ENSG00000140455

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
ENST00000380324 ENSG00000140455 HEK293_OSMI2_6hA HEK293_TMG_6hB USP3 protein_coding protein_coding 6.588331 4.002697 9.988621 0.5671294 0.5082288 1.317157 1.2525267 0.8476410 1.4014172 0.19644934 0.17773448 0.7186987 0.21527083 0.2066333 0.13973333 -0.06690000 4.968922e-01 3.430304e-07 FALSE TRUE
ENST00000558285 ENSG00000140455 HEK293_OSMI2_6hA HEK293_TMG_6hB USP3 protein_coding protein_coding 6.588331 4.002697 9.988621 0.5671294 0.5082288 1.317157 2.1202649 0.7005773 3.8409094 0.70057729 0.46836978 2.4381357 0.29910417 0.1873333 0.38620000 0.19886667 3.612452e-01 3.430304e-07 FALSE TRUE
ENST00000559711 ENSG00000140455 HEK293_OSMI2_6hA HEK293_TMG_6hB USP3 protein_coding protein_coding 6.588331 4.002697 9.988621 0.5671294 0.5082288 1.317157 0.6989512 0.8459195 1.2301418 0.45713001 0.61680613 0.5349580 0.10007917 0.2043333 0.12210000 -0.08223333 9.647696e-01 3.430304e-07 FALSE TRUE
ENST00000559718 ENSG00000140455 HEK293_OSMI2_6hA HEK293_TMG_6hB USP3 protein_coding retained_intron 6.588331 4.002697 9.988621 0.5671294 0.5082288 1.317157 0.2857354 0.5226963 0.1656796 0.09540722 0.08296766 -1.6003667 0.05520000 0.1403333 0.01606667 -0.12426667 5.186838e-02 3.430304e-07   FALSE
ENST00000559771 ENSG00000140455 HEK293_OSMI2_6hA HEK293_TMG_6hB USP3 protein_coding protein_coding 6.588331 4.002697 9.988621 0.5671294 0.5082288 1.317157 0.3704912 0.0000000 0.5257671 0.00000000 0.06550607 5.7435341 0.04569167 0.0000000 0.05260000 0.05260000 2.786206e-04 3.430304e-07 FALSE FALSE
ENST00000560070 ENSG00000140455 HEK293_OSMI2_6hA HEK293_TMG_6hB USP3 protein_coding protein_coding 6.588331 4.002697 9.988621 0.5671294 0.5082288 1.317157 0.7260180 0.0000000 1.8991683 0.00000000 0.45864744 7.5768004 0.07836250 0.0000000 0.18836667 0.18836667 3.430304e-07 3.430304e-07 FALSE FALSE
ENST00000560202 ENSG00000140455 HEK293_OSMI2_6hA HEK293_TMG_6hB USP3 protein_coding nonsense_mediated_decay 6.588331 4.002697 9.988621 0.5671294 0.5082288 1.317157 0.3420105 0.5340266 0.0000000 0.44669114 0.00000000 -5.7656053 0.07354167 0.1120333 0.00000000 -0.11203333 2.497359e-01 3.430304e-07 TRUE 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
ENSG00000140455 E001 0.8509857 0.131540374 0.909569275   15 63504511 63504592 82 + 0.252 0.256 0.034
ENSG00000140455 E002 0.6895701 0.421440811 0.827944032   15 63504593 63504593 1 + 0.185 0.257 0.599
ENSG00000140455 E003 0.6895701 0.421440811 0.827944032   15 63504594 63504594 1 + 0.185 0.257 0.599
ENSG00000140455 E004 3.6305879 0.047184878 0.777311327 0.88311821 15 63504595 63504611 17 + 0.666 0.661 -0.024
ENSG00000140455 E005 6.4489199 0.011529046 0.791860913 0.89151649 15 63504612 63504634 23 + 0.874 0.869 -0.017
ENSG00000140455 E006 10.7436964 0.028710541 0.341386375 0.57930977 15 63504635 63504655 21 + 1.085 1.012 -0.265
ENSG00000140455 E007 14.1835566 0.024352036 0.200735059 0.43065292 15 63504656 63504673 18 + 1.205 1.105 -0.355
ENSG00000140455 E008 20.3778590 0.029317183 0.027416513 0.11954694 15 63504674 63504733 60 + 1.385 1.193 -0.673
ENSG00000140455 E009 25.9468767 0.021891503 0.003282468 0.02508612 15 63504734 63504830 97 + 1.502 1.262 -0.833
ENSG00000140455 E010 0.0000000       15 63515446 63515500 55 +      
ENSG00000140455 E011 0.1723744 0.082560857 0.353359136   15 63527833 63528140 308 + 0.000 0.147 10.630
