ENSG00000060138

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
ENST00000228251 ENSG00000060138 HEK293_OSMI2_6hA HEK293_TMG_6hB YBX3 protein_coding protein_coding 240.6364 262.9044 202.1876 44.41782 3.637851 -0.3788272 114.93246 135.74875 54.91053 32.194908 2.3488959 -1.3056277 0.4612208 0.50146667 0.2714333 -0.2300333 0.007699036 2.366154e-19 FALSE TRUE
ENST00000279550 ENSG00000060138 HEK293_OSMI2_6hA HEK293_TMG_6hB YBX3 protein_coding protein_coding 240.6364 262.9044 202.1876 44.41782 3.637851 -0.3788272 35.46667 38.99050 25.86873 7.508584 0.8810476 -0.5917260 0.1457583 0.14730000 0.1280000 -0.0193000 0.666408867 2.366154e-19 FALSE TRUE
ENST00000540975 ENSG00000060138 HEK293_OSMI2_6hA HEK293_TMG_6hB YBX3 protein_coding processed_transcript 240.6364 262.9044 202.1876 44.41782 3.637851 -0.3788272 25.26455 22.95787 31.99001 2.603791 0.8903180 0.4784555 0.1053500 0.09083333 0.1584333 0.0676000 0.084175856 2.366154e-19 FALSE TRUE
MSTRG.6788.6 ENSG00000060138 HEK293_OSMI2_6hA HEK293_TMG_6hB YBX3 protein_coding   240.6364 262.9044 202.1876 44.41782 3.637851 -0.3788272 38.87260 46.53013 54.79614 6.150750 2.5193794 0.2358623 0.1725292 0.18403333 0.2708333 0.0868000 0.329754226 2.366154e-19 FALSE FALSE
  • 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
ENSG00000060138 E001 472.2297157 1.332080601 3.179718e-01 5.579081e-01 12 10699089 10699226 138 - 2.370 2.745 1.249
ENSG00000060138 E002 726.6760517 1.510007147 3.806545e-01 6.127465e-01 12 10699227 10699316 90 - 2.596 2.923 1.090
ENSG00000060138 E003 1092.1599465 1.704843727 4.946593e-01 6.972031e-01 12 10699317 10699426 110 - 2.857 3.077 0.730
ENSG00000060138 E004 1053.7941933 1.721686307 5.400530e-01 7.290339e-01 12 10699427 10699477 51 - 2.883 3.048 0.550
ENSG00000060138 E005 1738.6369987 1.888406523 5.737626e-01 7.528262e-01 12 10699478 10699609 132 - 3.114 3.260 0.484
ENSG00000060138 E006 1182.2108893 1.757457577 5.387465e-01 7.281196e-01 12 10699610 10699654 45 - 2.932 3.098 0.551
ENSG00000060138 E007 4.4883484 0.006231203 5.108916e-03 3.519293e-02 12 10701253 10701253 1 - 0.934 0.579 -1.441
ENSG00000060138 E008 983.8611444 0.154034879 2.577126e-01 4.964738e-01 12 10701254 10701273 20 - 2.871 3.012 0.466
ENSG00000060138 E009 844.1218918 0.127730830 2.485055e-01 4.863039e-01 12 10701274 10701274 1 - 2.806 2.945 0.461
ENSG00000060138 E010 1559.7998923 0.024481451 1.854230e-01 4.111217e-01 12 10701275 10701353 79 - 3.097 3.202 0.350
ENSG00000060138 E011 1299.7709158 0.000149390 1.074029e-03 1.048522e-02 12 10701960 10702009 50 - 3.043 3.118 0.250
ENSG00000060138 E012 1818.4125211 0.004703146 9.641379e-01 9.839357e-01 12 10702010 10702134 125 - 3.204 3.251 0.157
ENSG00000060138 E013 6.1981151 0.093043606 2.711944e-01 5.111832e-01 12 10702135 10702258 124 - 0.936 0.772 -0.635
ENSG00000060138 E014 4.8882683 0.172181198 2.071483e-01 4.383839e-01 12 10702259 10702411 153 - 0.888 0.656 -0.930
ENSG00000060138 E015 14.1491704 0.270169265 8.826607e-01 9.426894e-01 12 10702412 10702512 101 - 1.159 1.159 0.000
ENSG00000060138 E016 22.5146276 0.095807560 2.203269e-04 2.896916e-03 12 10702513 10703522 1010 - 1.637 1.070 -1.977
ENSG00000060138 E017 7.0471612 0.352993485 8.345882e-02 2.516866e-01 12 10703523 10703619 97 - 1.104 0.710 -1.506
