ENSG00000104738

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
ENST00000519170 ENSG00000104738 HEK293_OSMI2_6hA HEK293_TMG_6hB MCM4 protein_coding retained_intron 143.0554 106.3179 207.4302 13.961 10.33445 0.9641758 5.190982 0.3148883 16.18942 0.2386424 1.824713 5.6398543 0.02874167 0.003766667 0.0788000 0.07503333 0.010773681 5.124979e-09 FALSE FALSE
ENST00000649919 ENSG00000104738 HEK293_OSMI2_6hA HEK293_TMG_6hB MCM4 protein_coding protein_coding 143.0554 106.3179 207.4302 13.961 10.33445 0.9641758 10.792861 0.3161609 22.37038 0.3161609 2.694090 6.1005073 0.05924167 0.002600000 0.1074667 0.10486667 0.009381438 5.124979e-09 FALSE TRUE
ENST00000649973 ENSG00000104738 HEK293_OSMI2_6hA HEK293_TMG_6hB MCM4 protein_coding protein_coding 143.0554 106.3179 207.4302 13.961 10.33445 0.9641758 97.978886 76.5410640 121.78749 15.8685636 4.129038 0.6699901 0.70229583 0.702766667 0.5883667 -0.11440000 0.577256519 5.124979e-09 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
ENSG00000104738 E001 2.9473471 2.836179e-02 2.730029e-01 5.128332e-01 8 47960185 47960320 136 + 0.518 0.703 0.819
ENSG00000104738 E002 0.4514866 2.176816e-02 8.511770e-01   8 47960823 47960897 75 + 0.180 0.148 -0.340
ENSG00000104738 E003 0.4514866 2.176816e-02 8.511770e-01   8 47960898 47960898 1 + 0.180 0.148 -0.340
ENSG00000104738 E004 8.8749531 3.640725e-03 8.521725e-01 9.262859e-01 8 47960899 47960935 37 + 0.988 0.978 -0.035
ENSG00000104738 E005 16.9636513 2.525426e-02 6.722755e-01 8.177627e-01 8 47960936 47960940 5 + 1.261 1.230 -0.110
ENSG00000104738 E006 20.3245631 1.248906e-02 7.008982e-01 8.362217e-01 8 47960941 47960948 8 + 1.333 1.315 -0.063
ENSG00000104738 E007 30.1324144 8.470931e-03 8.223595e-01 9.093324e-01 8 47960949 47960951 3 + 1.492 1.488 -0.013
ENSG00000104738 E008 45.4951328 4.155189e-03 8.960028e-01 9.498186e-01 8 47960952 47960957 6 + 1.655 1.676 0.072
ENSG00000104738 E009 224.0625340 5.571228e-03 8.667681e-02 2.576674e-01 8 47960958 47961014 57 + 2.310 2.394 0.281
ENSG00000104738 E010 7.8048550 4.073370e-02 9.615245e-01 9.827886e-01 8 47961015 47961130 116 + 0.938 0.970 0.119
ENSG00000104738 E011 235.2977050 6.040657e-03 1.253722e-01 3.244258e-01 8 47961131 47961137 7 + 2.334 2.410 0.256
ENSG00000104738 E012 352.5635555 3.974105e-03 1.404632e-01 3.482421e-01 8 47961138 47961214 77 + 2.514 2.577 0.210
ENSG00000104738 E013 18.9264718 1.006066e-01 4.320138e-01 6.527632e-01 8 47961215 47961426 212 + 1.333 1.215 -0.415
ENSG00000104738 E014 17.9284250 2.385096e-01 3.168801e-01 5.568675e-01 8 47961427 47961496 70 + 1.327 1.159 -0.592
ENSG00000104738 E015 15.7759494 1.530085e-01 2.623822e-01 5.015819e-01 8 47961497 47961515 19 + 1.282 1.085 -0.699
ENSG00000104738 E016 663.5012839 1.929349e-03 5.872996e-01 7.618279e-01 8 47961516 47961680 165 + 2.815 2.812 -0.010
ENSG00000104738 E017 5.0832522 1.565602e-01 9.619567e-01 9.829796e-01 8 47961857 47962052 196 + 0.770 0.776 0.026
ENSG00000104738 E018 436.2318716 5.404478e-04 4.089896e-02 1.570369e-01 8 47962053 47962077 25 + 2.644 2.613 -0.103
ENSG00000104738 E019 883.9226349 8.171287e-04 4.525820e-04 5.245263e-03 8 47962078 47962216 139 + 2.958 2.904 -0.180
ENSG00000104738 E020 885.2265825 8.652530e-05 1.566632e-16 2.923628e-14 8 47962305 47962406 102 + 2.973 2.879 -0.315
ENSG00000104738 E021 792.2938268 9.251242e-05 2.042387e-19 5.479372e-17 8 47962764 47962848 85 + 2.931 2.820 -0.370
ENSG00000104738 E022 545.9282766 1.098198e-04 8.084172e-19 2.024894e-16 8 47962849 47962859 11 + 2.776 2.642 -0.446
