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_6hA | HEK293_TMG_6hB | HNRNPA2B1 | protein_coding | 719.9482 | 564.8071 | 963.667 | 63.32289 | 22.37353 | 0.770766 | 43.18655 | 30.67228 | 65.79721 | 3.204424 | 2.132972 | 1.1008402 | 0.05637917 | 0.05446667 | 0.06843333 | 0.013966667 | 0.363836625 | 6.722141e-19 | FALSE | TRUE | |
| MSTRG.29609.62 | ENSG00000122566 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | HNRNPA2B1 | protein_coding | 719.9482 | 564.8071 | 963.667 | 63.32289 | 22.37353 | 0.770766 | 152.45513 | 158.09137 | 177.83331 | 9.742211 | 7.340227 | 0.1697569 | 0.22879583 | 0.28356667 | 0.18446667 | -0.099100000 | 0.006439573 | 6.722141e-19 | TRUE | TRUE | |
| MSTRG.29609.63 | ENSG00000122566 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | HNRNPA2B1 | protein_coding | 719.9482 | 564.8071 | 963.667 | 63.32289 | 22.37353 | 0.770766 | 110.46421 | 65.32703 | 170.12602 | 9.574999 | 13.703455 | 1.3807158 | 0.13747500 | 0.11700000 | 0.17620000 | 0.059200000 | 0.314782669 | 6.722141e-19 | TRUE | TRUE | |
| MSTRG.29609.67 | ENSG00000122566 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | HNRNPA2B1 | protein_coding | 719.9482 | 564.8071 | 963.667 | 63.32289 | 22.37353 | 0.770766 | 103.81642 | 85.84816 | 138.38604 | 18.537228 | 3.308314 | 0.6887754 | 0.14717083 | 0.14813333 | 0.14376667 | -0.004366667 | 1.000000000 | 6.722141e-19 | FALSE | TRUE | |
| MSTRG.29609.70 | ENSG00000122566 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | HNRNPA2B1 | protein_coding | 719.9482 | 564.8071 | 963.667 | 63.32289 | 22.37353 | 0.770766 | 255.39166 | 189.82004 | 326.52507 | 29.417119 | 12.523633 | 0.7825296 | 0.35459167 | 0.33240000 | 0.33860000 | 0.006200000 | 0.979419715 | 6.722141e-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_6hB | HEK293_OSMI2_6hA | log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENSG00000122566 | E001 | 2.966449e+00 | 7.946251e-02 | 7.958371e-01 | 8.939474e-01 | 7 | 26171151 | 26171198 | 48 | - | 0.614 | 0.556 | -0.262 |
| ENSG00000122566 | E002 | 3.960690e+00 | 5.522797e-02 | 4.258801e-01 | 6.479215e-01 | 7 | 26171199 | 26171417 | 219 | - | 0.741 | 0.599 | -0.602 |
| ENSG00000122566 | E003 | 2.665332e+00 | 8.938578e-03 | 4.058001e-02 | 1.562680e-01 | 7 | 26171418 | 26171538 | 121 | - | 0.380 | 0.708 | 1.553 |
| ENSG00000122566 | E004 | 2.041471e+00 | 1.099984e-02 | 2.627159e-02 | 1.161256e-01 | 7 | 26171539 | 26171541 | 3 | - | 0.265 | 0.639 | 2.001 |
| ENSG00000122566 | E005 | 9.991572e-01 | 2.148129e-01 | 8.213824e-01 | 7 | 26171680 | 26171685 | 6 | - | 0.265 | 0.329 | 0.432 | |
| ENSG00000122566 | E006 | 3.464415e+00 | 1.203223e-01 | 9.807406e-01 | 9.921328e-01 | 7 | 26171686 | 26171847 | 162 | - | 0.642 | 0.641 | -0.003 |
