Isoforom Switch Analysis
WANG Ziyi
Date: 19 5月 2022
ENSG00000122566
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| MSTRG.29609.53 | ENSG00000122566 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | HNRNPA2B1 | protein_coding | 719.9482 | 551.8181 | 886.3637 | 17.32272 | 21.76471 | 0.683696 | 43.18655 | 21.38394 | 70.10913 | 2.376991 | 6.924807 | 1.7126059 | 0.05637917 | 0.03890000 | 0.07883333 | 0.039933333 | 0.0019534122 | 2.231076e-26 | FALSE | TRUE | |
| MSTRG.29609.62 | ENSG00000122566 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | HNRNPA2B1 | protein_coding | 719.9482 | 551.8181 | 886.3637 | 17.32272 | 21.76471 | 0.683696 | 152.45513 | 167.31761 | 142.41433 | 24.041319 | 5.390297 | -0.2324799 | 0.22879583 | 0.30116667 | 0.16056667 | -0.140600000 | 0.0014351461 | 2.231076e-26 | TRUE | TRUE | |
| MSTRG.29609.63 | ENSG00000122566 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | HNRNPA2B1 | protein_coding | 719.9482 | 551.8181 | 886.3637 | 17.32272 | 21.76471 | 0.683696 | 110.46421 | 30.92146 | 166.74021 | 6.582989 | 9.349580 | 2.4305417 | 0.13747500 | 0.05656667 | 0.18866667 | 0.132100000 | 0.0004012961 | 2.231076e-26 | TRUE | TRUE | |
| MSTRG.29609.67 | ENSG00000122566 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | HNRNPA2B1 | protein_coding | 719.9482 | 551.8181 | 886.3637 | 17.32272 | 21.76471 | 0.683696 | 103.81642 | 89.84032 | 110.84701 | 7.449603 | 5.097356 | 0.3031045 | 0.14717083 | 0.16386667 | 0.12506667 | -0.038800000 | 0.2869153227 | 2.231076e-26 | FALSE | TRUE | |
| MSTRG.29609.70 | ENSG00000122566 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | HNRNPA2B1 | protein_coding | 719.9482 | 551.8181 | 886.3637 | 17.32272 | 21.76471 | 0.683696 | 255.39166 | 208.26264 | 327.80467 | 2.647502 | 11.687880 | 0.6544071 | 0.35459167 | 0.37790000 | 0.36963333 | -0.008266667 | 0.8424597191 | 2.231076e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENSG00000122566 | E001 | 1.244940 | 0.0228038382 | 3.107646e-01 | 4.531931e-01 | 7 | 26171151 | 26171198 | 48 | - | 0.427 | 0.245 | -1.139 |
| ENSG00000122566 | E002 | 3.097815 | 0.0084250636 | 7.991250e-01 | 8.718642e-01 | 7 | 26171199 | 26171417 | 219 | - | 0.638 | 0.606 | -0.143 |
| ENSG00000122566 | E003 | 2.684166 | 0.0063334085 | 1.190369e-01 | 2.185700e-01 | 7 | 26171418 | 26171538 | 121 | - | 0.427 | 0.681 | 1.181 |
| ENSG00000122566 | E004 | 1.029835 | 0.0122164482 | 2.440603e-01 | 3.789778e-01 | 7 | 26171539 | 26171541 | 3 | - | 0.193 | 0.401 | 1.445 |
| ENSG00000122566 | E005 | 1.396439 | 0.2872566772 | 7.010058e-02 | 1.435343e-01 | 7 | 26171680 | 26171685 | 6 | - | 0.107 | 0.534 | 3.113 |
