.363 | -0.568 |
| ENSG00000101972 | E015 | 3.5504650 | 0.0043578940 | 4.557166e-01 | 5.962179e-01 | X | 123961404 | 123961435 | 32 | + | 0.456 | 0.363 | -0.506 |
| ENSG00000101972 | E016 | 0.1515154 | 0.0427839077 | 5.154083e-01 | X | 123961706 | 123961715 | 10 | + | 0.034 | 0.000 | -9.567 | |
| ENSG00000101972 | E017 | 0.1515154 | 0.0427839077 | 5.154083e-01 | X | 123961716 | 123961717 | 2 | + | 0.034 | 0.000 | -9.567 | |
| ENSG00000101972 | E018 | 0.6017953 | 0.1569319105 | 1.000000e+00 | 1.000000e+00 | X | 123961718 | 123961724 | 7 | + | 0.122 | 0.000 | -11.397 |
| ENSG00000101972 | E019 | 0.6017953 | 0.1569319105 | 1.000000e+00 | 1.000000e+00 | X | 123961725 | 123961725 | 1 | + | 0.122 | 0.000 | -11.397 |
| ENSG00000101972 | E020 | 5.1757423 | 0.0031198182 | 6.053273e-01 | 7.257515e-01 | X | 123961726 | 123961738 | 13 | + | 0.564 | 0.559 | -0.027 |
| ENSG00000101972 | E021 | 16.2280846 | 0.0010491437 | 1.596894e-01 | 2.747048e-01 | X | 123961739 | 123961774 | 36 | + | 0.974 | 0.878 | -0.361 |
| ENSG00000101972 | E022 | 24.5887047 | 0.0007335075 | 5.426163e-02 | 1.167007e-01 | X | 123961775 | 123961785 | 11 | + | 1.139 | 1.007 | -0.479 |
| ENSG00000101972 | E023 | 35.5133673 | 0.0005688789 | 3.141425e-03 | 1.068136e-02 | X | 123961786 | 123961822 | 37 | + | 1.294 | 1.060 | -0.834 |
| ENSG00000101972 | E024 | 43.1328104 | 0.0005042953 | 5.524603e-04 | 2.355991e-03 | X | 123961823 | 123961856 | 34 | + | 1.375 | 1.107 | -0.947 |
| ENSG00000101972 | E025 | 6.9746717 | 0.0034270854 | 3.063644e-01 | 4.485303e-01 | X | 123962033 | 123962078 | 46 | + | 0.666 | 0.558 | -0.475 |
| ENSG00000101972 | E026 | 11.9461215 | 0.0046024949 | 3.891188e-02 | 8.902099e-02 | X | 123962079 | 123962093 | 15 | + | 0.864 | 0.559 | -1.268 |
| ENSG00000101972 | E027 | 12.8360721 | 0.0041001227 | 2.589239e-02 | 6.372256e-02 | X | 123962094 | 123962106 | 13 | + | 0.892 | 0.559 | -1.375 |
| ENSG00000101972 | E028 | 2.5184501 | 0.0059103204 | 1.920090e-01 | 3.162732e-01 | X | 123962107 | 123962246 | 140 | + | 0.376 | 0.000 | -13.440 |
| ENSG00000101972 | E029 | 0.4545463 | 0.6413539287 | 1.000000e+00 | 1.000000e+00 | X | 123963170 | 123963248 | 79 | + | 0.095 | 0.000 | -10.527 |
| ENSG00000101972 | E030 | 0.4545463 | 0.6413539287 | 1.000000e+00 | 1.000000e+00 | X | 123963249 | 123963327 | 79 | + | 0.095 | 0.000 | -10.527 |
| ENSG00000101972 | E031 | 0.0000000 | X | 123963328 | 123963401 | 74 | + | ||||||
| ENSG00000101972 | E032 | 0.0000000 | X | 124003467 | 124003747 | 281 | + | ||||||
