ENSG00000048028

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
ENST00000003302 ENSG00000048028 HEK293_DMSO_6hA HEK293_OSMI2_6hA USP28 protein_coding protein_coding 13.78785 8.69654 7.867169 2.427435 1.219725 -0.1444223 1.6559084 1.0268122 1.3722404 0.26269130 0.46650935 0.4148539 0.15760417 0.12640000 0.17090000 0.04450000 7.592767e-01 1.504772e-11 FALSE TRUE
ENST00000544272 ENSG00000048028 HEK293_DMSO_6hA HEK293_OSMI2_6hA USP28 protein_coding retained_intron 13.78785 8.69654 7.867169 2.427435 1.219725 -0.1444223 0.5089027 1.3903027 0.0000000 0.29609925 0.00000000 -7.1295949 0.04482500 0.16760000 0.00000000 -0.16760000 1.504772e-11 1.504772e-11 FALSE TRUE
ENST00000544967 ENSG00000048028 HEK293_DMSO_6hA HEK293_OSMI2_6hA USP28 protein_coding protein_coding 13.78785 8.69654 7.867169 2.427435 1.219725 -0.1444223 1.4733030 2.4006302 1.6886027 0.51483072 0.28890661 -0.5050619 0.18080417 0.28803333 0.22810000 -0.05993333 7.495778e-01 1.504772e-11 FALSE TRUE
MSTRG.6337.10 ENSG00000048028 HEK293_DMSO_6hA HEK293_OSMI2_6hA USP28 protein_coding   13.78785 8.69654 7.867169 2.427435 1.219725 -0.1444223 0.9911689 0.2243707 0.3927299 0.04512536 0.04252196 0.7810202 0.06124167 0.02696667 0.05086667 0.02390000 5.650204e-01 1.504772e-11 FALSE TRUE
MSTRG.6337.2 ENSG00000048028 HEK293_DMSO_6hA HEK293_OSMI2_6hA USP28 protein_coding   13.78785 8.69654 7.867169 2.427435 1.219725 -0.1444223 5.4161584 2.1012728 2.7353583 0.97723535 0.91779255 0.3788814 0.31949583 0.22133333 0.32433333 0.10300000 7.269082e-01 1.504772e-11 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_OSMI2_6hA HEK293_DMSO_6hA log2fold_HEK293_DMSO_6hA_HEK293_OSMI2_6hA
ENSG00000048028 E001 15.871256 0.0299001310 0.298867715 0.69903958 11 113797874 113798091 218 - 1.286 1.153 -0.468
ENSG00000048028 E002 149.543895 0.0018651440 0.449563202 0.80337790 11 113798092 113798779 688 - 2.171 2.193 0.073
ENSG00000048028 E003 29.033559 0.0009180234 0.887128658 0.97296352 11 113798780 113798804 25 - 1.480 1.487 0.026
ENSG00000048028 E004 69.803702 0.0004080269 0.067211449 0.38957303 11 113798805 113798978 174 - 1.815 1.890 0.251
ENSG00000048028 E005 55.803987 0.0012060292 0.012519947 0.19306421 11 113798979 113799061 83 - 1.689 1.808 0.402
ENSG00000048028 E006 50.661678 0.0033089058 0.021547057 0.24317611 11 113799062 113799119 58 - 1.646 1.769 0.418
ENSG00000048028 E007 50.700489 0.0006739282 0.094306523 0.44670821 11 113799120 113799171 52 - 1.672 1.753 0.273
ENSG00000048028 E008 91.573329 0.0026190171 0.037889978 0.30673432 11 113799172 113799415 244 - 1.926 2.010 0.282
ENSG00000048028 E009 67.420749 0.0005718484 0.333754179 0.72750063 11 113801483 113801678 196 - 1.825 1.863 0.131
ENSG00000048028 E010 1.636086 0.0131730416 0.050583095 0.34581357 11 113801679 113801701 23 - 0.210 0.554 2.051
ENSG00000048028 E011 56.872501 0.0087147821 0.355698175 0.74386518 11 113803158 113803281 124 - 1.739 1.789 0.168
ENSG00000048028 E012 51.735111 0.0007327809 0.790723101 0.94525234 11 113803798 113803877 80 - 1.718 1.730 0.038
ENSG00000048028 E013 50.929245 0.0005416414 0.679627207 0.90801623 11 113804673 113804751 79 - 1.710 1.730 0.065
ENSG00000048028 E014 41.709852 0.0006658064 0.321229274 0.71767074 11 113804868 113804927 60 - 1.607 1.659 0.176
ENSG00000048028 E015 55.474273 0.0005956617 0.750747425 0.93277153 11 113804928 113805046 119 - 1.767 1.750 -0.056
ENSG00000048028 E016 2.017692 0.0091361450 0.731649449 0.92624874 11 113806489 113806584 96 - 0.457 0.513 0.279
ENSG00000048028 E017 1.014878 0.1504774829 0.451507476   11 113808023 113808136 114 - 0.213 0.359 1.019
ENSG00000048028 E018 54.778802 0.0006075670 0.784101593 0.94338154 11 113808298 113808437 140 - 1.762 1.748 -0.049
ENSG00000048028 E019 71.412195 0.0067036223 0.868500794 0.96765954 11 113809063 113809254 192 - 1.868 1.858 -0.034
ENSG00000048028 E020 24.971549 0.0014752858 0.525889604 0.84300733 11 113812276 113812278 3 - 1.402 1.444 0.147
ENSG00000048028 E021 51.761292 0.0007311810 0.492467006 0.82572305 11 113812279 113812414 136 - 1.745 1.711 -0.117
ENSG00000048028 E022 39.188423 0.0008038984 0.144039633 0.53084954 11 113812415 113812504 90 - 1.648 1.567 -0.278