| ENSG00000122566 | E006 | 2.124290 | 0.0663459303 | 1.281674e-01 | 2.316086e-01 | 7 | 26171686 | 26171847 | 162 | - | 0.325 | 0.610 | 1.463 |
| ENSG00000122566 | E007 | 3.638950 | 0.0655511989 | 7.589448e-01 | 8.434170e-01 | 7 | 26173057 | 26173570 | 514 | - | 0.638 | 0.684 | 0.195 |
| ENSG00000122566 | E008 | 2.401296 | 0.0063013873 | 1.110473e-01 | 2.070797e-01 | 7 | 26173571 | 26173593 | 23 | - | 0.379 | 0.645 | 1.293 |
| ENSG00000122566 | E009 | 64.615160 | 0.0121342134 | 1.567706e-04 | 7.773170e-04 | 7 | 26173594 | 26174670 | 1077 | - | 1.670 | 1.945 | 0.928 |
| ENSG00000122566 | E010 | 17.062522 | 0.0240047304 | 2.228586e-01 | 3.537811e-01 | 7 | 26174671 | 26174782 | 112 | - | 1.191 | 1.334 | 0.502 |
| ENSG00000122566 | E011 | 31.437962 | 0.0212160079 | 6.367858e-05 | 3.494298e-04 | 7 | 26184073 | 26184535 | 463 | - | 1.652 | 1.264 | -1.337 |
| ENSG00000122566 | E012 | 44.072845 | 0.0112681727 | 2.027048e-06 | 1.574942e-05 | 7 | 26184536 | 26185036 | 501 | - | 1.786 | 1.423 | -1.237 |
| ENSG00000122566 | E013 | 9.871852 | 0.0017053174 | 3.900354e-05 | 2.254099e-04 | 7 | 26185037 | 26185039 | 3 | - | 1.198 | 0.745 | -1.699 |
| ENSG00000122566 | E014 | 9.350598 | 0.0017608634 | 8.892315e-06 | 5.983174e-05 | 7 | 26185040 | 26185041 | 2 | - | 1.191 | 0.681 | -1.935 |
| ENSG00000122566 | E015 | 23.569510 | 0.0007622316 | 4.540338e-11 | 8.484449e-10 | 7 | 26185042 | 26185198 | 157 | - | 1.561 | 1.051 | -1.790 |
| ENSG00000122566 | E016 | 14.539379 | 0.0011815526 | 1.720213e-03 | 6.346182e-03 | 7 | 26185199 | 26185247 | 49 | - | 1.300 | 1.021 | -0.999 |
| ENSG00000122566 | E017 | 11.577564 | 0.0014744320 | 1.085354e-03 | 4.253913e-03 | 7 | 26185248 | 26185279 | 32 | - | 1.221 | 0.894 | -1.193 |
| ENSG00000122566 | E018 | 3.339639 | 0.0461244645 | 9.729402e-03 | 2.809637e-02 | 7 | 26189666 | 26189708 | 43 | - | 0.800 | 0.330 | -2.223 |
| ENSG00000122566 | E019 | 2.306592 | 0.1580337151 | 1.900708e-01 | 3.138638e-01 | 7 | 26189709 | 26189730 | 22 | - | 0.640 | 0.329 | -1.569 |
| ENSG00000122566 | E020 | 9.601718 | 0.0447001164 | 1.590109e-02 | 4.251399e-02 | 7 | 26189731 | 26189917 | 187 | - | 1.159 | 0.799 | -1.341 |
| ENSG00000122566 | E021 | 5.475458 | 0.0031117446 | 3.853797e-02 | 8.834374e-02 | 7 | 26189918 | 26189926 | 9 | - | 0.917 | 0.645 | -1.086 |
| ENSG00000122566 | E022 | 5.852597 | 0.0445974203 | 3.158916e-01 | 4.586714e-01 | 7 | 26189927 | 26189932 | 6 | - | 0.902 | 0.744 | -0.618 |
| ENSG00000122566 | E023 | 5.425601 | 0.0801156191 | 1.443565e-01 | 2.539432e-01 | 7 | 26189933 | 26189940 | 8 | - | 0.918 | 0.643 | -1.103 |
| ENSG00000122566 | E024 | 5.280428 | 0.1082398439 | 2.171226e-01 | 3.469226e-01 | 7 | 26189941 | 26189941 | 1 | - | 0.904 | 0.642 | -1.051 |
