Isoforom Switch Analysis
WANG Ziyi
Date: 19 5月 2022
ENSG00000148396
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENST00000277537 | ENSG00000148396 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | SEC16A | protein_coding | protein_coding | 41.95945 | 65.6298 | 25.93624 | 3.909977 | 0.1897689 | -1.339045 | 3.540060 | 6.54034738 | 0.000000 | 0.33359642 | 0.0000000 | -9.3554276 | 0.06266667 | 0.099866667 | 0.00000000 | -0.099866667 | 1.972955e-41 | 1.972955e-41 | FALSE | TRUE |
| ENST00000290037 | ENSG00000148396 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | SEC16A | protein_coding | protein_coding | 41.95945 | 65.6298 | 25.93624 | 3.909977 | 0.1897689 | -1.339045 | 1.536268 | 1.73147406 | 2.257090 | 0.32753783 | 0.4432103 | 0.3805326 | 0.04464583 | 0.026133333 | 0.08690000 | 0.060766667 | 3.521858e-03 | 1.972955e-41 | FALSE | TRUE |
| ENST00000313050 | ENSG00000148396 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | SEC16A | protein_coding | protein_coding | 41.95945 | 65.6298 | 25.93624 | 3.909977 | 0.1897689 | -1.339045 | 8.272928 | 5.41736272 | 9.072604 | 1.25712593 | 0.3869928 | 0.7428546 | 0.24711250 | 0.082300000 | 0.34966667 | 0.267366667 | 2.323654e-07 | 1.972955e-41 | FALSE | TRUE |
| ENST00000371706 | ENSG00000148396 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | SEC16A | protein_coding | protein_coding | 41.95945 | 65.6298 | 25.93624 | 3.909977 | 0.1897689 | -1.339045 | 3.196350 | 5.12432282 | 2.065138 | 0.68735210 | 0.2373378 | -1.3069666 | 0.07552083 | 0.077633333 | 0.07960000 | 0.001966667 | 9.826994e-01 | 1.972955e-41 | FALSE | TRUE |
| ENST00000453963 | ENSG00000148396 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | SEC16A | protein_coding | protein_coding | 41.95945 | 65.6298 | 25.93624 | 3.909977 | 0.1897689 | -1.339045 | 3.689181 | 7.69754011 | 1.002540 | 1.75739581 | 0.5032943 | -2.9282919 | 0.07740833 | 0.115733333 | 0.03846667 | -0.077266667 | 4.833358e-01 | 1.972955e-41 | FALSE | TRUE |
| ENST00000467838 | ENSG00000148396 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | SEC16A | protein_coding | processed_transcript | 41.95945 | 65.6298 | 25.93624 | 3.909977 | 0.1897689 | -1.339045 | 12.034281 | 28.27846980 | 2.432276 | 3.36070420 | 0.6835675 | -3.5339160 | 0.23012500 | 0.432933333 | 0.09396667 | -0.338966667 | 2.317987e-05 | 1.972955e-41 | FALSE | |
| MSTRG.33642.1 | ENSG00000148396 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | SEC16A | protein_coding | 41.95945 | 65.6298 | 25.93624 | 3.909977 | 0.1897689 | -1.339045 | 2.541705 | 3.24781228 | 1.262315 | 0.20679832 | 0.6368122 | -1.3564476 | 0.06072917 | 0.049566667 | 0.04856667 | -0.001000000 | 8.670849e-01 | 1.972955e-41 | FALSE | TRUE | |
