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_6hA | HEK293_TMG_6hB | SEC16A | protein_coding | protein_coding | 41.95945 | 60.13704 | 25.55834 | 7.302256 | 1.777106 | -1.234135 | 3.540060 | 7.9678281 | 0.000000 | 1.3385660 | 0.0000000 | -9.63985222 | 0.06266667 | 0.13110000 | 0.00000000 | -0.13110000 | 1.265423e-25 | 1.265423e-25 | FALSE | TRUE |
| ENST00000313050 | ENSG00000148396 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | SEC16A | protein_coding | protein_coding | 41.95945 | 60.13704 | 25.55834 | 7.302256 | 1.777106 | -1.234135 | 8.272928 | 10.8514277 | 10.703744 | 0.4388178 | 0.2059082 | -0.01975103 | 0.24711250 | 0.18460000 | 0.42200000 | 0.23740000 | 9.177024e-06 | 1.265423e-25 | FALSE | TRUE |
| ENST00000371706 | ENSG00000148396 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | SEC16A | protein_coding | protein_coding | 41.95945 | 60.13704 | 25.55834 | 7.302256 | 1.777106 | -1.234135 | 3.196350 | 5.1846949 | 1.704879 | 1.3665385 | 0.2778263 | -1.59893258 | 0.07552083 | 0.08356667 | 0.06796667 | -0.01560000 | 8.660258e-01 | 1.265423e-25 | FALSE | TRUE |
| ENST00000453963 | ENSG00000148396 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | SEC16A | protein_coding | protein_coding | 41.95945 | 60.13704 | 25.55834 | 7.302256 | 1.777106 | -1.234135 | 3.689181 | 6.5139601 | 1.410721 | 0.7434864 | 0.7306642 | -2.19912486 | 0.07740833 | 0.10853333 | 0.05933333 | -0.04920000 | 7.810897e-01 | 1.265423e-25 | FALSE | TRUE |
| ENST00000467838 | ENSG00000148396 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | SEC16A | protein_coding | processed_transcript | 41.95945 | 60.13704 | 25.55834 | 7.302256 | 1.777106 | -1.234135 | 12.034281 | 14.4112977 | 2.949803 | 2.0541469 | 1.5278199 | -2.28462776 | 0.23012500 | 0.23866667 | 0.10776667 | -0.13090000 | 7.391239e-01 | 1.265423e-25 | FALSE | |
| MSTRG.33642.1 | ENSG00000148396 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | SEC16A | protein_coding | 41.95945 | 60.13704 | 25.55834 | 7.302256 | 1.777106 | -1.234135 | 2.541705 | 6.0757230 | 1.556905 | 1.3294808 | 0.9030973 | -1.95751095 | 0.06072917 | 0.09940000 | 0.06266667 | -0.03673333 | 8.240069e-01 | 1.265423e-25 | FALSE | TRUE | |
| MSTRG.33642.24 | ENSG00000148396 | HEK293_OSMI2_6hA | HEK293_TMG_6hB | SEC16A | protein_coding | 41.95945 | 60.13704 | 25.55834 | 7.302256 | 1.777106 | -1.234135 | 1.466286 | 0.8951146 | 2.504598 | 0.4482630 | 0.8371413 | 1.47415530 | 0.05147500 | 0.01673333 | 0.09623333 | 0.07950000 | 4.617537e-01 | 1.265423e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENSG00000148396 | E001 | 0.3336024 | 0.0244411696 | 6.290937e-01 | 9 | 136440096 | 136440096 | 1 | - | 0.000 | 0.158 | 9.577 | |
