Isoforom Switch Analysis
WANG Ziyi
Date: 19 5月 2022
ENSG00000110321
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENST00000339995 | ENSG00000110321 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | EIF4G2 | protein_coding | protein_coding | 327.0281 | 170.4234 | 524.0029 | 54.10923 | 6.609956 | 1.620394 | 135.90149 | 74.2767290 | 227.01915 | 23.0510991 | 12.986565 | 1.611701 | 0.39040000 | 0.4557000 | 0.43390000 | -0.02180000 | 9.667103e-01 | 5.781183e-25 | FALSE | TRUE |
| ENST00000396525 | ENSG00000110321 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | EIF4G2 | protein_coding | protein_coding | 327.0281 | 170.4234 | 524.0029 | 54.10923 | 6.609956 | 1.620394 | 57.00569 | 21.7076054 | 99.77399 | 6.9121879 | 2.076444 | 2.199943 | 0.14675417 | 0.1280333 | 0.19050000 | 0.06246667 | 3.978755e-03 | 5.781183e-25 | FALSE | TRUE |
| ENST00000459187 | ENSG00000110321 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | EIF4G2 | protein_coding | snoRNA | 327.0281 | 170.4234 | 524.0029 | 54.10923 | 6.609956 | 1.620394 | 5.45023 | 0.3733833 | 31.15758 | 0.3733833 | 29.701091 | 6.345114 | 0.01307917 | 0.0060000 | 0.05826667 | 0.05226667 | 7.323588e-01 | 5.781183e-25 | FALSE | |
| ENST00000525681 | ENSG00000110321 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | EIF4G2 | protein_coding | protein_coding | 327.0281 | 170.4234 | 524.0029 | 54.10923 | 6.609956 | 1.620394 | 75.68928 | 39.1593496 | 117.54421 | 15.7663576 | 5.672648 | 1.585529 | 0.24692083 | 0.2114333 | 0.22450000 | 0.01306667 | 9.532265e-01 | 5.781183e-25 | FALSE | TRUE |
| MSTRG.5172.8 | ENSG00000110321 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | EIF4G2 | protein_coding | 327.0281 | 170.4234 | 524.0029 | 54.10923 | 6.609956 | 1.620394 | 22.20053 | 23.5949858 | 0.00000 | 10.1021320 | 0.000000 | -11.204876 | 0.11125417 | 0.1204333 | 0.00000000 | -0.12043333 | 5.781183e-25 | 5.781183e-25 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENSG00000110321 | E001 | 3.274313 | 7.612828e-03 | 4.542242e-01 | 6.689046e-01 | 11 | 10797050 | 10797052 | 3 | - | 0.544 | 0.681 | 0.602 |
| ENSG00000110321 | E002 | 3.435728 | 7.320964e-03 | 5.442079e-01 | 7.321015e-01 | 11 | 10797053 | 10797053 | 1 | - | 0.567 | 0.681 | 0.495 |
| ENSG00000110321 | E003 | 157.815387 | 1.599920e-02 | 1.337664e-02 | 7.194492e-02 | 11 | 10797054 | 10797099 | 46 | - | 2.081 | 2.295 | 0.717 |
| ENSG00000110321 | E004 | 233.657194 | 8.054709e-03 | 2.142395e-03 | 1.802876e-02 | 11 | 10797100 | 10797101 | 2 | - | 2.262 | 2.447 | 0.618 |
| ENSG00000110321 | E005 | 527.952287 | 2.220748e-03 | 1.230013e-12 | 1.236735e-10 | 11 | 10797102 | 10797156 | 55 | - | 2.599 | 2.828 | 0.761 |
| ENSG00000110321 | E006 | 723.706013 | 1.755657e-03 | 8.945033e-13 | 9.240099e-11 | 11 | 10797157 | 10797158 | 2 | - | 2.745 | 2.947 | 0.672 |