| ENSG00000122566 | E007 | 4.074564e+00 | 9.768510e-03 | 2.022963e-02 | 9.667538e-02 | 7 | 26173057 | 26173570 | 514 | - | 0.819 | 0.457 | -1.583 |
| ENSG00000122566 | E008 | 1.518261e+00 | 8.846147e-02 | 3.515562e-01 | 5.886714e-01 | 7 | 26173571 | 26173593 | 23 | - | 0.324 | 0.507 | 0.996 |
| ENSG00000122566 | E009 | 5.181811e+01 | 8.402727e-03 | 6.075322e-01 | 7.752351e-01 | 7 | 26173594 | 26174670 | 1077 | - | 1.737 | 1.708 | -0.098 |
| ENSG00000122566 | E010 | 1.836138e+01 | 1.918965e-03 | 8.052856e-01 | 8.993303e-01 | 7 | 26174671 | 26174782 | 112 | - | 1.295 | 1.275 | -0.069 |
| ENSG00000122566 | E011 | 1.508260e+01 | 4.948317e-01 | 6.191834e-01 | 7.832579e-01 | 7 | 26184073 | 26184535 | 463 | - | 1.201 | 1.207 | 0.022 |
| ENSG00000122566 | E012 | 1.819279e+01 | 5.657323e-01 | 6.628330e-01 | 8.116428e-01 | 7 | 26184536 | 26185036 | 501 | - | 1.285 | 1.273 | -0.043 |
| ENSG00000122566 | E013 | 4.800495e+00 | 1.139881e-01 | 2.446456e-01 | 4.818153e-01 | 7 | 26185037 | 26185039 | 3 | - | 0.659 | 0.869 | 0.842 |
| ENSG00000122566 | E014 | 4.508212e+00 | 1.254363e-01 | 2.378211e-01 | 4.740427e-01 | 7 | 26185040 | 26185041 | 2 | - | 0.632 | 0.848 | 0.882 |
| ENSG00000122566 | E015 | 1.038579e+01 | 3.128915e-01 | 3.636410e-01 | 5.987164e-01 | 7 | 26185042 | 26185198 | 157 | - | 0.979 | 1.135 | 0.569 |
| ENSG00000122566 | E016 | 6.067301e+00 | 2.201289e-01 | 3.369432e-01 | 5.753253e-01 | 7 | 26185199 | 26185247 | 49 | - | 0.750 | 0.951 | 0.777 |
| ENSG00000122566 | E017 | 4.699122e+00 | 1.604724e-01 | 3.258095e-01 | 5.650584e-01 | 7 | 26185248 | 26185279 | 32 | - | 0.660 | 0.850 | 0.765 |
| ENSG00000122566 | E018 | 3.296936e+00 | 7.261661e-03 | 2.378538e-02 | 1.084435e-01 | 7 | 26189666 | 26189708 | 43 | - | 0.760 | 0.396 | -1.673 |
| ENSG00000122566 | E019 | 2.009966e+00 | 1.191124e-02 | 5.116531e-01 | 7.092563e-01 | 7 | 26189709 | 26189730 | 22 | - | 0.510 | 0.396 | -0.585 |
| ENSG00000122566 | E020 | 8.474823e+00 | 3.308362e-03 | 8.697180e-05 | 1.329655e-03 | 7 | 26189731 | 26189917 | 187 | - | 1.124 | 0.639 | -1.876 |
| ENSG00000122566 | E021 | 5.239649e+00 | 5.658128e-03 | 1.087819e-02 | 6.185102e-02 | 7 | 26189918 | 26189926 | 9 | - | 0.917 | 0.557 | -1.480 |
| ENSG00000122566 | E022 | 5.073481e+00 | 1.165387e-02 | 1.005870e-01 | 2.828433e-01 | 7 | 26189927 | 26189932 | 6 | - | 0.871 | 0.638 | -0.945 |
| ENSG00000122566 | E023 | 5.204350e+00 | 1.486735e-02 | 1.611784e-01 | 3.785522e-01 | 7 | 26189933 | 26189940 | 8 | - | 0.871 | 0.673 | -0.795 |
| ENSG00000122566 | E024 | 4.544332e+00 | 3.299885e-02 | 4.065199e-01 | 6.334291e-01 | 7 | 26189941 | 26189941 | 1 | - | 0.800 | 0.672 | -0.525 |
