Isoforom Switch Analysis
WANG Ziyi
Date: 19 5月 2022
ENSG00000070814
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENST00000323668 | ENSG00000070814 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | TCOF1 | protein_coding | protein_coding | 114.3577 | 169.6259 | 81.26663 | 1.468131 | 1.959048 | -1.061529 | 19.711041 | 30.760084 | 12.735238 | 5.390922 | 1.076446 | -1.2715701 | 0.16815833 | 0.18086667 | 0.15680000 | -0.02406667 | 8.206639e-01 | 5.67715e-17 | FALSE | TRUE |
| ENST00000427724 | ENSG00000070814 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | TCOF1 | protein_coding | protein_coding | 114.3577 | 169.6259 | 81.26663 | 1.468131 | 1.959048 | -1.061529 | 7.305128 | 7.878643 | 6.325063 | 1.792973 | 2.217476 | -0.3164181 | 0.06434583 | 0.04630000 | 0.07890000 | 0.03260000 | 7.123516e-01 | 5.67715e-17 | FALSE | TRUE |
| ENST00000439160 | ENSG00000070814 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | TCOF1 | protein_coding | protein_coding | 114.3577 | 169.6259 | 81.26663 | 1.468131 | 1.959048 | -1.061529 | 25.463711 | 47.186777 | 12.922483 | 1.316242 | 3.170558 | -1.8676891 | 0.21054583 | 0.27816667 | 0.15783333 | -0.12033333 | 9.475224e-02 | 5.67715e-17 | FALSE | TRUE |
| ENST00000643257 | ENSG00000070814 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | TCOF1 | protein_coding | protein_coding | 114.3577 | 169.6259 | 81.26663 | 1.468131 | 1.959048 | -1.061529 | 31.007979 | 31.689842 | 29.090798 | 1.800994 | 1.195277 | -0.1234169 | 0.29541667 | 0.18666667 | 0.35906667 | 0.17240000 | 6.398038e-07 | 5.67715e-17 | FALSE | TRUE |
| ENST00000650162 | ENSG00000070814 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | TCOF1 | protein_coding | protein_coding | 114.3577 | 169.6259 | 81.26663 | 1.468131 | 1.959048 | -1.061529 | 2.470115 | 0.000000 | 5.218297 | 0.000000 | 1.590993 | 9.0301972 | 0.03060000 | 0.00000000 | 0.06336667 | 0.06336667 | 5.677150e-17 | 5.67715e-17 | FALSE | TRUE |
| ENST00000674413 | ENSG00000070814 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | TCOF1 | protein_coding | protein_coding | 114.3577 | 169.6259 | 81.26663 | 1.468131 | 1.959048 | -1.061529 | 7.872357 | 12.376902 | 3.615867 | 1.598240 | 1.808126 | -1.7724176 | 0.06737917 | 0.07293333 | 0.04490000 | -0.02803333 | 7.606886e-01 | 5.67715e-17 | FALSE | TRUE |
| MSTRG.27168.28 | ENSG00000070814 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | TCOF1 | protein_coding | 114.3577 | 169.6259 | 81.26663 | 1.468131 | 1.959048 | -1.061529 | 4.671406 | 13.075084 | 0.000000 | 3.756226 | 0.000000 | -10.3537074 | 0.02991667 | 0.07743333 | 0.00000000 | -0.07743333 | 7.718404e-14 | 5.67715e-17 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENSG00000070814 | E001 | 0.1515154 | 4.356910e-02 | 2.107885e-01 | 5 | 150357629 | 150357638 | 10 | + | 0.173 | 0.000 | -10.445 | |