| ENSG00000148396 | E002 | 1.0715757 | 0.0330244362 | 4.205665e-01 | 9 | 136440097 | 136440100 | 4 | - | 0.169 | 0.363 | 1.457 | |
| ENSG00000148396 | E003 | 2.0005168 | 0.2203977852 | 1.952922e-01 | 4.237108e-01 | 9 | 136440101 | 136440102 | 2 | - | 0.168 | 0.550 | 2.432 |
| ENSG00000148396 | E004 | 3.8585866 | 0.1521949252 | 9.436758e-02 | 2.718539e-01 | 9 | 136440103 | 136440104 | 2 | - | 0.290 | 0.769 | 2.360 |
| ENSG00000148396 | E005 | 7.4088663 | 0.0729313247 | 1.581212e-02 | 8.112936e-02 | 9 | 136440105 | 136440111 | 7 | - | 0.463 | 1.005 | 2.259 |
| ENSG00000148396 | E006 | 14.4642965 | 0.0663139950 | 1.043681e-03 | 1.024396e-02 | 9 | 136440112 | 136440119 | 8 | - | 0.637 | 1.277 | 2.428 |
| ENSG00000148396 | E007 | 17.0038059 | 0.1864884084 | 4.177284e-02 | 1.593260e-01 | 9 | 136440120 | 136440137 | 18 | - | 0.856 | 1.322 | 1.693 |
| ENSG00000148396 | E008 | 25.6765912 | 0.1581479238 | 2.351470e-01 | 4.710735e-01 | 9 | 136440138 | 136440144 | 7 | - | 1.199 | 1.461 | 0.914 |
| ENSG00000148396 | E009 | 34.0202481 | 0.2240230914 | 1.686042e-01 | 3.887166e-01 | 9 | 136440145 | 136440146 | 2 | - | 1.256 | 1.591 | 1.160 |
| ENSG00000148396 | E010 | 60.9434256 | 0.3945744062 | 2.079066e-01 | 4.392987e-01 | 9 | 136440147 | 136440159 | 13 | - | 1.509 | 1.837 | 1.113 |
| ENSG00000148396 | E011 | 127.3300386 | 0.5717556027 | 1.579117e-01 | 3.736005e-01 | 9 | 136440160 | 136440205 | 46 | - | 1.736 | 2.169 | 1.457 |
| ENSG00000148396 | E012 | 279.6330875 | 1.1303212881 | 3.121411e-01 | 5.524679e-01 | 9 | 136440206 | 136440309 | 104 | - | 2.119 | 2.501 | 1.275 |
| ENSG00000148396 | E013 | 275.4539014 | 1.1445020837 | 3.368556e-01 | 5.752377e-01 | 9 | 136440310 | 136440357 | 48 | - | 2.134 | 2.490 | 1.190 |
| ENSG00000148396 | E014 | 422.2731635 | 1.3037282542 | 3.631730e-01 | 5.982766e-01 | 9 | 136440358 | 136440499 | 142 | - | 2.320 | 2.675 | 1.184 |
| ENSG00000148396 | E015 | 1279.2453844 | 1.7035806802 | 4.401442e-01 | 6.588390e-01 | 9 | 136440500 | 136441391 | 892 | - | 2.832 | 3.149 | 1.054 |
| ENSG00000148396 | E016 | 332.1729515 | 1.2661690587 | 4.222411e-01 | 6.453162e-01 | 9 | 136441392 | 136441597 | 206 | - | 2.282 | 2.557 | 0.916 |
| ENSG00000148396 | E017 | 77.6550476 | 0.4773613599 | 2.396819e-01 | 4.762983e-01 | 9 | 136441598 | 136441600 | 3 | - | 1.637 | 1.935 | 1.007 |
| ENSG00000148396 | E018 | 117.4870444 | 0.6266548321 | 2.773757e-01 | 5.174188e-01 | 9 | 136441601 | 136441619 | 19 | - | 1.817 | 2.112 | 0.989 |
| ENSG00000148396 | E019 | 166.6800405 | 0.9914342064 | 3.648292e-01 | 5.997598e-01 | 9 | 136441620 | 136441678 | 59 | - | 1.970 | 2.262 | 0.977 |
| ENSG00000148396 | E020 | 180.5078827 | 1.0164154111 | 3.574042e-01 | 5.936102e-01 | 9 | 136441679 | 136441754 | 76 | - | 1.996 | 2.298 | 1.011 |
