ENSG00000042088

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
ENST00000335725 ENSG00000042088 HEK293_OSMI2_2hA HEK293_TMG_2hB TDP1 protein_coding protein_coding 18.14001 14.75162 20.66656 1.448567 0.4471328 0.4861451 2.7140980 2.0984665 4.5920607 0.4968759 0.6601817 1.1260859 0.14197083 0.13873333 0.2225333 0.08380000 2.935439e-01 2.856574e-16 FALSE TRUE
ENST00000393454 ENSG00000042088 HEK293_OSMI2_2hA HEK293_TMG_2hB TDP1 protein_coding protein_coding 18.14001 14.75162 20.66656 1.448567 0.4471328 0.4861451 3.5273426 4.7675494 2.3235624 0.9288386 1.1367095 -1.0337368 0.21434583 0.32283333 0.1108000 -0.21203333 6.086141e-02 2.856574e-16 FALSE TRUE
ENST00000553617 ENSG00000042088 HEK293_OSMI2_2hA HEK293_TMG_2hB TDP1 protein_coding protein_coding 18.14001 14.75162 20.66656 1.448567 0.4471328 0.4861451 1.2048364 1.3226251 0.3816620 0.7931147 0.3816620 -1.7665898 0.05886250 0.09613333 0.0182000 -0.07793333 4.922984e-01 2.856574e-16 FALSE FALSE
ENST00000554180 ENSG00000042088 HEK293_OSMI2_2hA HEK293_TMG_2hB TDP1 protein_coding protein_coding 18.14001 14.75162 20.66656 1.448567 0.4471328 0.4861451 5.6455182 1.9692627 8.8170027 0.4075177 0.1925930 2.1569605 0.29160000 0.13060000 0.4267333 0.29613333 2.856574e-16 2.856574e-16 FALSE TRUE
ENST00000556063 ENSG00000042088 HEK293_OSMI2_2hA HEK293_TMG_2hB TDP1 protein_coding protein_coding 18.14001 14.75162 20.66656 1.448567 0.4471328 0.4861451 0.8951765 0.9864862 0.3116006 0.4522256 0.1884334 -1.6315798 0.05213750 0.06213333 0.0151000 -0.04703333 3.805828e-01 2.856574e-16 FALSE TRUE
MSTRG.10067.11 ENSG00000042088 HEK293_OSMI2_2hA HEK293_TMG_2hB TDP1 protein_coding   18.14001 14.75162 20.66656 1.448567 0.4471328 0.4861451 1.0488742 0.9917440 1.6498429 0.1082934 0.6635609 0.7285328 0.06647083 0.06980000 0.0813000 0.01150000 9.956408e-01 2.856574e-16 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_2hB HEK293_OSMI2_2hA log2fold_HEK293_OSMI2_2hA_HEK293_TMG_2hB
ENSG00000042088 E001 2.4818272 0.0061414847 4.775168e-02 1.051786e-01 14 89954939 89955677 739 + 0.688 0.364 -1.565
ENSG00000042088 E002 0.1451727 0.0433221834 5.107057e-01   14 89955837 89955901 65 + 0.122 0.000 -10.193
ENSG00000042088 E003 0.5138669 0.0217681645 5.871330e-01 7.104861e-01 14 89955902 89955906 5 + 0.216 0.123 -0.977
ENSG00000042088 E004 0.5138669 0.0217681645 5.871330e-01 7.104861e-01 14 89955907 89955911 5 + 0.216 0.123 -0.977
ENSG00000042088 E005 2.7907057 0.0123292785 5.165748e-01 6.511257e-01 14 89955912 89955924 13 + 0.626 0.518 -0.492
ENSG00000042088 E006 3.7140795 0.0046474691 3.286382e-01 4.721245e-01 14 89955925 89955926 2 + 0.742 0.597 -0.616
ENSG00000042088 E007 6.6959554 0.0028557378 7.818337e-02 1.565427e-01 14 89955927 89955937 11 + 0.988 0.772 -0.827
ENSG00000042088 E008 14.4546958 0.0012672129 1.730333e-03 6.378176e-03 14 89955938 89955940 3 + 1.316 1.035 -1.003
ENSG00000042088 E009 20.6361167 0.0009098275 2.509263e-03 8.791145e-03 14 89955941 89955954 14 + 1.444 1.215 -0.800
ENSG00000042088 E010 27.4371296 0.0011625970 1.871895e-05 1.168721e-04 14 89955955 89955970 16 + 1.585 1.294 -1.005
ENSG00000042088 E011 1.9854387 0.0408882470 1.731134e-02 4.562641e-02 14 89955993 89956009 17 + 0.658 0.219 -2.437
ENSG00000042088 E012 3.2794813 0.0293280326 1.730691e-01 2.921840e-01 14 89956010 89956036 27 + 0.742 0.517 -0.982
ENSG00000042088 E013 4.4618642 0.0213181172 1.878181e-01 3.109870e-01 14 89956037 89956067 31 + 0.834 0.631 -0.827
ENSG00000042088 E014 15.8546511 0.0458845817 8.588486e-01 9.129341e-01 14 89956068 89956278 211 + 1.250 1.199 -0.180