| ENSG00000122566 | E025 | 5.280428 | 0.1082398439 | 2.171226e-01 | 3.469226e-01 | 7 | 26189942 | 26189942 | 1 | - | 0.904 | 0.642 | -1.051 |
| ENSG00000122566 | E026 | 6.017831 | 0.0640343364 | 1.027983e-01 | 1.947561e-01 | 7 | 26189943 | 26189956 | 14 | - | 0.960 | 0.678 | -1.110 |
| ENSG00000122566 | E027 | 30.030677 | 0.0008741256 | 7.946433e-01 | 8.688084e-01 | 7 | 26189957 | 26190028 | 72 | - | 1.477 | 1.502 | 0.084 |
| ENSG00000122566 | E028 | 31.166755 | 0.0007186471 | 7.138409e-02 | 1.456317e-01 | 7 | 26190029 | 26190051 | 23 | - | 1.444 | 1.565 | 0.414 |
| ENSG00000122566 | E029 | 31.413015 | 0.0011125531 | 1.548230e-02 | 4.158976e-02 | 7 | 26190052 | 26190117 | 66 | - | 1.426 | 1.586 | 0.550 |
| ENSG00000122566 | E030 | 17.869832 | 0.0134675728 | 5.202263e-02 | 1.127558e-01 | 7 | 26190118 | 26190123 | 6 | - | 1.167 | 1.364 | 0.692 |
| ENSG00000122566 | E031 | 15.384986 | 0.0148537730 | 3.400858e-02 | 7.977742e-02 | 7 | 26190124 | 26190124 | 1 | - | 1.085 | 1.311 | 0.804 |
| ENSG00000122566 | E032 | 17.553094 | 0.0025434782 | 9.764439e-04 | 3.879299e-03 | 7 | 26190125 | 26190128 | 4 | - | 1.104 | 1.390 | 1.007 |
| ENSG00000122566 | E033 | 14.608786 | 0.0023471899 | 2.177694e-03 | 7.772520e-03 | 7 | 26190129 | 26190131 | 3 | - | 1.032 | 1.317 | 1.016 |
| ENSG00000122566 | E034 | 16.026333 | 0.0069476861 | 1.763802e-02 | 4.635704e-02 | 7 | 26190132 | 26190148 | 17 | - | 1.104 | 1.333 | 0.808 |
| ENSG00000122566 | E035 | 21.307289 | 0.0032026255 | 4.291838e-01 | 5.719200e-01 | 7 | 26190149 | 26190181 | 33 | - | 1.312 | 1.383 | 0.245 |
| ENSG00000122566 | E036 | 21.263052 | 0.0014593020 | 3.918838e-01 | 5.358287e-01 | 7 | 26190182 | 26190182 | 1 | - | 1.373 | 1.317 | -0.196 |
| ENSG00000122566 | E037 | 263.411681 | 0.0003344844 | 8.441343e-05 | 4.489325e-04 | 7 | 26190183 | 26190303 | 121 | - | 2.459 | 2.374 | -0.283 |
| ENSG00000122566 | E038 | 379.411048 | 0.0002902955 | 6.382921e-07 | 5.528897e-06 | 7 | 26190304 | 26190395 | 92 | - | 2.620 | 2.528 | -0.307 |
| ENSG00000122566 | E039 | 391.229025 | 0.0027254050 | 8.058333e-02 | 1.604663e-01 | 7 | 26190396 | 26190456 | 61 | - | 2.614 | 2.568 | -0.154 |
| ENSG00000122566 | E040 | 251.884184 | 0.0023316165 | 2.910808e-01 | 4.319156e-01 | 7 | 26190457 | 26190460 | 4 | - | 2.414 | 2.390 | -0.081 |
| ENSG00000122566 | E041 | 36.850339 | 0.0007904587 | 6.699193e-07 | 5.775391e-06 | 7 | 26190461 | 26190483 | 23 | - | 1.695 | 1.403 | -1.000 |
| ENSG00000122566 | E042 | 206.446781 | 0.0079144924 | 6.105579e-14 | 1.788594e-12 | 7 | 26190484 | 26190992 | 509 | - | 2.456 | 2.074 | -1.277 |
| ENSG00000122566 | E043 | 278.937432 | 0.0010278142 | 2.011591e-03 | 7.262175e-03 | 7 | 26190993 | 26191055 | 63 | - | 2.479 | 2.405 | -0.246 |