| ENSG00000070814 | E002 | 0.4815130 | 2.190586e-02 | 9.040182e-01 | 9.429287e-01 | 5 | 150357639 | 150357651 | 13 | + | 0.173 | 0.156 | -0.175 |
| ENSG00000070814 | E003 | 1.1060086 | 1.506346e-02 | 4.853135e-01 | 6.231907e-01 | 5 | 150357652 | 150357665 | 14 | + | 0.392 | 0.271 | -0.761 |
| ENSG00000070814 | E004 | 1.1060086 | 1.506346e-02 | 4.853135e-01 | 6.231907e-01 | 5 | 150357666 | 150357671 | 6 | + | 0.392 | 0.271 | -0.761 |
| ENSG00000070814 | E005 | 1.1060086 | 1.506346e-02 | 4.853135e-01 | 6.231907e-01 | 5 | 150357672 | 150357677 | 6 | + | 0.392 | 0.271 | -0.761 |
| ENSG00000070814 | E006 | 1.1060086 | 1.506346e-02 | 4.853135e-01 | 6.231907e-01 | 5 | 150357678 | 150357680 | 3 | + | 0.392 | 0.271 | -0.761 |
| ENSG00000070814 | E007 | 1.1060086 | 1.506346e-02 | 4.853135e-01 | 6.231907e-01 | 5 | 150357681 | 150357682 | 2 | + | 0.392 | 0.271 | -0.761 |
| ENSG00000070814 | E008 | 1.7618391 | 6.103507e-02 | 3.272995e-01 | 4.707367e-01 | 5 | 150357683 | 150357683 | 1 | + | 0.537 | 0.361 | -0.916 |
| ENSG00000070814 | E009 | 1.7618391 | 6.103507e-02 | 3.272995e-01 | 4.707367e-01 | 5 | 150357684 | 150357687 | 4 | + | 0.537 | 0.361 | -0.916 |
| ENSG00000070814 | E010 | 3.8013617 | 3.238221e-01 | 5.408236e-01 | 6.719047e-01 | 5 | 150357688 | 150357696 | 9 | + | 0.690 | 0.625 | -0.276 |
| ENSG00000070814 | E011 | 5.3920804 | 2.095460e-01 | 2.418476e-01 | 3.763598e-01 | 5 | 150357697 | 150357701 | 5 | + | 0.920 | 0.689 | -0.915 |
| ENSG00000070814 | E012 | 6.7174474 | 1.528377e-01 | 7.304812e-02 | 1.484064e-01 | 5 | 150357702 | 150357703 | 2 | + | 1.069 | 0.723 | -1.325 |
| ENSG00000070814 | E013 | 32.3791877 | 1.615924e-02 | 2.808645e-05 | 1.681805e-04 | 5 | 150357704 | 150357713 | 10 | + | 1.694 | 1.343 | -1.202 |
| ENSG00000070814 | E014 | 53.6759605 | 1.621040e-02 | 1.088312e-04 | 5.627267e-04 | 5 | 150357714 | 150357717 | 4 | + | 1.877 | 1.585 | -0.989 |
| ENSG00000070814 | E015 | 55.4903265 | 1.263878e-02 | 2.760109e-05 | 1.655882e-04 | 5 | 150357718 | 150357718 | 1 | + | 1.891 | 1.599 | -0.988 |
| ENSG00000070814 | E016 | 178.4222029 | 1.419783e-02 | 1.015814e-04 | 5.291693e-04 | 5 | 150357719 | 150357746 | 28 | + | 2.360 | 2.124 | -0.786 |
| ENSG00000070814 | E017 | 244.4720505 | 1.226538e-02 | 1.050991e-04 | 5.456035e-04 | 5 | 150357747 | 150357758 | 12 | + | 2.483 | 2.268 | -0.717 |
| ENSG00000070814 | E018 | 304.3322872 | 8.138690e-03 | 1.751804e-05 | 1.100634e-04 | 5 | 150357759 | 150357782 | 24 | + | 2.566 | 2.369 | -0.655 |
| ENSG00000070814 | E019 | 477.9472383 | 5.812958e-03 | 1.054772e-05 | 6.974912e-05 | 5 | 150357783 | 150357854 | 72 | + | 2.742 | 2.575 | -0.556 |