ENSG00000104738 E023 933.4648095 8.188191e-04 3.446830e-12 3.237924e-10 8 47962945 47963040 96 + 3.003 2.884 -0.398
ENSG00000104738 E024 564.4259531 1.318939e-03 7.431986e-07 2.194613e-05 8 47964574 47964591 18 + 2.781 2.672 -0.362
ENSG00000104738 E025 1079.6632899 1.474407e-03 1.145258e-05 2.355267e-04 8 47964592 47964712 121 + 3.055 2.968 -0.289
ENSG00000104738 E026 816.3123858 4.608950e-04 6.377693e-04 6.903136e-03 8 47966187 47966275 89 + 2.921 2.874 -0.156
ENSG00000104738 E027 918.6396625 4.055132e-04 8.580797e-01 9.293276e-01 8 47966276 47966407 132 + 2.950 2.963 0.044
ENSG00000104738 E028 858.2495851 1.251294e-03 9.285659e-02 2.690321e-01 8 47967365 47967450 86 + 2.935 2.908 -0.091
ENSG00000104738 E029 717.2953738 3.652697e-04 1.858702e-05 3.591017e-04 8 47967451 47967485 35 + 2.869 2.810 -0.197
ENSG00000104738 E030 7.4582661 3.007922e-01 5.157453e-01 7.120997e-01 8 47969025 47969278 254 + 0.783 1.070 1.087
ENSG00000104738 E031 14.0906601 6.943862e-02 3.308350e-01 5.697419e-01 8 47969279 47969401 123 + 1.107 1.249 0.505
ENSG00000104738 E032 8.1021167 3.098883e-01 5.925978e-01 7.653333e-01 8 47969686 47969797 112 + 0.965 0.917 -0.182
ENSG00000104738 E033 1307.9576429 1.889883e-04 2.043367e-06 5.318988e-05 8 47969798 47969940 143 + 3.125 3.079 -0.150
ENSG00000104738 E034 1199.6972046 3.042668e-04 1.111181e-02 6.283435e-02 8 47969941 47970057 117 + 3.078 3.056 -0.074
ENSG00000104738 E035 3.6353399 6.615834e-03 3.824198e-01 6.141952e-01 8 47970509 47970510 2 + 0.708 0.584 -0.532
ENSG00000104738 E036 1808.1817532 2.597861e-04 8.199342e-01 9.080420e-01 8 47970511 47970876 366 + 3.243 3.256 0.046
ENSG00000104738 E037 20.3438683 1.364786e-01 8.322231e-01 9.151167e-01 8 47971041 47971189 149 + 1.321 1.313 -0.030
ENSG00000104738 E038 6.0376222 2.341808e-01 4.951200e-01 6.975622e-01 8 47971324 47971340 17 + 0.728 0.967 0.927
ENSG00000104738 E039 801.5699209 1.060787e-04 3.312432e-03 2.527416e-02 8 47971341 47971431 91 + 2.875 2.926 0.167
ENSG00000104738 E040 568.5662449 1.127005e-04 1.144367e-06 3.192511e-05 8 47971432 47971468 37 + 2.709 2.796 0.288
ENSG00000104738 E041 4.4567800 1.067397e-01 7.313581e-02 2.311025e-01 8 47971469 47971470 2 + 0.555 0.900 1.426
ENSG00000104738 E042 1235.3884686 2.003607e-04 1.511950e-03 1.369699e-02 8 47972857 47973064 208 + 3.062 3.111 0.163
ENSG00000104738 E043 11.3222916 2.450050e-01 6.339351e-01 7.929523e-01 8 47973065 47973065 1 + 1.093 1.059 -0.124
ENSG00000104738 E044 68.5785075 2.463646e-01 7.090689e-01 8.411717e-01 8 47973692 47974733 1042 + 1.822 1.847 0.084
ENSG00000104738 E045 563.8222077 7.658104e-04 5.456140e-02 1.903836e-01 8 47974734 47974754 21 + 2.721 2.770 0.164
ENSG00000104738 E046 1328.9945545 1.093700e-03 1.797366e-02 8.894618e-02 8 47974755 47974962 208 + 3.091 3.146 0.184
ENSG00000104738 E047 14.5865952 2.351101e-01 9.940993e-01 9.986357e-01 8 47975298 47975714 417 + 1.155 1.221 0.235
ENSG00000104738 E048 1058.4147941 5.592331e-04 7.395567e-03 4.652240e-02 8 47975715 47975848 134 + 2.994 3.047 0.176
ENSG00000104738 E049 1833.6073439 1.203689e-03 2.521357e-07 8.463814e-06 8 47976686 47977292 607 + 3.208 3.315 0.354
ENSG00000104738 E050 1454.8704864 1.990819e-03 1.124920e-06 3.145164e-05 8 47977293 47977601 309 + 3.099 3.226 0.425
ENSG00000104738 E051 754.0074687 1.130614e-03 1.128157e-12 1.140398e-10 8 47977602 47977736 135 + 2.798 2.959 0.538
ENSG00000104738 E052 746.6714894 1.319910e-04 9.220083e-15 1.367495e-12 8 47977737 47978160 424 + 2.814 2.933 0.396