| ENSG00000122566 | E044 | 342.412781 | 0.0013022696 | 1.274823e-02 | 3.532004e-02 | 7 | 26191056 | 26191128 | 73 | - | 2.560 | 2.502 | -0.192 |
| ENSG00000122566 | E045 | 322.462482 | 0.0072166347 | 9.645512e-04 | 3.837281e-03 | 7 | 26191129 | 26191421 | 293 | - | 2.570 | 2.425 | -0.484 |
| ENSG00000122566 | E046 | 322.702388 | 0.0068249737 | 3.180037e-08 | 3.562044e-07 | 7 | 26191422 | 26191650 | 229 | - | 2.607 | 2.361 | -0.822 |
| ENSG00000122566 | E047 | 203.551092 | 0.0052863251 | 1.194716e-12 | 2.895795e-11 | 7 | 26191651 | 26191785 | 135 | - | 2.428 | 2.115 | -1.047 |
| ENSG00000122566 | E048 | 136.112444 | 0.0003893165 | 4.249658e-01 | 5.679171e-01 | 7 | 26191786 | 26191847 | 62 | - | 2.145 | 2.128 | -0.058 |
| ENSG00000122566 | E049 | 220.075671 | 0.0013303625 | 3.096715e-16 | 1.254358e-14 | 7 | 26191848 | 26191877 | 30 | - | 2.209 | 2.463 | 0.847 |
| ENSG00000122566 | E050 | 203.247968 | 0.0018961464 | 5.247929e-20 | 3.331784e-18 | 7 | 26191878 | 26191879 | 2 | - | 2.138 | 2.451 | 1.045 |
| ENSG00000122566 | E051 | 11408.042604 | 0.0017380899 | 2.315324e-18 | 1.218758e-16 | 7 | 26191880 | 26192300 | 421 | - | 3.964 | 4.141 | 0.588 |
| ENSG00000122566 | E052 | 5258.564429 | 0.0007018630 | 1.782867e-22 | 1.500484e-20 | 7 | 26192301 | 26192338 | 38 | - | 3.649 | 3.790 | 0.469 |
| ENSG00000122566 | E053 | 247.765482 | 0.0002160673 | 1.080025e-52 | 7.663203e-50 | 7 | 26192339 | 26192494 | 156 | - | 2.532 | 2.156 | -1.253 |
| ENSG00000122566 | E054 | 4132.958902 | 0.0005190904 | 2.559495e-22 | 2.114647e-20 | 7 | 26192495 | 26192528 | 34 | - | 3.551 | 3.679 | 0.425 |
| ENSG00000122566 | E055 | 4434.926753 | 0.0010188623 | 2.936429e-08 | 3.310114e-07 | 7 | 26192529 | 26192577 | 49 | - | 3.598 | 3.696 | 0.327 |
| ENSG00000122566 | E056 | 76.462224 | 0.0003576603 | 1.281443e-01 | 2.315758e-01 | 7 | 26192578 | 26193250 | 673 | - | 1.912 | 1.857 | -0.184 |
| ENSG00000122566 | E057 | 7482.325579 | 0.0004638785 | 1.392497e-05 | 8.948891e-05 | 7 | 26193251 | 26193373 | 123 | - | 3.847 | 3.902 | 0.184 |
| ENSG00000122566 | E058 | 54.820379 | 0.0035993344 | 2.864611e-01 | 4.268561e-01 | 7 | 26193374 | 26193574 | 201 | - | 1.773 | 1.723 | -0.171 |
| ENSG00000122566 | E059 | 4393.595583 | 0.0005695281 | 1.435493e-01 | 2.528450e-01 | 7 | 26193575 | 26193598 | 24 | - | 3.630 | 3.657 | 0.090 |
| ENSG00000122566 | E060 | 4261.516375 | 0.0009667646 | 5.181860e-01 | 6.524577e-01 | 7 | 26193599 | 26193634 | 36 | - | 3.620 | 3.639 | 0.063 |
| ENSG00000122566 | E061 | 3014.942595 | 0.0014719100 | 7.840840e-01 | 8.614982e-01 | 7 | 26193635 | 26193652 | 18 | - | 3.472 | 3.487 | 0.048 |
| ENSG00000122566 | E062 | 3584.550598 | 0.0006104007 | 8.371567e-02 | 1.653600e-01 | 7 | 26193653 | 26193679 | 27 | - | 3.539 | 3.571 | 0.104 |