| ENSG00000070814 | E020 | 531.3846713 | 4.903661e-03 | 5.620316e-07 | 4.924392e-06 | 5 | 150361156 | 150361211 | 56 | + | 2.794 | 2.618 | -0.586 |
| ENSG00000070814 | E021 | 975.1598136 | 5.093675e-03 | 4.989647e-07 | 4.413042e-06 | 5 | 150364113 | 150364252 | 140 | + | 3.054 | 2.884 | -0.565 |
| ENSG00000070814 | E022 | 0.7416549 | 1.369312e-01 | 4.460997e-01 | 5.876361e-01 | 5 | 150364907 | 150365057 | 151 | + | 0.296 | 0.159 | -1.148 |
| ENSG00000070814 | E023 | 1.4402595 | 9.899412e-03 | 8.389465e-01 | 8.993402e-01 | 5 | 150367573 | 150367843 | 271 | + | 0.392 | 0.361 | -0.176 |
| ENSG00000070814 | E024 | 782.2607280 | 2.689956e-03 | 2.178384e-09 | 3.031352e-08 | 5 | 150367844 | 150367917 | 74 | + | 2.950 | 2.792 | -0.526 |
| ENSG00000070814 | E025 | 2.9798075 | 5.302023e-03 | 9.408143e-01 | 9.668211e-01 | 5 | 150367918 | 150368715 | 798 | + | 0.537 | 0.557 | 0.091 |
| ENSG00000070814 | E026 | 1049.3201897 | 2.820156e-03 | 1.473485e-07 | 1.448762e-06 | 5 | 150368716 | 150368902 | 187 | + | 3.063 | 2.928 | -0.450 |
| ENSG00000070814 | E027 | 565.5880614 | 5.174977e-03 | 1.117924e-02 | 3.159406e-02 | 5 | 150369529 | 150369602 | 74 | + | 2.762 | 2.675 | -0.289 |
| ENSG00000070814 | E028 | 444.8295282 | 9.965649e-04 | 1.016580e-06 | 8.418047e-06 | 5 | 150372006 | 150372078 | 73 | + | 2.669 | 2.565 | -0.347 |
| ENSG00000070814 | E029 | 631.6270687 | 1.781005e-03 | 3.344890e-03 | 1.127664e-02 | 5 | 150372079 | 150372236 | 158 | + | 2.794 | 2.730 | -0.214 |
| ENSG00000070814 | E030 | 394.4087415 | 4.951816e-03 | 8.769460e-01 | 9.250036e-01 | 5 | 150374174 | 150374200 | 27 | + | 2.534 | 2.548 | 0.049 |
| ENSG00000070814 | E031 | 545.8646918 | 6.073847e-03 | 9.240341e-01 | 9.561504e-01 | 5 | 150374201 | 150374269 | 69 | + | 2.679 | 2.688 | 0.028 |
| ENSG00000070814 | E032 | 711.9385297 | 2.647362e-03 | 3.032134e-01 | 4.451107e-01 | 5 | 150374270 | 150374386 | 117 | + | 2.814 | 2.795 | -0.061 |
| ENSG00000070814 | E033 | 562.8019539 | 2.612345e-03 | 5.774540e-02 | 1.227636e-01 | 5 | 150374617 | 150374712 | 96 | + | 2.729 | 2.685 | -0.147 |
| ENSG00000070814 | E034 | 384.0747888 | 3.823279e-03 | 3.940369e-02 | 8.992611e-02 | 5 | 150374713 | 150374733 | 21 | + | 2.576 | 2.514 | -0.208 |
| ENSG00000070814 | E035 | 617.0785491 | 3.873768e-03 | 2.293826e-02 | 5.761770e-02 | 5 | 150374734 | 150374811 | 78 | + | 2.784 | 2.719 | -0.215 |
| ENSG00000070814 | E036 | 8.3041169 | 2.146532e-03 | 6.350591e-01 | 7.494272e-01 | 5 | 150374812 | 150374953 | 142 | + | 0.867 | 0.934 | 0.256 |
| ENSG00000070814 | E037 | 700.9819321 | 2.407932e-03 | 2.781871e-03 | 9.620260e-03 | 5 | 150374954 | 150375076 | 123 | + | 2.843 | 2.772 | -0.237 |
| ENSG00000070814 | E038 | 670.1400463 | 2.489537e-03 | 3.909378e-04 | 1.739770e-03 | 5 | 150375077 | 150375163 | 87 | + | 2.836 | 2.747 | -0.296 |