| ENSG00000110321 | E007 | 817.506686 | 2.013587e-03 | 2.439844e-13 | 2.828270e-11 | 11 | 10797159 | 10797169 | 11 | - | 2.794 | 3.007 | 0.710 |
| ENSG00000110321 | E008 | 947.485985 | 1.627899e-03 | 1.320448e-08 | 6.028022e-07 | 11 | 10797170 | 10797176 | 7 | - | 2.878 | 3.036 | 0.525 |
| ENSG00000110321 | E009 | 1358.061040 | 2.501568e-03 | 1.854258e-08 | 8.200407e-07 | 11 | 10797177 | 10797232 | 56 | - | 3.026 | 3.203 | 0.589 |
| ENSG00000110321 | E010 | 4683.628229 | 1.451641e-03 | 3.452655e-14 | 4.664600e-12 | 11 | 10797233 | 10797711 | 479 | - | 3.567 | 3.733 | 0.553 |
| ENSG00000110321 | E011 | 1105.628256 | 1.728039e-03 | 6.510128e-09 | 3.177837e-07 | 11 | 10797712 | 10797727 | 16 | - | 2.943 | 3.101 | 0.526 |
| ENSG00000110321 | E012 | 2404.959958 | 2.824775e-04 | 4.858551e-30 | 3.855578e-27 | 11 | 10797728 | 10797881 | 154 | - | 3.284 | 3.433 | 0.493 |
| ENSG00000110321 | E013 | 27.086591 | 7.559544e-02 | 2.683835e-01 | 5.080445e-01 | 11 | 10798743 | 10798991 | 249 | - | 1.442 | 1.241 | -0.700 |
| ENSG00000110321 | E014 | 2534.690952 | 3.532733e-04 | 1.282581e-16 | 2.420131e-14 | 11 | 10798992 | 10799113 | 122 | - | 3.317 | 3.435 | 0.392 |
| ENSG00000110321 | E015 | 3354.307588 | 5.571787e-04 | 1.097054e-08 | 5.097264e-07 | 11 | 10799213 | 10799424 | 212 | - | 3.446 | 3.540 | 0.314 |
| ENSG00000110321 | E016 | 31.092325 | 1.718571e-01 | 8.579134e-01 | 9.292652e-01 | 11 | 10799425 | 10799551 | 127 | - | 1.448 | 1.470 | 0.078 |
| ENSG00000110321 | E017 | 1752.233256 | 5.873138e-04 | 3.954999e-04 | 4.686692e-03 | 11 | 10799552 | 10799609 | 58 | - | 3.170 | 3.245 | 0.247 |
| ENSG00000110321 | E018 | 2527.944356 | 1.147326e-03 | 4.801408e-03 | 3.353994e-02 | 11 | 10799610 | 10799756 | 147 | - | 3.330 | 3.400 | 0.234 |
| ENSG00000110321 | E019 | 148.847180 | 1.371038e-01 | 2.524667e-01 | 4.905619e-01 | 11 | 10799757 | 10800089 | 333 | - | 2.175 | 1.935 | -0.803 |
| ENSG00000110321 | E020 | 1201.044169 | 1.351227e-03 | 9.513503e-02 | 2.732258e-01 | 11 | 10800090 | 10800091 | 2 | - | 3.011 | 3.068 | 0.192 |
| ENSG00000110321 | E021 | 2022.255065 | 7.237567e-04 | 4.791140e-02 | 1.748159e-01 | 11 | 10800092 | 10800168 | 77 | - | 3.239 | 3.290 | 0.170 |
| ENSG00000110321 | E022 | 1898.489112 | 3.736010e-04 | 1.533481e-01 | 3.671293e-01 | 11 | 10800169 | 10800243 | 75 | - | 3.216 | 3.255 | 0.132 |
| ENSG00000110321 | E023 | 2324.150456 | 1.139200e-03 | 2.720987e-01 | 5.119686e-01 | 11 | 10800244 | 10800348 | 105 | - | 3.302 | 3.346 | 0.148 |
| ENSG00000110321 | E024 | 2025.831232 | 7.254547e-05 | 6.383775e-01 | 7.959554e-01 | 11 | 10800432 | 10800530 | 99 | - | 3.249 | 3.275 | 0.085 |
| ENSG00000110321 | E025 | 2581.252511 | 7.802975e-05 | 5.364513e-03 | 3.651813e-02 | 11 | 10800531 | 10800647 | 117 | - | 3.362 | 3.359 | -0.012 |
| ENSG00000110321 | E026 | 2448.943728 | 3.625040e-04 | 1.312167e-03 | 1.224913e-02 | 11 | 10800731 | 10800835 | 105 | - | 3.343 | 3.322 | -0.070 |