| ENSG00000122566 | E063 | 3547.786362 | 0.0004664109 | 1.218192e-02 | 3.396611e-02 | 7 | 26193680 | 26193694 | 15 | - | 3.531 | 3.569 | 0.127 |
| ENSG00000122566 | E064 | 39.317478 | 0.0197015599 | 2.507392e-01 | 3.868098e-01 | 7 | 26195712 | 26195846 | 135 | - | 1.647 | 1.547 | -0.339 |
| ENSG00000122566 | E065 | 6800.745771 | 0.0006371014 | 3.482043e-01 | 4.924215e-01 | 7 | 26195847 | 26195909 | 63 | - | 3.823 | 3.842 | 0.065 |
| ENSG00000122566 | E066 | 8683.490297 | 0.0006186274 | 2.979059e-03 | 1.020162e-02 | 7 | 26196401 | 26196481 | 81 | - | 3.951 | 3.922 | -0.097 |
| ENSG00000122566 | E067 | 8808.996706 | 0.0005465194 | 2.317293e-01 | 3.645094e-01 | 7 | 26196557 | 26196653 | 97 | - | 3.948 | 3.940 | -0.026 |
| ENSG00000122566 | E068 | 4484.939279 | 0.0005770050 | 1.801848e-02 | 4.717233e-02 | 7 | 26196654 | 26196658 | 5 | - | 3.662 | 3.638 | -0.082 |
| ENSG00000122566 | E069 | 2.013665 | 0.0897352817 | 2.335139e-01 | 3.665799e-01 | 7 | 26196659 | 26196806 | 148 | - | 0.578 | 0.331 | -1.286 |
| ENSG00000122566 | E070 | 7222.972756 | 0.0008242226 | 3.408249e-02 | 7.991615e-02 | 7 | 26196807 | 26196877 | 71 | - | 3.870 | 3.844 | -0.083 |
| ENSG00000122566 | E071 | 9490.014870 | 0.0007991663 | 5.840970e-03 | 1.819332e-02 | 7 | 26196878 | 26197017 | 140 | - | 3.992 | 3.959 | -0.108 |
| ENSG00000122566 | E072 | 50.352849 | 0.0292946283 | 2.106196e-01 | 3.392704e-01 | 7 | 26197018 | 26197314 | 297 | - | 1.768 | 1.632 | -0.460 |
| ENSG00000122566 | E073 | 9003.442621 | 0.0009894092 | 8.664103e-07 | 7.294053e-06 | 7 | 26197315 | 26197461 | 147 | - | 3.985 | 3.915 | -0.231 |
| ENSG00000122566 | E074 | 7516.706020 | 0.0014180998 | 1.394984e-06 | 1.122428e-05 | 7 | 26197622 | 26197730 | 109 | - | 3.912 | 3.829 | -0.276 |
| ENSG00000122566 | E075 | 2970.491857 | 0.0021170208 | 2.475434e-06 | 1.887861e-05 | 7 | 26197731 | 26197732 | 2 | - | 3.519 | 3.412 | -0.355 |
| ENSG00000122566 | E076 | 33.357917 | 0.0066882349 | 2.802380e-09 | 3.826653e-08 | 7 | 26197733 | 26197830 | 98 | - | 1.693 | 1.239 | -1.566 |
| ENSG00000122566 | E077 | 1187.926879 | 0.0065074873 | 1.420815e-05 | 9.109553e-05 | 7 | 26197831 | 26197866 | 36 | - | 3.149 | 2.971 | -0.590 |
| ENSG00000122566 | E078 | 202.953850 | 0.0003023884 | 1.933986e-102 | 6.317030e-99 | 7 | 26197867 | 26199188 | 1322 | - | 2.506 | 1.860 | -2.162 |
| ENSG00000122566 | E079 | 166.061787 | 0.0006861031 | 1.641247e-143 | 1.636470e-139 | 7 | 26199189 | 26200571 | 1383 | - | 2.464 | 1.416 | -3.533 |
| ENSG00000122566 | E080 | 5873.396720 | 0.0039258706 | 2.123575e-04 | 1.016820e-03 | 7 | 26200572 | 26201529 | 958 | - | 3.816 | 3.708 | -0.359 |