| MSTRG.33642.24 | ENSG00000148396 | HEK293_OSMI2_2hA | HEK293_TMG_2hB | SEC16A | protein_coding | 41.95945 | 65.6298 | 25.93624 | 3.909977 | 0.1897689 | -1.339045 | 1.466286 | 0.08225643 | 2.584956 | 0.04795101 | 0.2281849 | 4.8139169 | 0.05147500 | 0.001333333 | 0.09976667 | 0.098433333 | 1.501362e-28 | 1.972955e-41 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENSG00000148396 | E001 | 0.5848540 | 0.0271995088 | 2.275228e-01 | 3.594416e-01 | 9 | 136440096 | 136440096 | 1 | - | 0.000 | 0.239 | 13.232 |
| ENSG00000148396 | E002 | 1.6167656 | 0.0123655997 | 4.072661e-01 | 5.508499e-01 | 9 | 136440097 | 136440100 | 4 | - | 0.271 | 0.434 | 0.984 |
| ENSG00000148396 | E003 | 2.4282761 | 0.0193363213 | 2.832527e-01 | 4.233405e-01 | 9 | 136440101 | 136440102 | 2 | - | 0.362 | 0.567 | 1.049 |
| ENSG00000148396 | E004 | 4.8866540 | 0.1202718484 | 1.564883e-01 | 2.704332e-01 | 9 | 136440103 | 136440104 | 2 | - | 0.501 | 0.831 | 1.412 |
| ENSG00000148396 | E005 | 10.7102281 | 0.0087280025 | 5.538928e-05 | 3.086093e-04 | 9 | 136440105 | 136440111 | 7 | - | 0.606 | 1.159 | 2.144 |
| ENSG00000148396 | E006 | 17.1487736 | 0.0258397906 | 4.167807e-05 | 2.391937e-04 | 9 | 136440112 | 136440119 | 8 | - | 0.792 | 1.348 | 2.033 |
| ENSG00000148396 | E007 | 18.5504105 | 0.0191370211 | 2.455429e-05 | 1.492512e-04 | 9 | 136440120 | 136440137 | 18 | - | 0.849 | 1.377 | 1.910 |
| ENSG00000148396 | E008 | 29.4436189 | 0.0250668301 | 2.658538e-03 | 9.248619e-03 | 9 | 136440138 | 136440144 | 7 | - | 1.196 | 1.540 | 1.193 |
| ENSG00000148396 | E009 | 46.8820165 | 0.0311988761 | 6.401598e-05 | 3.511287e-04 | 9 | 136440145 | 136440146 | 2 | - | 1.292 | 1.753 | 1.581 |
| ENSG00000148396 | E010 | 79.9407794 | 0.0306960901 | 3.837274e-05 | 2.221692e-04 | 9 | 136440147 | 136440159 | 13 | - | 1.541 | 1.976 | 1.473 |
| ENSG00000148396 | E011 | 196.5302868 | 0.0166448416 | 1.191974e-10 | 2.077997e-09 | 9 | 136440160 | 136440205 | 46 | - | 1.880 | 2.370 | 1.640 |
| ENSG00000148396 | E012 | 445.1289867 | 0.0115014597 | 9.740178e-13 | 2.396114e-11 | 9 | 136440206 | 136440309 | 104 | - | 2.283 | 2.716 | 1.441 |
| ENSG00000148396 | E013 | 419.4907582 | 0.0104878703 | 7.204887e-11 | 1.301807e-09 | 9 | 136440310 | 136440357 | 48 | - | 2.302 | 2.682 | 1.268 |
| ENSG00000148396 | E014 | 600.2988134 | 0.0090967771 | 1.383968e-14 | 4.467347e-13 | 9 | 136440358 | 136440499 | 142 | - | 2.434 | 2.842 | 1.359 |
| ENSG00000148396 | E015 | 1576.1474707 | 0.0045877288 | 1.072021e-11 | 2.222247e-10 | 9 | 136440500 | 136441391 | 892 | - | 2.986 | 3.230 | 0.811 |
| ENSG00000148396 | E016 | 400.0742576 | 0.0017155907 | 3.469541e-09 | 4.654069e-08 | 9 | 136441392 | 136441597 | 206 | - | 2.430 | 2.620 | 0.633 |
| ENSG00000148396 | E017 | 87.0046009 | 0.0003784550 | 2.512757e-04 | 1.180612e-03 | 9 | 136441598 | 136441600 | 3 | - | 1.784 | 1.958 | 0.586 |
| ENSG00000148396 | E018 | 145.2208568 | 0.0006631377 | 2.735440e-06 | 2.066272e-05 | 9 | 136441601 | 136441619 | 19 | - | 1.993 | 2.176 | 0.613 |