| ENSG00000148396 | E021 | 174.7040388 | 0.9998017896 | 3.481611e-01 | 5.856239e-01 | 9 | 136441755 | 136441823 | 69 | - | 1.978 | 2.285 | 1.027 |
| ENSG00000148396 | E022 | 183.8345119 | 1.0272991179 | 3.594894e-01 | 5.954303e-01 | 9 | 136443823 | 136443900 | 78 | - | 2.008 | 2.305 | 0.996 |
| ENSG00000148396 | E023 | 13.3515972 | 0.3158437308 | 9.357330e-01 | 9.700633e-01 | 9 | 136443901 | 136444082 | 182 | - | 1.162 | 1.108 | -0.194 |
| ENSG00000148396 | E024 | 99.0390382 | 0.5617497178 | 2.433272e-01 | 4.803901e-01 | 9 | 136445052 | 136445111 | 60 | - | 1.739 | 2.040 | 1.012 |
| ENSG00000148396 | E025 | 152.0002966 | 0.9305920131 | 3.163805e-01 | 5.564106e-01 | 9 | 136445645 | 136445719 | 75 | - | 1.905 | 2.228 | 1.081 |
| ENSG00000148396 | E026 | 226.0096711 | 1.0829606676 | 3.430550e-01 | 5.807221e-01 | 9 | 136446855 | 136446949 | 95 | - | 2.070 | 2.400 | 1.102 |
| ENSG00000148396 | E027 | 60.7948405 | 0.4374613553 | 3.070670e-01 | 5.476767e-01 | 9 | 136446950 | 136447006 | 57 | - | 1.583 | 1.818 | 0.798 |
| ENSG00000148396 | E028 | 33.6218941 | 0.2504569784 | 3.289131e-01 | 5.678729e-01 | 9 | 136447007 | 136447015 | 9 | - | 1.362 | 1.559 | 0.678 |
| ENSG00000148396 | E029 | 2.6216119 | 0.3600812718 | 3.531552e-01 | 5.901431e-01 | 9 | 136447016 | 136447039 | 24 | - | 0.680 | 0.447 | -1.073 |
| ENSG00000148396 | E030 | 228.4087629 | 0.3458330485 | 2.212933e-01 | 4.550547e-01 | 9 | 136447227 | 136447361 | 135 | - | 2.128 | 2.393 | 0.884 |
| ENSG00000148396 | E031 | 83.3991416 | 0.1299732402 | 2.212235e-01 | 4.549607e-01 | 9 | 136447362 | 136447364 | 3 | - | 1.734 | 1.949 | 0.726 |
| ENSG00000148396 | E032 | 183.5365267 | 0.0158434867 | 5.747716e-02 | 1.971217e-01 | 9 | 136447569 | 136447680 | 112 | - | 2.092 | 2.285 | 0.643 |
| ENSG00000148396 | E033 | 164.7882742 | 0.0002566716 | 5.885828e-01 | 7.627408e-01 | 9 | 136447853 | 136447909 | 57 | - | 2.146 | 2.207 | 0.203 |
| ENSG00000148396 | E034 | 1.3492551 | 1.1396060963 | 1.000000e+00 | 9 | 136448009 | 136448083 | 75 | - | 0.165 | 0.415 | 1.793 | |
| ENSG00000148396 | E035 | 197.8921509 | 0.0045861818 | 2.691166e-01 | 5.088877e-01 | 9 | 136448084 | 136448161 | 78 | - | 2.240 | 2.275 | 0.118 |
| ENSG00000148396 | E036 | 0.8730907 | 1.0342608434 | 6.675223e-01 | 9 | 136448250 | 136448620 | 371 | - | 0.301 | 0.225 | -0.554 | |
| ENSG00000148396 | E037 | 0.8868825 | 0.0602541206 | 5.766648e-01 | 9 | 136448621 | 136448842 | 222 | - | 0.291 | 0.220 | -0.531 | |
| ENSG00000148396 | E038 | 1.3078918 | 0.3456572072 | 6.053865e-01 | 9 | 136450818 | 136450881 | 64 | - | 0.454 | 0.313 | -0.802 | |
| ENSG00000148396 | E039 | 245.8540836 | 0.0199599625 | 6.767425e-01 | 8.206606e-01 | 9 | 136451256 | 136451408 | 153 | - | 2.319 | 2.375 | 0.186 |