| ENSG00000070814 | E039 | 5.7224389 | 5.989333e-03 | 2.206880e-01 | 3.512360e-01 | 5 | 150375164 | 150375338 | 175 | + | 0.646 | 0.835 | 0.771 |
| ENSG00000070814 | E040 | 674.1949723 | 4.568167e-04 | 1.430732e-06 | 1.148995e-05 | 5 | 150375339 | 150375461 | 123 | + | 2.829 | 2.753 | -0.252 |
| ENSG00000070814 | E041 | 811.3354863 | 1.312735e-04 | 2.011979e-13 | 5.477271e-12 | 5 | 150375462 | 150375554 | 93 | + | 2.922 | 2.828 | -0.313 |
| ENSG00000070814 | E042 | 1153.1115955 | 1.102555e-04 | 1.926312e-10 | 3.236665e-09 | 5 | 150375721 | 150375909 | 189 | + | 3.056 | 2.990 | -0.222 |
| ENSG00000070814 | E043 | 16.2056454 | 1.112212e-03 | 5.522818e-02 | 1.183804e-01 | 5 | 150375910 | 150376081 | 172 | + | 1.292 | 1.133 | -0.563 |
| ENSG00000070814 | E044 | 1442.8194302 | 7.224046e-04 | 6.859188e-03 | 2.085899e-02 | 5 | 150376082 | 150376330 | 249 | + | 3.130 | 3.097 | -0.110 |
| ENSG00000070814 | E045 | 1244.2234490 | 3.552026e-04 | 9.670193e-01 | 9.833226e-01 | 5 | 150376423 | 150376620 | 198 | + | 3.033 | 3.044 | 0.038 |
| ENSG00000070814 | E046 | 0.6244956 | 4.235105e-02 | 4.214739e-01 | 5.646207e-01 | 5 | 150378610 | 150378704 | 95 | + | 0.296 | 0.156 | -1.176 |
| ENSG00000070814 | E047 | 1109.2757139 | 3.920577e-04 | 4.053746e-01 | 5.490559e-01 | 5 | 150378905 | 150379042 | 138 | + | 2.974 | 2.998 | 0.078 |
| ENSG00000070814 | E048 | 759.9728532 | 7.674768e-04 | 7.230806e-01 | 8.169944e-01 | 5 | 150379229 | 150379275 | 47 | + | 2.815 | 2.833 | 0.060 |
| ENSG00000070814 | E049 | 1098.5511386 | 1.224136e-03 | 9.702299e-01 | 9.853656e-01 | 5 | 150379276 | 150379408 | 133 | + | 2.980 | 2.991 | 0.037 |
| ENSG00000070814 | E050 | 1292.0869829 | 6.226621e-05 | 7.132248e-04 | 2.946000e-03 | 5 | 150379532 | 150379732 | 201 | + | 3.021 | 3.070 | 0.163 |
| ENSG00000070814 | E051 | 9.2238494 | 5.469899e-02 | 5.872969e-01 | 7.106055e-01 | 5 | 150379733 | 150380859 | 1127 | + | 0.867 | 0.976 | 0.413 |
| ENSG00000070814 | E052 | 35.4446334 | 1.883190e-02 | 3.101276e-01 | 4.524976e-01 | 5 | 150383062 | 150383064 | 3 | + | 1.558 | 1.482 | -0.261 |
| ENSG00000070814 | E053 | 74.9074569 | 1.018264e-02 | 9.481913e-01 | 9.714774e-01 | 5 | 150383065 | 150383172 | 108 | + | 1.810 | 1.828 | 0.062 |
| ENSG00000070814 | E054 | 125.3563328 | 2.473504e-04 | 4.274658e-02 | 9.608015e-02 | 5 | 150383738 | 150384253 | 516 | + | 1.986 | 2.070 | 0.280 |
| ENSG00000070814 | E055 | 535.0898067 | 7.385740e-04 | 2.748625e-03 | 9.517037e-03 | 5 | 150387902 | 150387942 | 41 | + | 2.617 | 2.694 | 0.254 |
| ENSG00000070814 | E056 | 1043.4097082 | 9.721041e-05 | 4.420583e-03 | 1.432056e-02 | 5 | 150387943 | 150388088 | 146 | + | 2.930 | 2.977 | 0.157 |