ENSG00000048028 E023 1.126320 0.0145218782 0.675568477   11 113813755 113813884 130 - 0.286 0.360 0.470
ENSG00000048028 E024 33.957740 0.0011628878 0.473413247 0.81564604 11 113813885 113813955 71 - 1.572 1.527 -0.154
ENSG00000048028 E025 43.866474 0.0007918008 0.477210432 0.81786844 11 113815174 113815263 90 - 1.636 1.674 0.128
ENSG00000048028 E026 42.276043 0.0007289967 0.884670372 0.97239216 11 113815264 113815376 113 - 1.642 1.649 0.025
ENSG00000048028 E027 18.831544 0.0273434061 0.720577351 0.92244320 11 113815377 113815382 6 - 1.320 1.292 -0.100
ENSG00000048028 E028 23.437677 0.0034585286 0.996295064 0.99904425 11 113817658 113817694 37 - 1.400 1.401 0.003
ENSG00000048028 E029 21.945511 0.0046621547 0.920432960 0.98089616 11 113817695 113817705 11 - 1.378 1.372 -0.020
ENSG00000048028 E030 34.934474 0.0056944347 0.869728740 0.96807570 11 113817706 113817830 125 - 1.567 1.561 -0.022
ENSG00000048028 E031 14.341811 0.0022625581 0.863708849 0.96682270 11 113817831 113817837 7 - 1.184 1.200 0.055
ENSG00000048028 E032 1.018304 0.4586180235 0.273240204   11 113820292 113820358 67 - 0.121 0.418 2.337
ENSG00000048028 E033 34.563997 0.0008292079 0.827339829 0.95622397 11 113823605 113823700 96 - 1.550 1.563 0.043
ENSG00000048028 E034 40.192455 0.0008277875 0.319131258 0.71594988 11 113827233 113827360 128 - 1.654 1.599 -0.185
ENSG00000048028 E035 1.790983 0.8231197203 0.642910646 0.89353418 11 113828844 113828920 77 - 0.527 0.350 -0.931
ENSG00000048028 E036 27.333127 0.0097871355 0.208727132 0.61288144 11 113829197 113829220 24 - 1.513 1.412 -0.349
ENSG00000048028 E037 40.123423 0.0044632345 0.304457305 0.70341893 11 113829221 113829345 125 - 1.650 1.594 -0.190
ENSG00000048028 E038 1.337230 0.5571889134 0.609905914   11 113829346 113829467 122 - 0.301 0.413 0.663
ENSG00000048028 E039 20.179594 0.0386406191 0.458993212 0.80796946 11 113830867 113830882 16 - 1.355 1.309 -0.161
ENSG00000048028 E040 28.982247 0.0410952605 0.827444654 0.95627843 11 113830883 113830943 61 - 1.489 1.476 -0.042
ENSG00000048028 E041 3.967795 0.0094035204 0.392230161 0.76835275 11 113830944 113830946 3 - 0.644 0.767 0.507
ENSG00000048028 E042 3.065792 0.2065690563 0.020321440 0.23762454 11 113830947 113830976 30 - 0.209 0.807 3.128
ENSG00000048028 E043 26.863589 0.0014602342 0.330835878 0.72527871 11 113831920 113831989 70 - 1.488 1.423 -0.224
ENSG00000048028 E044 14.490697 0.0035804905 0.974332900 0.99394246 11 113831990 113831993 4 - 1.193 1.200 0.023
ENSG00000048028 E045 36.542782 0.0134311249 0.660239305 0.90068355 11 113833420 113833557 138 - 1.604 1.567 -0.128
ENSG00000048028 E046 29.124528 0.0126846367 0.788409818 0.94468175 11 113834249 113834335 87 - 1.478 1.498 0.069
ENSG00000048028 E047 1.022683 0.0171834510 0.392705563   11 113835207 113835327 121 - 0.210 0.360 1.052
ENSG00000048028 E048 46.920707 0.0183859823 0.254270266 0.65988447 11 113840598 113840757 160 - 1.727 1.642 -0.288
ENSG00000048028 E049 36.626040 0.0008590684 0.003075587 0.09986541 11 113841663 113841765 103 - 1.666 1.496 -0.577
ENSG00000048028 E050 17.478872 0.0018953995 0.003284346 0.10319411 11 113841766 113841768 3 - 1.385 1.144 -0.848
ENSG00000048028 E051 18.697475 0.0016199439 0.022738170 0.24890036 11 113852501 113852526 26 - 1.380 1.200 -0.630
ENSG00000048028 E052 22.500973 0.0081829405 0.012761026 0.19464441 11 113852527 113852621 95 - 1.471 1.258 -0.741
ENSG00000048028 E053 10.151691 0.0024616379 0.155930283 0.54793432 11 113852622 113852633 12 - 1.118 0.973 -0.529
ENSG00000048028 E054 16.612673 0.0017965550 0.517583363 0.83892012 11 113854258 113854335 78 - 1.272 1.218 -0.192
ENSG00000048028 E055 4.349070 0.0050632156 0.153159647 0.54368870 11 113874517 113874626 110 - 0.614 0.812 0.821
ENSG00000048028 E056 7.102292 0.0170552600 0.718588922 0.92167445 11 113874627 113874762 136 - 0.879 0.925 0.177
ENSG00000048028 E057 8.095058 0.0936750385 0.885962328 0.97277786 11 113874763 113874800 38 - 0.942 0.958 0.061
ENSG00000048028 E058 7.342567 0.0473962719 0.439901190 0.79766689 11 113874801 113874879 79 - 0.967 0.853 -0.434
ENSG00000048028 E059 10.044986 0.0208419228 0.004074993 0.11418041 11 113875445 113875570 126 - 1.205 0.834 -1.369