| ENSG00000148396 | E019 | 197.3658126 | 0.0001988480 | 5.019220e-04 | 2.166992e-03 | 9 | 136441620 | 136441678 | 59 | - | 2.178 | 2.293 | 0.387 |
| ENSG00000148396 | E020 | 200.9516644 | 0.0002306731 | 2.759054e-04 | 1.281617e-03 | 9 | 136441679 | 136441754 | 76 | - | 2.181 | 2.302 | 0.402 |
| ENSG00000148396 | E021 | 189.5887987 | 0.0013244272 | 2.897201e-03 | 9.962175e-03 | 9 | 136441755 | 136441823 | 69 | - | 2.158 | 2.277 | 0.398 |
| ENSG00000148396 | E022 | 195.2906700 | 0.0008809123 | 7.668755e-04 | 3.139405e-03 | 9 | 136443823 | 136443900 | 78 | - | 2.165 | 2.290 | 0.418 |
| ENSG00000148396 | E023 | 10.8833742 | 0.0016901269 | 2.210530e-02 | 5.589298e-02 | 9 | 136443901 | 136444082 | 182 | - | 1.172 | 0.958 | -0.781 |
| ENSG00000148396 | E024 | 88.2878802 | 0.0003374682 | 6.028502e-02 | 1.270971e-01 | 9 | 136445052 | 136445111 | 60 | - | 1.844 | 1.940 | 0.322 |
| ENSG00000148396 | E025 | 148.9287915 | 0.0020836633 | 4.958486e-07 | 4.388350e-06 | 9 | 136445645 | 136445719 | 75 | - | 1.974 | 2.196 | 0.745 |
| ENSG00000148396 | E026 | 229.4025653 | 0.0005734456 | 9.985968e-04 | 3.953216e-03 | 9 | 136446855 | 136446949 | 95 | - | 2.247 | 2.357 | 0.369 |
| ENSG00000148396 | E027 | 66.6326359 | 0.0102784625 | 8.504363e-01 | 9.072111e-01 | 9 | 136446950 | 136447006 | 57 | - | 1.787 | 1.797 | 0.036 |
| ENSG00000148396 | E028 | 39.1217389 | 0.0167934506 | 8.253694e-01 | 8.900081e-01 | 9 | 136447007 | 136447015 | 9 | - | 1.567 | 1.568 | 0.003 |
| ENSG00000148396 | E029 | 3.1564209 | 0.1596205387 | 3.691306e-02 | 8.529381e-02 | 9 | 136447016 | 136447039 | 24 | - | 0.848 | 0.394 | -2.034 |
| ENSG00000148396 | E030 | 253.5267508 | 0.0075564149 | 2.592679e-01 | 3.966560e-01 | 9 | 136447227 | 136447361 | 135 | - | 2.315 | 2.397 | 0.272 |
| ENSG00000148396 | E031 | 90.2712057 | 0.0061694319 | 3.913163e-01 | 5.352265e-01 | 9 | 136447362 | 136447364 | 3 | - | 1.880 | 1.947 | 0.225 |
| ENSG00000148396 | E032 | 221.2236672 | 0.0026401221 | 6.241596e-01 | 7.405828e-01 | 9 | 136447569 | 136447680 | 112 | - | 2.285 | 2.324 | 0.128 |
| ENSG00000148396 | E033 | 174.5576514 | 0.0002176181 | 2.949289e-01 | 4.360303e-01 | 9 | 136447853 | 136447909 | 57 | - | 2.217 | 2.205 | -0.041 |
| ENSG00000148396 | E034 | 1.6500659 | 0.2455895598 | 3.430698e-01 | 4.871240e-01 | 9 | 136448009 | 136448083 | 75 | - | 0.555 | 0.338 | -1.139 |
| ENSG00000148396 | E035 | 201.2108879 | 0.0002227663 | 6.722233e-01 | 7.782654e-01 | 9 | 136448084 | 136448161 | 78 | - | 2.264 | 2.271 | 0.022 |
| ENSG00000148396 | E036 | 0.2934659 | 0.0301715104 | 6.548004e-01 | 9 | 136448250 | 136448620 | 371 | - | 0.156 | 0.095 | -0.828 | |
| ENSG00000148396 | E037 | 0.6986918 | 0.0166344534 | 6.699719e-01 | 7.765938e-01 | 9 | 136448621 | 136448842 | 222 | - | 0.156 | 0.239 | 0.759 |