| ENSG00000101972 | E033 | 0.1817044 | 0.0413862886 | 2.230590e-02 | X | 124018358 | 124018423 | 66 | + | 0.000 | 0.364 | 15.355 | |
| ENSG00000101972 | E034 | 30.8431180 | 0.0441462945 | 6.009917e-01 | 7.221652e-01 | X | 124021367 | 124021431 | 65 | + | 1.220 | 1.282 | 0.221 |
| ENSG00000101972 | E035 | 87.8531707 | 0.0003130959 | 2.214391e-01 | 3.521302e-01 | X | 124022531 | 124022552 | 22 | + | 1.656 | 1.717 | 0.205 |
| ENSG00000101972 | E036 | 176.8262020 | 0.0002166612 | 2.962150e-03 | 1.015068e-02 | X | 124022553 | 124022671 | 119 | + | 1.960 | 1.954 | -0.019 |
| ENSG00000101972 | E037 | 183.6815180 | 0.0002039038 | 5.346381e-09 | 6.938319e-08 | X | 124025840 | 124025918 | 79 | + | 1.986 | 1.805 | -0.610 |
| ENSG00000101972 | E038 | 9.6276734 | 0.0044688717 | 1.989231e-03 | 7.193516e-03 | X | 124026565 | 124026687 | 123 | + | 0.796 | 0.000 | -15.233 |
| ENSG00000101972 | E039 | 251.9826968 | 0.0001599703 | 6.748427e-14 | 1.964156e-12 | X | 124030961 | 124031125 | 165 | + | 2.123 | 1.901 | -0.746 |
| ENSG00000101972 | E040 | 170.0081920 | 0.0022263701 | 6.984429e-11 | 1.265111e-09 | X | 124037527 | 124037623 | 97 | + | 1.956 | 1.659 | -1.005 |
| ENSG00000101972 | E041 | 0.1515154 | 0.0427839077 | 5.154083e-01 | X | 124037930 | 124037937 | 8 | + | 0.034 | 0.000 | -9.567 | |
| ENSG00000101972 | E042 | 1.7712547 | 0.8574798029 | 1.000000e+00 | 1.000000e+00 | X | 124037938 | 124037969 | 32 | + | 0.294 | 0.000 | -12.395 |
| ENSG00000101972 | E043 | 0.8232405 | 0.1289667820 | 3.754231e-01 | 5.198539e-01 | X | 124040895 | 124042505 | 1611 | + | 0.122 | 0.366 | 2.027 |
| ENSG00000101972 | E044 | 0.4482035 | 0.0257970251 | 1.000000e+00 | 1.000000e+00 | X | 124042506 | 124042568 | 63 | + | 0.094 | 0.000 | -11.121 |
| ENSG00000101972 | E045 | 163.3640590 | 0.0020370936 | 5.843562e-11 | 1.071784e-09 | X | 124042569 | 124042645 | 77 | + | 1.940 | 1.633 | -1.037 |
| ENSG00000101972 | E046 | 221.7711300 | 0.0035928631 | 2.355499e-07 | 2.226980e-06 | X | 124045164 | 124045317 | 154 | + | 2.064 | 1.903 | -0.541 |
| ENSG00000101972 | E047 | 163.5677430 | 0.0002003786 | 1.250589e-07 | 1.247015e-06 | X | 124045318 | 124045368 | 51 | + | 1.934 | 1.768 | -0.558 |
| ENSG00000101972 | E048 | 264.3728260 | 0.0001684230 | 4.250969e-08 | 4.651405e-07 | X | 124047354 | 124047505 | 152 | + | 2.137 | 2.040 | -0.325 |
| ENSG00000101972 | E049 | 181.0388409 | 0.0002446609 | 2.401545e-03 | 8.465890e-03 | X | 124049005 | 124049078 | 74 | + | 1.969 | 1.961 | -0.027 |