| ENSG00000122566 | E025 | 4.544332e+00 | 3.299885e-02 | 4.065199e-01 | 6.334291e-01 | 7 | 26189942 | 26189942 | 1 | - | 0.800 | 0.672 | -0.525 |
| ENSG00000122566 | E026 | 5.382333e+00 | 1.156781e-02 | 1.226784e-01 | 3.199946e-01 | 7 | 26189943 | 26189956 | 14 | - | 0.887 | 0.673 | -0.856 |
| ENSG00000122566 | E027 | 1.589514e+01 | 2.429475e-03 | 1.340032e-01 | 3.380898e-01 | 7 | 26189957 | 26190028 | 72 | - | 1.270 | 1.136 | -0.475 |
| ENSG00000122566 | E028 | 1.403508e+01 | 1.703242e-02 | 1.940509e-01 | 4.221933e-01 | 7 | 26190029 | 26190051 | 23 | - | 1.222 | 1.076 | -0.525 |
| ENSG00000122566 | E029 | 1.382655e+01 | 1.158852e-02 | 2.654013e-01 | 5.047738e-01 | 7 | 26190052 | 26190117 | 66 | - | 1.207 | 1.088 | -0.427 |
| ENSG00000122566 | E030 | 6.537712e+00 | 1.093771e-01 | 9.363111e-01 | 9.703724e-01 | 7 | 26190118 | 26190123 | 6 | - | 0.858 | 0.874 | 0.061 |
| ENSG00000122566 | E031 | 5.712522e+00 | 6.017456e-02 | 7.058236e-01 | 8.392444e-01 | 7 | 26190124 | 26190124 | 1 | - | 0.783 | 0.847 | 0.248 |
| ENSG00000122566 | E032 | 6.664376e+00 | 1.792454e-02 | 2.684522e-01 | 5.081236e-01 | 7 | 26190125 | 26190128 | 4 | - | 0.801 | 0.947 | 0.560 |
| ENSG00000122566 | E033 | 6.373310e+00 | 4.260416e-02 | 7.796494e-02 | 2.407402e-01 | 7 | 26190129 | 26190131 | 3 | - | 0.718 | 0.984 | 1.033 |
| ENSG00000122566 | E034 | 8.085979e+00 | 4.973498e-02 | 2.080896e-02 | 9.870509e-02 | 7 | 26190132 | 26190148 | 17 | - | 0.763 | 1.103 | 1.284 |
| ENSG00000122566 | E035 | 1.716911e+01 | 5.230802e-03 | 4.765523e-01 | 6.846746e-01 | 7 | 26190149 | 26190181 | 33 | - | 1.283 | 1.220 | -0.220 |
| ENSG00000122566 | E036 | 2.114924e+01 | 2.093034e-03 | 4.815334e-01 | 6.881235e-01 | 7 | 26190182 | 26190182 | 1 | - | 1.363 | 1.309 | -0.191 |
| ENSG00000122566 | E037 | 2.549909e+02 | 1.632307e-02 | 7.030187e-01 | 8.375102e-01 | 7 | 26190183 | 26190303 | 121 | - | 2.417 | 2.387 | -0.101 |
| ENSG00000122566 | E038 | 3.748670e+02 | 1.281294e-02 | 2.774762e-01 | 5.175380e-01 | 7 | 26190304 | 26190395 | 92 | - | 2.599 | 2.533 | -0.219 |
| ENSG00000122566 | E039 | 3.912611e+02 | 1.347564e-02 | 3.416974e-01 | 5.794741e-01 | 7 | 26190396 | 26190456 | 61 | - | 2.614 | 2.557 | -0.191 |
| ENSG00000122566 | E040 | 2.468750e+02 | 9.496240e-03 | 8.362645e-01 | 9.173686e-01 | 7 | 26190457 | 26190460 | 4 | - | 2.396 | 2.384 | -0.041 |
| ENSG00000122566 | E041 | 3.578997e+01 | 1.081085e-01 | 4.377355e-01 | 6.570288e-01 | 7 | 26190461 | 26190483 | 23 | - | 1.599 | 1.511 | -0.303 |
| ENSG00000122566 | E042 | 2.637528e+02 | 6.418172e-02 | 4.933306e-02 | 1.779844e-01 | 7 | 26190484 | 26190992 | 509 | - | 2.503 | 2.280 | -0.744 |
| ENSG00000122566 | E043 | 3.026378e+02 | 2.466689e-02 | 3.487619e-01 | 5.861990e-01 | 7 | 26190993 | 26191055 | 63 | - | 2.507 | 2.439 | -0.228 |