| ENSG00000148396 | E038 | 1.5436004 | 0.0090574629 | 4.048863e-01 | 5.485671e-01 | 9 | 136450818 | 136450881 | 64 | - | 0.271 | 0.433 | 0.981 |
| ENSG00000148396 | E039 | 237.3985563 | 0.0001931277 | 1.717266e-01 | 2.904662e-01 | 9 | 136451256 | 136451408 | 153 | - | 2.304 | 2.356 | 0.176 |
| ENSG00000148396 | E040 | 3.7706810 | 0.0057701617 | 9.038083e-01 | 9.427947e-01 | 9 | 136451409 | 136452346 | 938 | - | 0.650 | 0.646 | -0.018 |
| ENSG00000148396 | E041 | 170.0452143 | 0.0015281663 | 7.687064e-02 | 1.544923e-01 | 9 | 136453428 | 136453510 | 83 | - | 2.140 | 2.221 | 0.273 |
| ENSG00000148396 | E042 | 250.3234953 | 0.0039543130 | 3.564131e-01 | 5.007928e-01 | 9 | 136454109 | 136454327 | 219 | - | 2.324 | 2.385 | 0.202 |
| ENSG00000148396 | E043 | 259.6641558 | 0.0034313850 | 5.146050e-01 | 6.493428e-01 | 9 | 136455601 | 136455793 | 193 | - | 2.347 | 2.396 | 0.164 |
| ENSG00000148396 | E044 | 239.5116943 | 0.0012223454 | 2.421867e-01 | 3.767762e-01 | 9 | 136456053 | 136456166 | 114 | - | 2.353 | 2.340 | -0.045 |
| ENSG00000148396 | E045 | 248.1198101 | 0.0013891046 | 2.869854e-01 | 4.274423e-01 | 9 | 136457444 | 136457584 | 141 | - | 2.366 | 2.356 | -0.034 |
| ENSG00000148396 | E046 | 217.0903009 | 0.0050144063 | 7.106631e-03 | 2.150275e-02 | 9 | 136459134 | 136459239 | 106 | - | 2.361 | 2.274 | -0.291 |
| ENSG00000148396 | E047 | 240.4244076 | 0.0052393775 | 1.247732e-03 | 4.802892e-03 | 9 | 136459444 | 136459555 | 112 | - | 2.419 | 2.311 | -0.362 |
| ENSG00000148396 | E048 | 268.4386692 | 0.0009233750 | 1.732481e-07 | 1.681507e-06 | 9 | 136459757 | 136459874 | 118 | - | 2.471 | 2.353 | -0.393 |
| ENSG00000148396 | E049 | 227.2181969 | 0.0002797501 | 6.163860e-06 | 4.300062e-05 | 9 | 136460042 | 136460123 | 82 | - | 2.384 | 2.288 | -0.320 |
| ENSG00000148396 | E050 | 234.6034057 | 0.0045782103 | 1.789267e-02 | 4.690801e-02 | 9 | 136461177 | 136461274 | 98 | - | 2.384 | 2.314 | -0.232 |
| ENSG00000148396 | E051 | 153.6777443 | 0.0029998431 | 5.525470e-01 | 6.818239e-01 | 9 | 136462887 | 136462942 | 56 | - | 2.154 | 2.153 | -0.003 |
| ENSG00000148396 | E052 | 143.2076693 | 0.0052335880 | 2.878785e-01 | 4.284193e-01 | 9 | 136462943 | 136462993 | 51 | - | 2.139 | 2.115 | -0.081 |
| ENSG00000148396 | E053 | 238.8449400 | 0.0040482565 | 1.849227e-02 | 4.821438e-02 | 9 | 136462994 | 136463132 | 139 | - | 2.388 | 2.323 | -0.219 |
| ENSG00000148396 | E054 | 175.0661853 | 0.0029258601 | 7.623162e-04 | 3.122968e-03 | 9 | 136463463 | 136463585 | 123 | - | 2.278 | 2.173 | -0.348 |
| ENSG00000148396 | E055 | 83.4687743 | 0.0130243888 | 1.524011e-01 | 2.649431e-01 | 9 | 136463586 | 136463601 | 16 | - | 1.936 | 1.867 | -0.230 |
| ENSG00000148396 | E056 | 9.1938993 | 0.0207001272 | 2.902508e-03 | 9.976801e-03 | 9 | 136463602 | 136463678 | 77 | - | 1.172 | 0.825 | -1.288 |
| ENSG00000148396 | E057 | 129.9473676 | 0.0107530861 | 2.102572e-01 | 3.388402e-01 | 9 | 136463679 | 136463740 | 62 | - | 2.110 | 2.068 | -0.141 |