| ENSG00000148396 | E040 | 3.2421217 | 0.3397094907 | 8.442243e-01 | 9.216948e-01 | 9 | 136451409 | 136452346 | 938 | - | 0.469 | 0.642 | 0.802 |
| ENSG00000148396 | E041 | 172.7186521 | 0.0257093846 | 8.651035e-01 | 9.332169e-01 | 9 | 136453428 | 136453510 | 83 | - | 2.135 | 2.234 | 0.331 |
| ENSG00000148396 | E042 | 277.3796172 | 0.0260344092 | 7.197074e-01 | 8.480279e-01 | 9 | 136454109 | 136454327 | 219 | - | 2.326 | 2.444 | 0.394 |
| ENSG00000148396 | E043 | 292.4304778 | 0.0148813193 | 7.343748e-01 | 8.568858e-01 | 9 | 136455601 | 136455793 | 193 | - | 2.356 | 2.465 | 0.362 |
| ENSG00000148396 | E044 | 267.1607131 | 0.0069580429 | 8.499567e-01 | 9.249568e-01 | 9 | 136456053 | 136456166 | 114 | - | 2.342 | 2.417 | 0.250 |
| ENSG00000148396 | E045 | 271.0709438 | 0.0029528936 | 9.531001e-01 | 9.785221e-01 | 9 | 136457444 | 136457584 | 141 | - | 2.346 | 2.424 | 0.260 |
| ENSG00000148396 | E046 | 255.4704834 | 0.0069143303 | 5.759642e-01 | 7.543843e-01 | 9 | 136459134 | 136459239 | 106 | - | 2.336 | 2.391 | 0.185 |
| ENSG00000148396 | E047 | 280.8139733 | 0.0083890761 | 1.164618e-01 | 3.098886e-01 | 9 | 136459444 | 136459555 | 112 | - | 2.413 | 2.418 | 0.015 |
| ENSG00000148396 | E048 | 297.3754133 | 0.0125743042 | 4.332145e-02 | 1.633976e-01 | 9 | 136459757 | 136459874 | 118 | - | 2.465 | 2.430 | -0.116 |
| ENSG00000148396 | E049 | 241.5908503 | 0.0079705143 | 2.255638e-02 | 1.044232e-01 | 9 | 136460042 | 136460123 | 82 | - | 2.372 | 2.342 | -0.099 |
| ENSG00000148396 | E050 | 250.5969112 | 0.0035043472 | 6.318410e-02 | 2.098636e-01 | 9 | 136461177 | 136461274 | 98 | - | 2.359 | 2.371 | 0.040 |
| ENSG00000148396 | E051 | 171.8009155 | 0.0063111201 | 2.990202e-01 | 5.394531e-01 | 9 | 136462887 | 136462942 | 56 | - | 2.181 | 2.214 | 0.109 |
| ENSG00000148396 | E052 | 166.6939058 | 0.0041126961 | 7.501568e-02 | 2.348577e-01 | 9 | 136462943 | 136462993 | 51 | - | 2.187 | 2.192 | 0.016 |
| ENSG00000148396 | E053 | 271.6923860 | 0.0093555154 | 1.054542e-02 | 6.043242e-02 | 9 | 136462994 | 136463132 | 139 | - | 2.436 | 2.385 | -0.167 |
| ENSG00000148396 | E054 | 206.7800821 | 0.0019388894 | 8.162371e-04 | 8.414219e-03 | 9 | 136463463 | 136463585 | 123 | - | 2.307 | 2.273 | -0.113 |
| ENSG00000148396 | E055 | 99.0572304 | 0.0057102891 | 2.728082e-01 | 5.126263e-01 | 9 | 136463586 | 136463601 | 16 | - | 1.954 | 1.977 | 0.078 |
| ENSG00000148396 | E056 | 11.3641739 | 0.0683872399 | 9.610798e-02 | 2.749090e-01 | 9 | 136463602 | 136463678 | 77 | - | 1.175 | 0.997 | -0.646 |
| ENSG00000148396 | E057 | 148.6920103 | 0.0003886500 | 4.131471e-01 | 6.384752e-01 | 9 | 136463679 | 136463740 | 62 | - | 2.109 | 2.160 | 0.171 |