| ENSG00000122566 | E044 | 3.670998e+02 | 2.832721e-02 | 5.362539e-01 | 7.264852e-01 | 7 | 26191056 | 26191128 | 73 | - | 2.581 | 2.537 | -0.147 |
| ENSG00000122566 | E045 | 3.558984e+02 | 6.954179e-02 | 2.502563e-01 | 4.882392e-01 | 7 | 26191129 | 26191421 | 293 | - | 2.596 | 2.479 | -0.389 |
| ENSG00000122566 | E046 | 4.077819e+02 | 6.694368e-02 | 1.897176e-01 | 4.166090e-01 | 7 | 26191422 | 26191650 | 229 | - | 2.662 | 2.526 | -0.453 |
| ENSG00000122566 | E047 | 2.872124e+02 | 8.933688e-02 | 1.928712e-01 | 4.206452e-01 | 7 | 26191651 | 26191785 | 135 | - | 2.514 | 2.367 | -0.487 |
| ENSG00000122566 | E048 | 1.763292e+02 | 5.949568e-02 | 7.014023e-01 | 8.365116e-01 | 7 | 26191786 | 26191847 | 62 | - | 2.255 | 2.231 | -0.081 |
| ENSG00000122566 | E049 | 2.583212e+02 | 7.658215e-03 | 7.233966e-05 | 1.140786e-03 | 7 | 26191848 | 26191877 | 30 | - | 2.316 | 2.505 | 0.632 |
| ENSG00000122566 | E050 | 2.300919e+02 | 7.848850e-03 | 5.795869e-06 | 1.310789e-04 | 7 | 26191878 | 26191879 | 2 | - | 2.248 | 2.470 | 0.742 |
| ENSG00000122566 | E051 | 1.055620e+04 | 1.708976e-03 | 1.450369e-03 | 1.326722e-02 | 7 | 26191880 | 26192300 | 421 | - | 3.992 | 4.053 | 0.203 |
| ENSG00000122566 | E052 | 4.995095e+03 | 9.538104e-04 | 3.750571e-03 | 2.774704e-02 | 7 | 26192301 | 26192338 | 38 | - | 3.676 | 3.719 | 0.144 |
| ENSG00000122566 | E053 | 3.092853e+02 | 9.237125e-02 | 1.700173e-01 | 3.904639e-01 | 7 | 26192339 | 26192494 | 156 | - | 2.549 | 2.393 | -0.520 |
| ENSG00000122566 | E054 | 3.887605e+03 | 1.028562e-03 | 4.943655e-04 | 5.623217e-03 | 7 | 26192495 | 26192528 | 34 | - | 3.561 | 3.617 | 0.187 |
| ENSG00000122566 | E055 | 4.275564e+03 | 1.588092e-03 | 5.790019e-03 | 3.869347e-02 | 7 | 26192529 | 26192577 | 49 | - | 3.604 | 3.657 | 0.177 |
| ENSG00000122566 | E056 | 9.649650e+01 | 6.281926e-02 | 9.000631e-01 | 9.519058e-01 | 7 | 26192578 | 26193250 | 673 | - | 1.980 | 1.993 | 0.044 |
| ENSG00000122566 | E057 | 7.193755e+03 | 1.167025e-03 | 9.059943e-04 | 9.141930e-03 | 7 | 26193251 | 26193373 | 123 | - | 3.830 | 3.883 | 0.176 |
| ENSG00000122566 | E058 | 5.487991e+01 | 2.652661e-02 | 2.998799e-01 | 5.403130e-01 | 7 | 26193374 | 26193574 | 201 | - | 1.783 | 1.691 | -0.311 |
| ENSG00000122566 | E059 | 4.315382e+03 | 9.890340e-04 | 2.257003e-03 | 1.877950e-02 | 7 | 26193575 | 26193598 | 24 | - | 3.611 | 3.658 | 0.157 |
| ENSG00000122566 | E060 | 4.198766e+03 | 6.318960e-04 | 1.397991e-06 | 3.802836e-05 | 7 | 26193599 | 26193634 | 36 | - | 3.592 | 3.654 | 0.208 |
| ENSG00000122566 | E061 | 2.907624e+03 | 5.657369e-05 | 2.515412e-18 | 6.016546e-16 | 7 | 26193635 | 26193652 | 18 | - | 3.432 | 3.496 | 0.213 |
| ENSG00000122566 | E062 | 3.419794e+03 | 1.515838e-04 | 7.148421e-09 | 3.464516e-07 | 7 | 26193653 | 26193679 | 27 | - | 3.510 | 3.558 | 0.159 |