| ENSG00000070814 | E057 | 884.3047563 | 1.103215e-04 | 2.189861e-02 | 5.546809e-02 | 5 | 150389887 | 150389946 | 60 | + | 2.861 | 2.904 | 0.142 |
| ENSG00000070814 | E058 | 1009.2373162 | 8.035061e-05 | 1.701888e-01 | 2.884290e-01 | 5 | 150389947 | 150390023 | 77 | + | 2.930 | 2.958 | 0.093 |
| ENSG00000070814 | E059 | 768.9505542 | 5.248334e-04 | 8.278249e-03 | 2.448694e-02 | 5 | 150391544 | 150391657 | 114 | + | 2.789 | 2.848 | 0.196 |
| ENSG00000070814 | E060 | 12.1733460 | 3.985914e-03 | 3.305101e-08 | 3.691203e-07 | 5 | 150391658 | 150391795 | 138 | + | 1.380 | 0.850 | -1.919 |
| ENSG00000070814 | E061 | 12.9095398 | 1.408576e-03 | 1.136307e-06 | 9.324290e-06 | 5 | 150391796 | 150391956 | 161 | + | 1.371 | 0.933 | -1.569 |
| ENSG00000070814 | E062 | 1666.2063434 | 2.014588e-04 | 2.570855e-06 | 1.953947e-05 | 5 | 150391957 | 150392176 | 220 | + | 3.119 | 3.185 | 0.220 |
| ENSG00000070814 | E063 | 33.5759192 | 3.493673e-03 | 3.828421e-07 | 3.463789e-06 | 5 | 150392177 | 150392704 | 528 | + | 1.698 | 1.372 | -1.116 |
| ENSG00000070814 | E064 | 336.2096000 | 1.782698e-03 | 6.171720e-04 | 2.596407e-03 | 5 | 150392705 | 150392707 | 3 | + | 2.387 | 2.503 | 0.387 |
| ENSG00000070814 | E065 | 1005.5422560 | 1.557965e-03 | 9.216528e-06 | 6.177187e-05 | 5 | 150392708 | 150392790 | 83 | + | 2.863 | 2.978 | 0.382 |
| ENSG00000070814 | E066 | 24.7633847 | 7.138501e-03 | 5.223784e-12 | 1.138874e-10 | 5 | 150392791 | 150393371 | 581 | + | 1.676 | 1.140 | -1.859 |
| ENSG00000070814 | E067 | 597.7927505 | 5.373440e-03 | 8.183548e-02 | 1.624372e-01 | 5 | 150393372 | 150393384 | 13 | + | 2.660 | 2.745 | 0.282 |
| ENSG00000070814 | E068 | 811.8996192 | 3.410197e-03 | 3.445505e-03 | 1.156852e-02 | 5 | 150393385 | 150393422 | 38 | + | 2.776 | 2.884 | 0.358 |
| ENSG00000070814 | E069 | 1481.1259793 | 2.295361e-03 | 2.374095e-05 | 1.447493e-04 | 5 | 150393423 | 150393552 | 130 | + | 3.027 | 3.148 | 0.401 |
| ENSG00000070814 | E070 | 18.4308335 | 2.638457e-02 | 3.787572e-01 | 5.230562e-01 | 5 | 150393553 | 150394916 | 1364 | + | 1.292 | 1.205 | -0.308 |
| ENSG00000070814 | E071 | 2976.7642074 | 2.208002e-03 | 4.170332e-09 | 5.508695e-08 | 5 | 150396282 | 150396742 | 461 | + | 3.308 | 3.457 | 0.494 |
| ENSG00000070814 | E072 | 896.7316126 | 5.955561e-03 | 8.027101e-04 | 3.269009e-03 | 5 | 150396743 | 150396842 | 100 | + | 2.789 | 2.935 | 0.486 |
| ENSG00000070814 | E073 | 583.1776403 | 1.825242e-02 | 4.449471e-02 | 9.927674e-02 | 5 | 150398354 | 150398451 | 98 | + | 2.604 | 2.749 | 0.480 |
| ENSG00000070814 | E074 | 685.8841112 | 1.022302e-02 | 1.676710e-02 | 4.442377e-02 | 5 | 150399022 | 150399070 | 49 | + | 2.679 | 2.818 | 0.463 |
| ENSG00000070814 | E075 | 2005.0084285 | 7.358364e-03 | 1.478333e-06 | 1.184060e-05 | 5 | 150399810 | 150400308 | 499 | + | 3.080 | 3.299 | 0.728 |