ENSG00000042088 E015 1.8027127 0.0076472734 7.921216e-01 8.670522e-01 14 89956523 89956564 42 + 0.468 0.421 -0.242
ENSG00000042088 E016 0.9180607 0.0154980938 1.623686e-01 2.782196e-01 14 89956565 89956571 7 + 0.122 0.364 2.023
ENSG00000042088 E017 1.8789983 0.0116685997 7.340900e-01 8.251424e-01 14 89956572 89956577 6 + 0.418 0.473 0.285
ENSG00000042088 E018 40.0927308 0.0018959955 1.085693e-03 4.255023e-03 14 89956578 89956800 223 + 1.708 1.515 -0.657
ENSG00000042088 E019 1.8412190 0.0227415061 1.322656e-01 2.372673e-01 14 89956801 89957187 387 + 0.294 0.558 1.433
ENSG00000042088 E020 0.0000000       14 89958293 89958397 105 +      
ENSG00000042088 E021 0.2987644 0.0293705347 2.119647e-01   14 89963105 89963107 3 + 0.217 0.000 -11.333
ENSG00000042088 E022 92.8104509 0.0003146482 4.215165e-08 4.616164e-07 14 89963108 89963224 117 + 2.074 1.873 -0.675
ENSG00000042088 E023 69.8621993 0.0003880506 4.953880e-04 2.142493e-03 14 89963225 89963248 24 + 1.930 1.782 -0.495
ENSG00000042088 E024 234.6540808 0.0002477942 2.158695e-06 1.666429e-05 14 89963249 89963673 425 + 2.432 2.322 -0.368
ENSG00000042088 E025 1.1135859 0.0118555127 5.296371e-02 1.144224e-01 14 89964851 89964938 88 + 0.468 0.123 -2.564
ENSG00000042088 E026 83.2187353 0.0097111559 1.148167e-01 2.125618e-01 14 89966147 89966190 44 + 1.981 1.870 -0.373
ENSG00000042088 E027 89.2444267 0.0049530453 3.222899e-01 4.656031e-01 14 89967367 89967422 56 + 1.985 1.925 -0.201
ENSG00000042088 E028 120.8456368 0.0003720033 8.487454e-01 9.061221e-01 14 89971175 89971271 97 + 2.092 2.082 -0.031
ENSG00000042088 E029 75.3288241 0.0032383076 3.066961e-01 4.488771e-01 14 89975781 89975815 35 + 1.913 1.858 -0.183
ENSG00000042088 E030 115.8636453 0.0024212237 6.098387e-01 7.292422e-01 14 89980540 89980632 93 + 2.084 2.058 -0.087
ENSG00000042088 E031 1.2682218 0.0431328000 1.796319e-01 3.006884e-01 14 89980633 89980679 47 + 0.468 0.219 -1.565
ENSG00000042088 E032 3.7568627 0.0048143927 8.037237e-02 1.601471e-01 14 89981463 89981560 98 + 0.513 0.772 1.120
ENSG00000042088 E033 4.4357606 0.0038091588 7.826820e-02 1.566911e-01 14 89983114 89983276 163 + 0.592 0.838 1.019
ENSG00000042088 E034 168.9690115 0.0002185111 6.012479e-01 7.223738e-01 14 89984516 89984683 168 + 2.227 2.239 0.038
ENSG00000042088 E035 82.2567523 0.0004869182 4.498824e-01 5.910749e-01 14 89985132 89985158 27 + 1.909 1.937 0.092
ENSG00000042088 E036 104.4647742 0.0004135529 3.823968e-01 5.266198e-01 14 89985159 89985210 52 + 2.012 2.040 0.094
ENSG00000042088 E037 0.4502799 0.0314187963 9.118290e-02 1.769838e-01 14 89986986 89987042 57 + 0.294 0.000 -11.877
ENSG00000042088 E038 175.2680934 0.0008924442 3.736897e-01 5.181013e-01 14 89988905 89989090 186 + 2.238 2.262 0.082
ENSG00000042088 E039 92.0290554 0.0004173545 2.949938e-01 4.361130e-01 14 89989717 89989765 49 + 1.955 1.992 0.124
ENSG00000042088 E040 89.9778185 0.0007284659 1.390367e-02 3.800877e-02 14 89991917 89991983 67 + 1.914 2.007 0.311
ENSG00000042088 E041 135.8309100 0.0004325438 3.796633e-05 2.200651e-04 14 89993376 89993483 108 + 2.071 2.196 0.419
ENSG00000042088 E042 137.0582096 0.0006368149 2.201782e-06 1.696855e-05 14 90019316 90019418 103 + 2.061 2.209 0.494
ENSG00000042088 E043 1.5488990 0.0094229107 3.039694e-01 4.459476e-01 14 90023032 90023077 46 + 0.294 0.472 1.021
ENSG00000042088 E044 140.0870955 0.0002961187 8.598580e-10 1.289584e-08 14 90033106 90033214 109 + 2.046 2.228 0.611
ENSG00000042088 E045 1.6617178 0.0090701335 1.959414e-01 3.211534e-01 14 90033215 90033616 402 + 0.294 0.518 1.242
ENSG00000042088 E046 293.6812368 0.0001675508 1.887538e-03 6.875512e-03 14 90043070 90044764 1695 + 2.439 2.499 0.199