| ENSG00000110321 | E027 | 1963.670147 | 2.148603e-04 | 5.087972e-01 | 7.070104e-01 | 11 | 10800962 | 10801054 | 93 | - | 3.240 | 3.252 | 0.042 |
| ENSG00000110321 | E028 | 1123.569084 | 7.714386e-05 | 9.392403e-03 | 5.550110e-02 | 11 | 10801055 | 10801087 | 33 | - | 3.003 | 2.991 | -0.040 |
| ENSG00000110321 | E029 | 14.998093 | 2.235913e-01 | 6.347965e-01 | 7.934211e-01 | 11 | 10801088 | 10801466 | 379 | - | 1.183 | 1.055 | -0.461 |
| ENSG00000110321 | E030 | 8.120746 | 5.300256e-01 | 9.926864e-01 | 9.979991e-01 | 11 | 10801467 | 10801608 | 142 | - | 0.954 | 0.776 | -0.686 |
| ENSG00000110321 | E031 | 1834.231741 | 7.240145e-05 | 2.054118e-02 | 9.782563e-02 | 11 | 10801661 | 10801774 | 114 | - | 3.214 | 3.212 | -0.008 |
| ENSG00000110321 | E032 | 33.605322 | 5.417153e-02 | 1.590196e-01 | 3.752752e-01 | 11 | 10801775 | 10802048 | 274 | - | 1.536 | 1.321 | -0.744 |
| ENSG00000110321 | E033 | 1310.140240 | 7.386916e-05 | 3.800298e-05 | 6.598283e-04 | 11 | 10802049 | 10802059 | 11 | - | 3.074 | 3.046 | -0.091 |
| ENSG00000110321 | E034 | 2428.624162 | 5.487408e-05 | 7.232330e-09 | 3.499191e-07 | 11 | 10802060 | 10802185 | 126 | - | 3.343 | 3.313 | -0.100 |
| ENSG00000110321 | E035 | 1423.623346 | 1.154119e-03 | 2.408911e-02 | 1.093498e-01 | 11 | 10802186 | 10802209 | 24 | - | 3.109 | 3.083 | -0.086 |
| ENSG00000110321 | E036 | 2850.427755 | 5.096819e-05 | 1.102591e-14 | 1.600388e-12 | 11 | 10802294 | 10802435 | 142 | - | 3.415 | 3.372 | -0.143 |
| ENSG00000110321 | E037 | 2662.958259 | 2.549218e-04 | 4.119213e-10 | 2.566167e-08 | 11 | 10803030 | 10803128 | 99 | - | 3.386 | 3.335 | -0.170 |
| ENSG00000110321 | E038 | 1856.594905 | 1.135690e-04 | 3.604880e-10 | 2.275471e-08 | 11 | 10803211 | 10803260 | 50 | - | 3.229 | 3.182 | -0.158 |
| ENSG00000110321 | E039 | 1649.157949 | 1.261767e-04 | 2.578436e-08 | 1.102411e-06 | 11 | 10803261 | 10803294 | 34 | - | 3.177 | 3.134 | -0.145 |
| ENSG00000110321 | E040 | 1555.300826 | 7.693668e-05 | 5.706324e-13 | 6.110120e-11 | 11 | 10803480 | 10803511 | 32 | - | 3.156 | 3.096 | -0.198 |
| ENSG00000110321 | E041 | 1663.723176 | 6.507807e-05 | 1.499793e-13 | 1.801268e-11 | 11 | 10803512 | 10803560 | 49 | - | 3.184 | 3.127 | -0.192 |
| ENSG00000110321 | E042 | 1422.807716 | 2.164311e-04 | 9.343572e-09 | 4.421158e-07 | 11 | 10803561 | 10803590 | 30 | - | 3.115 | 3.060 | -0.185 |
| ENSG00000110321 | E043 | 34.404820 | 2.432968e-01 | 4.100084e-01 | 6.360069e-01 | 11 | 10803591 | 10803898 | 308 | - | 1.542 | 1.340 | -0.695 |
| ENSG00000110321 | E044 | 1321.141048 | 8.493999e-04 | 8.119211e-05 | 1.257330e-03 | 11 | 10803899 | 10803941 | 43 | - | 3.083 | 3.027 | -0.185 |
| ENSG00000110321 | E045 | 1720.879641 | 1.118285e-04 | 1.991279e-05 | 3.807307e-04 | 11 | 10803942 | 10804050 | 109 | - | 3.192 | 3.166 | -0.088 |