| ENSG00000148396 | E058 | 182.0894568 | 0.0064073880 | 2.902185e-02 | 1.244182e-01 | 9 | 136464420 | 136464526 | 107 | - | 2.245 | 2.223 | -0.076 |
| ENSG00000148396 | E059 | 120.6628970 | 0.0084195663 | 3.060916e-02 | 1.291880e-01 | 9 | 136464527 | 136464562 | 36 | - | 2.078 | 2.038 | -0.135 |
| ENSG00000148396 | E060 | 211.2581742 | 0.0131355597 | 1.507462e-01 | 3.633564e-01 | 9 | 136465962 | 136466136 | 175 | - | 2.296 | 2.292 | -0.012 |
| ENSG00000148396 | E061 | 151.9606041 | 0.0135215168 | 2.753104e-01 | 5.153550e-01 | 9 | 136466264 | 136466384 | 121 | - | 2.142 | 2.158 | 0.051 |
| ENSG00000148396 | E062 | 151.0143217 | 0.0114340739 | 1.502325e-03 | 1.363744e-02 | 9 | 136466385 | 136466462 | 78 | - | 2.220 | 2.115 | -0.354 |
| ENSG00000148396 | E063 | 211.0123003 | 0.0080707468 | 1.644818e-03 | 1.463293e-02 | 9 | 136466957 | 136467083 | 127 | - | 2.345 | 2.269 | -0.252 |
| ENSG00000148396 | E064 | 183.1150798 | 0.0030424765 | 8.189767e-07 | 2.389709e-05 | 9 | 136468415 | 136468512 | 98 | - | 2.304 | 2.197 | -0.358 |
| ENSG00000148396 | E065 | 215.0167666 | 0.0066205075 | 2.382794e-02 | 1.085835e-01 | 9 | 136471975 | 136472111 | 137 | - | 2.318 | 2.294 | -0.081 |
| ENSG00000148396 | E066 | 402.2594991 | 0.0036451729 | 3.444345e-03 | 2.600840e-02 | 9 | 136474049 | 136474486 | 438 | - | 2.587 | 2.566 | -0.071 |
| ENSG00000148396 | E067 | 62.2525693 | 0.0148197780 | 5.754444e-02 | 1.972679e-01 | 9 | 136474487 | 136474489 | 3 | - | 1.809 | 1.748 | -0.209 |
| ENSG00000148396 | E068 | 497.4201152 | 0.0151961001 | 5.383000e-04 | 6.021720e-03 | 9 | 136474490 | 136475197 | 708 | - | 2.748 | 2.620 | -0.425 |
| ENSG00000148396 | E069 | 515.1378741 | 0.0135353173 | 6.505626e-04 | 7.012996e-03 | 9 | 136475198 | 136475937 | 740 | - | 2.753 | 2.641 | -0.375 |
| ENSG00000148396 | E070 | 707.5787549 | 0.0138854267 | 2.291222e-05 | 4.291411e-04 | 9 | 136475938 | 136477115 | 1178 | - | 2.918 | 2.762 | -0.521 |
| ENSG00000148396 | E071 | 382.4410838 | 0.0117115725 | 6.794964e-07 | 2.031944e-05 | 9 | 136477116 | 136477684 | 569 | - | 2.673 | 2.481 | -0.640 |
| ENSG00000148396 | E072 | 0.1308682 | 0.0307940554 | 1.000000e+00 | 9 | 136477685 | 136477689 | 5 | - | 0.000 | 0.086 | 8.569 | |
| ENSG00000148396 | E073 | 4.4421923 | 0.0059329763 | 1.958960e-01 | 4.244460e-01 | 9 | 136478709 | 136478830 | 122 | - | 0.795 | 0.673 | -0.497 |
| ENSG00000148396 | E074 | 69.7786392 | 0.0055916247 | 7.398002e-04 | 7.778300e-03 | 9 | 136482938 | 136483112 | 175 | - | 1.895 | 1.784 | -0.375 |
| ENSG00000148396 | E075 | 18.8742995 | 0.2979945655 | 8.517936e-01 | 9.260705e-01 | 9 | 136483510 | 136483698 | 189 | - | 1.270 | 1.266 | -0.013 |
| ENSG00000148396 | E076 | 9.7225106 | 0.1163677674 | 8.734624e-01 | 9.378641e-01 | 9 | 136483699 | 136484000 | 302 | - | 0.951 | 1.019 | 0.249 |