| ENSG00000101972 | E050 | 0.5911862 | 0.0193874923 | 1.000000e+00 | 1.000000e+00 | X | 124049079 | 124049798 | 720 | + | 0.122 | 0.000 | -11.507 |
| ENSG00000101972 | E051 | 202.3689489 | 0.0171844132 | 3.200902e-03 | 1.085845e-02 | X | 124050186 | 124050309 | 124 | + | 2.022 | 1.925 | -0.327 |
| ENSG00000101972 | E052 | 192.5481772 | 0.0004967253 | 9.950305e-06 | 6.616319e-05 | X | 124051121 | 124051219 | 99 | + | 2.000 | 1.915 | -0.286 |
| ENSG00000101972 | E053 | 123.8885139 | 0.0087266813 | 1.258686e-03 | 4.838764e-03 | X | 124051315 | 124051394 | 80 | + | 1.812 | 1.696 | -0.393 |
| ENSG00000101972 | E054 | 181.8519320 | 0.0073786922 | 2.876111e-03 | 9.900406e-03 | X | 124056128 | 124056235 | 108 | + | 1.973 | 1.918 | -0.185 |
| ENSG00000101972 | E055 | 217.0095305 | 0.0001638231 | 3.347626e-06 | 2.480921e-05 | X | 124057866 | 124057977 | 112 | + | 2.052 | 1.973 | -0.263 |
| ENSG00000101972 | E056 | 246.3305388 | 0.0001609087 | 1.721515e-06 | 1.358220e-05 | X | 124061224 | 124061341 | 118 | + | 2.105 | 2.035 | -0.234 |
| ENSG00000101972 | E057 | 240.4290589 | 0.0001992832 | 1.705476e-04 | 8.374301e-04 | X | 124061771 | 124061874 | 104 | + | 2.091 | 2.070 | -0.070 |
| ENSG00000101972 | E058 | 217.7336312 | 0.0002726447 | 6.257430e-04 | 2.627505e-03 | X | 124062902 | 124062994 | 93 | + | 2.048 | 2.035 | -0.045 |
| ENSG00000101972 | E059 | 193.9794789 | 0.0011483850 | 2.743980e-02 | 6.688609e-02 | X | 124063116 | 124063205 | 90 | + | 1.995 | 2.030 | 0.120 |
| ENSG00000101972 | E060 | 0.0000000 | X | 124063206 | 124063548 | 343 | + | ||||||
| ENSG00000101972 | E061 | 314.7610606 | 0.0001643920 | 1.308112e-02 | 3.609928e-02 | X | 124063848 | 124064051 | 204 | + | 2.202 | 2.256 | 0.183 |
| ENSG00000101972 | E062 | 192.8391015 | 0.0003701043 | 6.890829e-03 | 2.094109e-02 | X | 124065876 | 124065946 | 71 | + | 1.994 | 2.008 | 0.047 |
| ENSG00000101972 | E063 | 200.5748017 | 0.0002420534 | 7.105846e-02 | 1.450970e-01 | X | 124066175 | 124066262 | 88 | + | 2.008 | 2.070 | 0.211 |
| ENSG00000101972 | E064 | 215.2837590 | 0.0001670263 | 1.309454e-01 | 2.354587e-01 | X | 124066356 | 124066436 | 81 | + | 2.036 | 2.116 | 0.268 |
| ENSG00000101972 | E065 | 244.7337172 | 0.0001704633 | 4.455827e-03 | 1.441796e-02 | X | 124068564 | 124068656 | 93 | + | 2.096 | 2.121 | 0.083 |
| ENSG00000101972 | E066 | 303.5602984 | 0.0005224485 | 6.484703e-02 | 1.347861e-01 | X | 124071149 | 124071323 | 175 | + | 2.184 | 2.260 | 0.254 |
| ENSG00000101972 | E067 | 237.9829436 | 0.0002118081 | 4.117082e-01 | 5.552575e-01 | X | 124076332 | 124076471 | 140 | + | 2.076 | 2.188 | 0.377 |