| ENSG00000110321 | E046 | 20.084934 | 1.936015e-01 | 1.702001e-01 | 3.906881e-01 | 11 | 10804051 | 10804136 | 86 | - | 1.340 | 0.997 | -1.225 |
| ENSG00000110321 | E047 | 1227.574068 | 6.739762e-04 | 6.621738e-03 | 4.281082e-02 | 11 | 10804137 | 10804180 | 44 | - | 3.046 | 3.016 | -0.098 |
| ENSG00000110321 | E048 | 1109.052388 | 4.159653e-04 | 3.218254e-03 | 2.471325e-02 | 11 | 10804181 | 10804203 | 23 | - | 3.002 | 2.974 | -0.093 |
| ENSG00000110321 | E049 | 990.288388 | 2.271126e-04 | 2.126270e-03 | 1.791563e-02 | 11 | 10804287 | 10804291 | 5 | - | 2.952 | 2.927 | -0.085 |
| ENSG00000110321 | E050 | 979.296465 | 2.796035e-04 | 6.406467e-03 | 4.171007e-02 | 11 | 10804292 | 10804296 | 5 | - | 2.947 | 2.924 | -0.074 |
| ENSG00000110321 | E051 | 1347.850033 | 4.084244e-04 | 6.702356e-04 | 7.184788e-03 | 11 | 10804297 | 10804339 | 43 | - | 3.088 | 3.054 | -0.110 |
| ENSG00000110321 | E052 | 1082.750887 | 1.622244e-03 | 2.982211e-03 | 2.329139e-02 | 11 | 10804340 | 10804363 | 24 | - | 2.998 | 2.939 | -0.195 |
| ENSG00000110321 | E053 | 852.942827 | 1.954076e-03 | 1.254624e-02 | 6.862314e-02 | 11 | 10804364 | 10804371 | 8 | - | 2.893 | 2.841 | -0.173 |
| ENSG00000110321 | E054 | 895.173447 | 1.964786e-03 | 1.684923e-02 | 8.489503e-02 | 11 | 10804372 | 10804380 | 9 | - | 2.913 | 2.866 | -0.159 |
| ENSG00000110321 | E055 | 1218.093947 | 2.299369e-03 | 2.340510e-02 | 1.072453e-01 | 11 | 10804381 | 10804418 | 38 | - | 3.047 | 2.996 | -0.170 |
| ENSG00000110321 | E056 | 27.225931 | 1.770396e-01 | 2.218102e-01 | 4.557038e-01 | 11 | 10804419 | 10804912 | 494 | - | 1.460 | 1.174 | -0.998 |
| ENSG00000110321 | E057 | 883.968421 | 1.015068e-04 | 4.497331e-06 | 1.050262e-04 | 11 | 10804913 | 10804915 | 3 | - | 2.908 | 2.863 | -0.151 |
| ENSG00000110321 | E058 | 973.984984 | 9.052707e-05 | 2.762405e-09 | 1.468473e-07 | 11 | 10804916 | 10804926 | 11 | - | 2.954 | 2.893 | -0.203 |
| ENSG00000110321 | E059 | 983.439021 | 1.102972e-04 | 1.901948e-07 | 6.591723e-06 | 11 | 10804927 | 10804945 | 19 | - | 2.956 | 2.905 | -0.172 |
| ENSG00000110321 | E060 | 1137.265905 | 7.951738e-04 | 2.211665e-07 | 7.529903e-06 | 11 | 10804946 | 10804984 | 39 | - | 3.025 | 2.943 | -0.273 |
| ENSG00000110321 | E061 | 938.714380 | 1.134093e-03 | 1.604263e-04 | 2.223644e-03 | 11 | 10804985 | 10805015 | 31 | - | 2.939 | 2.870 | -0.229 |
| ENSG00000110321 | E062 | 1280.943441 | 5.527032e-04 | 4.943792e-12 | 4.504129e-10 | 11 | 10805907 | 10805940 | 34 | - | 3.081 | 2.984 | -0.322 |
| ENSG00000110321 | E063 | 1511.459175 | 1.396711e-03 | 2.555163e-04 | 3.278820e-03 | 11 | 10805941 | 10806010 | 70 | - | 3.145 | 3.077 | -0.225 |
| ENSG00000110321 | E064 | 923.604698 | 1.737968e-03 | 1.377385e-02 | 7.343772e-02 | 11 | 10806011 | 10806024 | 14 | - | 2.927 | 2.878 | -0.163 |