ENSG00000140455 E012 5.4548703 0.090238450 0.923171283 0.96386613 15 63529014 63529141 128 + 0.786 0.826 0.157
ENSG00000140455 E013 2.9261108 0.080430760 0.817237712 0.90654212 15 63529142 63529166 25 + 0.587 0.581 -0.025
ENSG00000140455 E014 0.0000000       15 63530498 63530590 93 +      
ENSG00000140455 E015 0.0000000       15 63532506 63532646 141 +      
ENSG00000140455 E016 24.1270234 0.002108115 0.002629402 0.02114867 15 63532647 63532707 61 + 1.466 1.271 -0.677
ENSG00000140455 E017 1.4458422 0.277510709 0.714342382 0.84456369 15 63533803 63533918 116 + 0.405 0.348 -0.328
ENSG00000140455 E018 25.3406316 0.002255407 0.011700292 0.06523668 15 63537025 63537104 80 + 1.480 1.323 -0.542
ENSG00000140455 E019 13.1609022 0.003083268 0.103943347 0.28875174 15 63537105 63537137 33 + 1.204 1.073 -0.470
ENSG00000140455 E020 12.4025888 0.014372623 0.228795302 0.46380386 15 63537138 63537156 19 + 1.173 1.057 -0.416
ENSG00000140455 E021 0.2852693 0.129941455 0.362204283   15 63542055 63542192 138 + 0.180 0.000 -10.384
ENSG00000140455 E022 0.0000000       15 63544625 63544728 104 +      
ENSG00000140455 E023 0.1426347 0.030988976 0.669818938   15 63553333 63553714 382 + 0.100 0.000 -9.395
ENSG00000140455 E024 20.5284086 0.387565748 0.669362938 0.81583848 15 63553715 63553798 84 + 1.323 1.332 0.031
ENSG00000140455 E025 21.4219662 0.413737052 0.734957269 0.85722384 15 63556667 63556748 82 + 1.357 1.324 -0.115
ENSG00000140455 E026 24.2968910 0.029716433 0.961939395 0.98296789 15 63558106 63558188 83 + 1.393 1.423 0.102
ENSG00000140455 E027 27.4280322 0.007007273 0.093107010 0.26950250 15 63559857 63559970 114 + 1.484 1.391 -0.319
ENSG00000140455 E028 25.8441145 0.043817887 0.140613011 0.34848625 15 63562895 63563008 114 + 1.463 1.350 -0.389
ENSG00000140455 E029 40.1772862 0.067796847 0.500020746 0.70076933 15 63570433 63570579 147 + 1.617 1.587 -0.105
ENSG00000140455 E030 37.8708409 0.019564972 0.196200858 0.42481377 15 63574046 63574152 107 + 1.605 1.535 -0.241
ENSG00000140455 E031 30.7876949 0.001331676 0.626346680 0.78814517 15 63574323 63574403 81 + 1.499 1.493 -0.019
ENSG00000140455 E032 0.5227326 0.669995011 0.597468256   15 63586608 63586758 151 + 0.102 0.261 1.637
ENSG00000140455 E033 0.7616940 0.026901231 0.347359754   15 63587970 63588304 335 + 0.308 0.147 -1.363
ENSG00000140455 E034 29.4506276 0.405570655 0.357729022 0.59392894 15 63588305 63588423 119 + 1.421 1.546 0.431
ENSG00000140455 E035 2.0956710 0.012229237 0.040735065 0.15662714 15 63588520 63588701 182 + 0.309 0.664 1.804
ENSG00000140455 E036 15.4051204 0.217260615 0.373311821 0.60674470 15 63588702 63588728 27 + 1.160 1.270 0.389
ENSG00000140455 E037 24.6507383 0.315195173 0.202393974 0.43265174 15 63588729 63588815 87 + 1.298 1.520 0.767
ENSG00000140455 E038 26.1865444 0.372410238 0.281844834 0.52216503 15 63588944 63589011 68 + 1.355 1.516 0.554
ENSG00000140455 E039 97.4658502 0.058681259 0.188715616 0.41540184 15 63590661 63591373 713 + 1.934 2.052 0.397
ENSG00000140455 E040 64.1252717 0.004519451 0.025534481 0.11384762 15 63591374 63593781 2408 + 1.738 1.889 0.511
ENSG00000140455 E041 10.7967074 0.025279832 0.017169848 0.08606869 15 63593782 63593915 134 + 0.900 1.218 1.161
ENSG00000140455 E042 26.3496026 0.032216424 0.002021061 0.01719983 15 63593916 63594428 513 + 1.217 1.617 1.382
ENSG00000140455 E043 9.5045236 0.004610058 0.002481751 0.02020910 15 63594429 63594640 212 + 0.826 1.179 1.306