| ENSG00000101972 | E068 | 0.1451727 | 0.0428561948 | 5.147692e-01 | X | 124076472 | 124077050 | 579 | + | 0.034 | 0.000 | -9.567 | |
| ENSG00000101972 | E069 | 220.9017878 | 0.0004713899 | 3.021812e-01 | 4.440324e-01 | X | 124077957 | 124078058 | 102 | + | 2.045 | 2.146 | 0.338 |
| ENSG00000101972 | E070 | 267.2663526 | 0.0001799916 | 1.196195e-01 | 2.194249e-01 | X | 124081380 | 124081528 | 149 | + | 2.128 | 2.213 | 0.285 |
| ENSG00000101972 | E071 | 250.4083469 | 0.0242770182 | 2.673420e-01 | 4.056542e-01 | X | 124083421 | 124083549 | 129 | + | 2.102 | 2.173 | 0.239 |
| ENSG00000101972 | E072 | 1.1823723 | 0.0113445534 | 6.282238e-01 | 7.437980e-01 | X | 124083550 | 124085400 | 1851 | + | 0.217 | 0.000 | -12.440 |
| ENSG00000101972 | E073 | 0.7363589 | 0.0155987445 | 1.000000e+00 | 1.000000e+00 | X | 124085401 | 124085760 | 360 | + | 0.147 | 0.000 | -11.804 |
| ENSG00000101972 | E074 | 376.2185804 | 0.0001505272 | 1.992927e-03 | 7.204541e-03 | X | 124086547 | 124086770 | 224 | + | 2.279 | 2.321 | 0.138 |
| ENSG00000101972 | E075 | 379.6647485 | 0.0079472465 | 3.065627e-01 | 4.487547e-01 | X | 124090575 | 124090764 | 190 | + | 2.280 | 2.373 | 0.313 |
| ENSG00000101972 | E076 | 0.2966881 | 0.0290785164 | 1.000000e+00 | X | 124090765 | 124090853 | 89 | + | 0.065 | 0.000 | -10.548 | |
| ENSG00000101972 | E077 | 53.4562604 | 0.0004399880 | 1.357728e-01 | 2.421786e-01 | X | 124090854 | 124090964 | 111 | + | 1.447 | 1.455 | 0.026 |
| ENSG00000101972 | E078 | 0.8877725 | 0.0153083026 | 7.651979e-02 | 1.539242e-01 | X | 124093475 | 124093503 | 29 | + | 0.122 | 0.558 | 3.015 |
| ENSG00000101972 | E079 | 4.0488161 | 0.0134273356 | 5.781243e-01 | 7.032856e-01 | X | 124093504 | 124094017 | 514 | + | 0.469 | 0.692 | 1.015 |
| ENSG00000101972 | E080 | 378.7900349 | 0.0217656128 | 1.916178e-01 | 3.157854e-01 | X | 124094018 | 124094144 | 127 | + | 2.282 | 2.335 | 0.177 |
| ENSG00000101972 | E081 | 300.8429502 | 0.0178986918 | 4.135696e-01 | 5.570353e-01 | X | 124095372 | 124095449 | 78 | + | 2.179 | 2.273 | 0.315 |
| ENSG00000101972 | E082 | 11.7801684 | 0.0014447475 | 1.309185e-01 | 2.354272e-01 | X | 124095450 | 124097163 | 1714 | + | 0.854 | 0.693 | -0.645 |
| ENSG00000101972 | E083 | 1312.8933777 | 0.0388932014 | 2.171343e-09 | 3.022886e-08 | X | 124100574 | 124102656 | 2083 | + | 2.737 | 3.366 | 2.093 |
| ENSG00000101972 | E084 | 0.0000000 | X | 124411822 | 124412090 | 269 | + | ||||||
| ENSG00000101972 | E085 | 0.0000000 | X | 124422398 | 124422664 | 267 | + |