| ENSG00000148396 | E058 | 166.7326879 | 0.0071795810 | 6.819821e-03 | 2.075327e-02 | 9 | 136464420 | 136464526 | 107 | - | 2.259 | 2.153 | -0.355 |
| ENSG00000148396 | E059 | 118.4625130 | 0.0166510216 | 1.875524e-02 | 4.879593e-02 | 9 | 136464527 | 136464562 | 36 | - | 2.126 | 1.997 | -0.430 |
| ENSG00000148396 | E060 | 214.6851430 | 0.0054608104 | 5.740403e-03 | 1.792931e-02 | 9 | 136465962 | 136466136 | 175 | - | 2.360 | 2.267 | -0.311 |
| ENSG00000148396 | E061 | 166.9272938 | 0.0002212090 | 4.400346e-05 | 2.513284e-04 | 9 | 136466264 | 136466384 | 121 | - | 2.254 | 2.154 | -0.334 |
| ENSG00000148396 | E062 | 154.2982473 | 0.0002104625 | 3.081102e-09 | 4.170219e-08 | 9 | 136466385 | 136466462 | 78 | - | 2.255 | 2.098 | -0.526 |
| ENSG00000148396 | E063 | 201.6813462 | 0.0001968615 | 8.350257e-17 | 3.629947e-15 | 9 | 136466957 | 136467083 | 127 | - | 2.395 | 2.198 | -0.658 |
| ENSG00000148396 | E064 | 170.3443279 | 0.0002014243 | 5.566985e-13 | 1.422318e-11 | 9 | 136468415 | 136468512 | 98 | - | 2.315 | 2.130 | -0.616 |
| ENSG00000148396 | E065 | 190.2844065 | 0.0007281104 | 7.013276e-12 | 1.498753e-10 | 9 | 136471975 | 136472111 | 137 | - | 2.361 | 2.182 | -0.598 |
| ENSG00000148396 | E066 | 362.7477509 | 0.0013213593 | 2.094274e-11 | 4.136300e-10 | 9 | 136474049 | 136474486 | 438 | - | 2.622 | 2.473 | -0.499 |
| ENSG00000148396 | E067 | 54.1179847 | 0.0004484594 | 6.201708e-03 | 1.914601e-02 | 9 | 136474487 | 136474489 | 3 | - | 1.781 | 1.663 | -0.399 |
| ENSG00000148396 | E068 | 405.7329113 | 0.0043683347 | 7.447895e-09 | 9.399023e-08 | 9 | 136474490 | 136475197 | 708 | - | 2.691 | 2.509 | -0.606 |
| ENSG00000148396 | E069 | 410.5858236 | 0.0082726713 | 1.031056e-08 | 1.267475e-07 | 9 | 136475198 | 136475937 | 740 | - | 2.731 | 2.491 | -0.801 |
| ENSG00000148396 | E070 | 572.6350279 | 0.0115414557 | 1.730932e-11 | 3.464553e-10 | 9 | 136475938 | 136477115 | 1178 | - | 2.921 | 2.595 | -1.086 |
| ENSG00000148396 | E071 | 296.1390009 | 0.0070421370 | 3.106697e-22 | 2.539061e-20 | 9 | 136477116 | 136477684 | 569 | - | 2.679 | 2.261 | -1.394 |
| ENSG00000148396 | E072 | 0.6653823 | 0.0172671820 | 1.082217e-01 | 2.029105e-01 | 9 | 136477685 | 136477689 | 5 | - | 0.362 | 0.095 | -2.409 |
| ENSG00000148396 | E073 | 2.6947767 | 0.1031149349 | 4.200201e-01 | 5.632613e-01 | 9 | 136478709 | 136478830 | 122 | - | 0.650 | 0.501 | -0.678 |
| ENSG00000148396 | E074 | 52.0992062 | 0.0298021526 | 7.473342e-05 | 4.029262e-04 | 9 | 136482938 | 136483112 | 175 | - | 1.908 | 1.543 | -1.239 |
| ENSG00000148396 | E075 | 22.7258060 | 0.0150294608 | 1.055619e-05 | 6.978575e-05 | 9 | 136483510 | 136483698 | 189 | - | 1.567 | 1.177 | -1.356 |
| ENSG00000148396 | E076 | 14.5407673 | 0.0080271777 | 2.869404e-06 | 2.156373e-05 | 9 | 136483699 | 136484000 | 302 | - | 1.402 | 0.970 | -1.541 |