ENSG00000060138 E018 13.7194910 0.030454064 4.655462e-08 1.870368e-06 12 10703620 10704022 403 - 1.451 0.820 -2.281
ENSG00000060138 E019 5.1078876 0.005778282 1.358098e-03 1.259550e-02 12 10704023 10704050 28 - 0.977 0.580 -1.601
ENSG00000060138 E020 826.3267218 0.009388953 4.805938e-01 6.874912e-01 12 10704051 10704059 9 - 2.882 2.899 0.056
ENSG00000060138 E021 1491.6769465 0.013731142 4.487725e-01 6.648280e-01 12 10704060 10704148 89 - 3.143 3.153 0.032
ENSG00000060138 E022 3.1306826 0.066075340 2.121516e-01 4.442993e-01 12 10704149 10704438 290 - 0.702 0.523 -0.789
ENSG00000060138 E023 1723.7681638 0.017173506 9.278432e-01 9.659765e-01 12 10709908 10710114 207 - 3.181 3.228 0.154
ENSG00000060138 E024 76.3557357 0.048961643 5.971582e-09 2.935142e-07 12 10710115 10710350 236 - 2.178 1.529 -2.189
ENSG00000060138 E025 106.1616088 0.028505974 2.510639e-11 2.017815e-09 12 10710351 10710533 183 - 2.294 1.723 -1.915
ENSG00000060138 E026 104.3799024 0.041918117 4.382111e-06 1.026885e-04 12 10710534 10710653 120 - 2.244 1.787 -1.533
ENSG00000060138 E027 90.9952786 0.048968167 7.308357e-05 1.151004e-03 12 10710654 10710788 135 - 2.170 1.749 -1.415
ENSG00000060138 E028 317.5653464 0.094547222 2.249981e-07 7.641971e-06 12 10710789 10713210 2422 - 2.823 2.065 -2.529
ENSG00000060138 E029 988.6474301 0.013422595 9.899253e-01 9.966895e-01 12 10713211 10713228 18 - 2.938 2.987 0.165
ENSG00000060138 E030 1744.6755396 0.014953457 4.898758e-01 6.939064e-01 12 10713229 10713333 105 - 3.211 3.221 0.033
ENSG00000060138 E031 899.7672235 0.013714499 2.144643e-01 4.468941e-01 12 10715694 10715694 1 - 2.947 2.922 -0.081
ENSG00000060138 E032 1667.6713157 0.016512201 6.633336e-02 2.168246e-01 12 10715695 10715783 89 - 3.239 3.176 -0.208
ENSG00000060138 E033 21.6727315 0.087057951 1.385722e-04 1.963448e-03 12 10715784 10716148 365 - 1.619 1.048 -1.997
ENSG00000060138 E034 8.7616279 0.181033506 2.472468e-04 3.189138e-03 12 10717713 10717777 65 - 1.316 0.548 -2.958
ENSG00000060138 E035 9.0856270 0.087830018 3.204089e-06 7.852908e-05 12 10717808 10718012 205 - 1.332 0.553 -2.993
ENSG00000060138 E036 5.7170699 0.005861454 6.101748e-08 2.383204e-06 12 10718013 10718087 75 - 1.130 0.457 -2.747
ENSG00000060138 E037 1043.3131803 0.018907255 2.373825e-02 1.082839e-01 12 10718088 10718116 29 - 3.059 2.958 -0.337
ENSG00000060138 E038 719.9995301 0.021577710 3.177138e-02 1.325418e-01 12 10718117 10718121 5 - 2.902 2.794 -0.358
ENSG00000060138 E039 1.6160764 0.202691238 1.802116e-02 8.910523e-02 12 10718362 10718430 69 - 0.661 0.166 -2.939
ENSG00000060138 E040 946.5720440 0.019040728 4.910411e-02 1.774521e-01 12 10719080 10719143 64 - 3.005 2.923 -0.275
ENSG00000060138 E041 1.0291572 0.325421420 4.855489e-02   12 10720791 10720932 142 - 0.518 0.092 -3.287
ENSG00000060138 E042 0.7970432 0.017330251 3.142456e-02   12 10721918 10722046 129 - 0.445 0.091 -2.937
ENSG00000060138 E043 3.1246790 0.013040681 5.095802e-07 1.572854e-05 12 10722060 10722654 595 - 0.935 0.166 -4.026
ENSG00000060138 E044 0.6957271 0.020760805 4.748141e-01   12 10722655 10722849 195 - 0.277 0.166 -0.936
ENSG00000060138 E045 797.3277606 0.027404987 4.438938e-01 6.612866e-01 12 10722850 10723323 474 - 2.799 2.913 0.382