| ENSG00000122566 | E063 | 3.329369e+03 | 5.418876e-05 | 5.748829e-10 | 3.499224e-08 | 7 | 26193680 | 26193694 | 15 | - | 3.501 | 3.543 | 0.142 |
| ENSG00000122566 | E064 | 5.118365e+01 | 9.728099e-03 | 4.884487e-02 | 1.768766e-01 | 7 | 26195712 | 26195846 | 135 | - | 1.767 | 1.625 | -0.479 |
| ENSG00000122566 | E065 | 6.738940e+03 | 1.028319e-04 | 5.065311e-03 | 3.496944e-02 | 7 | 26195847 | 26195909 | 63 | - | 3.818 | 3.835 | 0.056 |
| ENSG00000122566 | E066 | 8.879800e+03 | 7.517754e-05 | 5.056583e-08 | 2.013893e-06 | 7 | 26196401 | 26196481 | 81 | - | 3.958 | 3.928 | -0.102 |
| ENSG00000122566 | E067 | 9.274306e+03 | 3.462109e-04 | 6.915603e-06 | 1.522661e-04 | 7 | 26196557 | 26196653 | 97 | - | 3.982 | 3.939 | -0.144 |
| ENSG00000122566 | E068 | 4.754688e+03 | 1.400370e-03 | 8.670255e-04 | 8.825842e-03 | 7 | 26196654 | 26196658 | 5 | - | 3.700 | 3.636 | -0.210 |
| ENSG00000122566 | E069 | 4.305027e+00 | 2.229154e-01 | 2.266237e-01 | 4.613368e-01 | 7 | 26196659 | 26196806 | 148 | - | 0.816 | 0.561 | -1.070 |
| ENSG00000122566 | E070 | 7.684401e+03 | 1.276770e-03 | 5.903193e-03 | 3.926721e-02 | 7 | 26196807 | 26196877 | 71 | - | 3.902 | 3.854 | -0.160 |
| ENSG00000122566 | E071 | 1.002176e+04 | 6.383504e-04 | 7.848270e-03 | 4.862117e-02 | 7 | 26196878 | 26197017 | 140 | - | 4.012 | 3.978 | -0.112 |
| ENSG00000122566 | E072 | 5.310639e+01 | 2.449206e-02 | 9.369901e-01 | 9.706910e-01 | 7 | 26197018 | 26197314 | 297 | - | 1.738 | 1.719 | -0.065 |
| ENSG00000122566 | E073 | 9.574391e+03 | 2.513127e-04 | 3.594249e-06 | 8.664105e-05 | 7 | 26197315 | 26197461 | 147 | - | 3.994 | 3.954 | -0.131 |
| ENSG00000122566 | E074 | 7.853711e+03 | 1.545042e-04 | 1.123128e-10 | 7.884786e-09 | 7 | 26197622 | 26197730 | 109 | - | 3.911 | 3.864 | -0.156 |
| ENSG00000122566 | E075 | 3.189982e+03 | 1.095156e-03 | 3.868284e-02 | 1.513092e-01 | 7 | 26197731 | 26197732 | 2 | - | 3.516 | 3.478 | -0.127 |
| ENSG00000122566 | E076 | 6.811441e+01 | 2.104262e-01 | 4.063438e-01 | 6.332951e-01 | 7 | 26197733 | 26197830 | 98 | - | 1.636 | 2.010 | 1.262 |
| ENSG00000122566 | E077 | 1.054244e+03 | 6.979767e-05 | 6.372200e-05 | 1.025051e-03 | 7 | 26197831 | 26197866 | 36 | - | 3.040 | 2.993 | -0.157 |
| ENSG00000122566 | E078 | 2.274098e+02 | 1.192829e-01 | 1.426062e-02 | 7.539324e-02 | 7 | 26197867 | 26199188 | 1322 | - | 2.478 | 2.114 | -1.216 |
| ENSG00000122566 | E079 | 1.752197e+02 | 1.636625e-01 | 1.804776e-02 | 8.919517e-02 | 7 | 26199189 | 26200571 | 1383 | - | 2.370 | 1.986 | -1.283 |
| ENSG00000122566 | E080 | 5.912288e+03 | 4.192668e-04 | 6.090169e-01 | 7.762381e-01 | 7 | 26200572 | 26201529 | 958 | - | 3.771 | 3.764 | -0.023 |