| ENSG00000110321 | E065 | 888.493154 | 1.324574e-03 | 1.897399e-03 | 1.638306e-02 | 11 | 10806025 | 10806047 | 23 | - | 2.912 | 2.856 | -0.189 |
| ENSG00000110321 | E066 | 55.031030 | 2.661907e-01 | 3.464850e-02 | 1.406572e-01 | 11 | 10806048 | 10806502 | 455 | - | 1.789 | 1.230 | -1.922 |
| ENSG00000110321 | E067 | 34.785966 | 1.325175e-01 | 2.993050e-03 | 2.336100e-02 | 11 | 10806503 | 10806819 | 317 | - | 1.601 | 0.965 | -2.242 |
| ENSG00000110321 | E068 | 1124.025145 | 1.686454e-03 | 1.319256e-02 | 7.121651e-02 | 11 | 10806820 | 10806885 | 66 | - | 3.011 | 2.966 | -0.149 |
| ENSG00000110321 | E069 | 12.482618 | 4.547592e-01 | 6.945587e-01 | 8.320310e-01 | 11 | 10806886 | 10807073 | 188 | - | 1.095 | 1.043 | -0.190 |
| ENSG00000110321 | E070 | 12.193731 | 4.446193e-01 | 6.195894e-01 | 7.835349e-01 | 11 | 10807074 | 10807254 | 181 | - | 1.095 | 1.001 | -0.346 |
| ENSG00000110321 | E071 | 789.641625 | 1.797123e-03 | 5.299272e-02 | 1.867112e-01 | 11 | 10807255 | 10807288 | 34 | - | 2.855 | 2.819 | -0.120 |
| ENSG00000110321 | E072 | 630.832026 | 3.343562e-03 | 4.598851e-02 | 1.700171e-01 | 11 | 10807289 | 10807309 | 21 | - | 2.761 | 2.710 | -0.171 |
| ENSG00000110321 | E073 | 439.741113 | 4.420370e-03 | 2.765370e-02 | 1.202713e-01 | 11 | 10807310 | 10807319 | 10 | - | 2.610 | 2.534 | -0.251 |
| ENSG00000110321 | E074 | 511.807762 | 1.565728e-03 | 8.579047e-01 | 9.292652e-01 | 11 | 10807320 | 10807381 | 62 | - | 2.655 | 2.669 | 0.046 |
| ENSG00000110321 | E075 | 15.942251 | 7.030797e-02 | 8.779932e-02 | 2.596199e-01 | 11 | 10807382 | 10807533 | 152 | - | 1.242 | 0.973 | -0.974 |
| ENSG00000110321 | E076 | 4.156495 | 1.228807e-02 | 1.725799e-01 | 3.938987e-01 | 11 | 10807534 | 10807548 | 15 | - | 0.719 | 0.500 | -0.968 |
| ENSG00000110321 | E077 | 13.875328 | 3.182368e-01 | 5.311556e-01 | 7.228774e-01 | 11 | 10807549 | 10807744 | 196 | - | 1.158 | 1.008 | -0.544 |
| ENSG00000110321 | E078 | 14.380635 | 4.503470e-01 | 4.727115e-01 | 6.819745e-01 | 11 | 10807745 | 10808084 | 340 | - | 1.168 | 1.040 | -0.461 |
| ENSG00000110321 | E079 | 4.446410 | 2.779537e-01 | 9.452527e-01 | 9.748966e-01 | 11 | 10808174 | 10808276 | 103 | - | 0.695 | 0.647 | -0.202 |
| ENSG00000110321 | E080 | 6.480286 | 4.610431e-02 | 9.292723e-01 | 9.666702e-01 | 11 | 10808277 | 10808508 | 232 | - | 0.831 | 0.808 | -0.090 |
| ENSG00000110321 | E081 | 4.811248 | 2.630390e-01 | 8.286395e-01 | 9.130367e-01 | 11 | 10808509 | 10808630 | 122 | - | 0.712 | 0.738 | 0.107 |
| ENSG00000110321 | E082 | 381.606383 | 2.397281e-03 | 3.871180e-01 | 6.182357e-01 | 11 | 10808705 | 10808743 | 39 | - | 2.520 | 2.563 | 0.143 |
| ENSG00000110321 | E083 | 736.487761 | 6.955663e-03 | 7.135371e-01 | 8.440723e-01 | 11 | 10808744 | 10808881 | 138 | - | 2.809 | 2.834 | 0.082 |
| ENSG00000110321 | E084 | 443.183914 | 9.715084e-03 | 5.970516e-01 | 7.683959e-01 | 11 | 10808882 | 10809051 | 170 | - | 2.586 | 2.623 | 0.124 |