ENSG00000204138

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
ENST00000373839 ENSG00000204138 HEK293_OSMI2_2hA HEK293_TMG_2hB PHACTR4 protein_coding protein_coding 22.21966 25.81155 21.18778 0.3372297 0.6106707 -0.2846625 10.629217 11.4208288 10.41086 0.5633527 0.1900906 -0.1334552 0.4795583 0.44263333 0.4917 0.04906667 4.294435e-01 1.84505e-43 FALSE TRUE
ENST00000632964 ENSG00000204138 HEK293_OSMI2_2hA HEK293_TMG_2hB PHACTR4 protein_coding processed_transcript 22.21966 25.81155 21.18778 0.3372297 0.6106707 -0.2846625 4.143741 10.4288699 0.00000 0.8629282 0.0000000 -10.0277498 0.1651250 0.40430000 0.0000 -0.40430000 1.845050e-43 1.84505e-43   FALSE
MSTRG.684.4 ENSG00000204138 HEK293_OSMI2_2hA HEK293_TMG_2hB PHACTR4 protein_coding   22.21966 25.81155 21.18778 0.3372297 0.6106707 -0.2846625 2.470802 0.4973272 5.31316 0.3501376 0.2796277 3.3912943 0.1218625 0.01936667 0.2508 0.23143333 9.378095e-03 1.84505e-43 TRUE 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
ENSG00000204138 E001 0.0000000       1 28369470 28369581 112 +      
ENSG00000204138 E002 0.2966881 0.0269719454 1.905866e-01   1 28369582 28369608 27 + 0.215 0.000 -10.491
ENSG00000204138 E003 0.5181333 0.0206583234 5.469085e-01 6.770004e-01 1 28369609 28369616 8 + 0.215 0.124 -0.956
ENSG00000204138 E004 0.5181333 0.0206583234 5.469085e-01 6.770004e-01 1 28369617 28369622 6 + 0.215 0.124 -0.956
ENSG00000204138 E005 1.8876198 0.2419088554 5.242067e-01 6.578224e-01 1 28369623 28369663 41 + 0.512 0.376 -0.706
ENSG00000204138 E006 2.7765237 0.2050351808 4.157933e-01 5.591339e-01 1 28369664 28369686 23 + 0.625 0.491 -0.617
ENSG00000204138 E007 3.4805286 0.0188753402 1.287898e-01 2.324696e-01 1 28369687 28369709 23 + 0.740 0.521 -0.952
ENSG00000204138 E008 13.6075956 0.0013202372 4.317594e-04 1.896576e-03 1 28369710 28369738 29 + 1.292 0.997 -1.060
ENSG00000204138 E009 13.1143527 0.0013998514 2.534606e-03 8.867143e-03 1 28369739 28369739 1 + 1.263 1.011 -0.905
ENSG00000204138 E010 14.1764427 0.0020214518 1.390957e-03 5.277219e-03 1 28369740 28369743 4 + 1.299 1.038 -0.933
ENSG00000204138 E011 57.0200942 0.0114289396 1.263770e-04 6.429214e-04 1 28369744 28369825 82 + 1.874 1.641 -0.786
ENSG00000204138 E012 11.4634062 0.0053110345 8.624421e-03 2.534783e-02 1 28392842 28392941 100 + 1.206 0.966 -0.869
ENSG00000204138 E013 67.5418085 0.0004544276 1.334654e-12 3.205861e-11 1 28407410 28407463 54 + 1.963 1.683 -0.943
ENSG00000204138 E014 2.0430869 0.0754312966 4.324442e-01 5.748979e-01 1 28432931 28433046 116 + 0.553 0.422 -0.647
ENSG00000204138 E015 0.1482932 0.0417321826 5.045587e-01   1 28438151 28438170 20 + 0.000 0.124 10.473
ENSG00000204138 E016 0.5451131 0.6310929984 2.880731e-01 4.286176e-01 1 28438171 28438272 102 + 0.000 0.302 10.965
ENSG00000204138 E017 6.0122304 0.0027345234 2.481977e-05 1.506772e-04 1 28438273 28438430 158 + 1.052 0.520 -2.150
ENSG00000204138 E018 33.4399942 0.0007609156 5.712113e-09 7.380594e-08 1 28457832 28457855 24 + 1.677 1.345 -1.137
ENSG00000204138 E019 6.5028132 0.0227210829 6.442210e-03 1.977154e-02 1 28457856 28457859 4 + 1.026 0.668 -1.397
ENSG00000204138 E020 127.3933860 0.0123095854 4.874400e-06 3.480215e-05 1 28459085 28459258 174 + 2.223 1.974 -0.835
ENSG00000204138 E021 103.9322880 0.0015724247 2.693849e-06 2.037698e-05 1 28460212 28460292 81 + 2.093 1.940 -0.515
ENSG00000204138 E022 141.1458885 0.0034571252 1.199506e-05 7.825433e-05 1 28465685 28465849 165 + 2.223 2.075 -0.494
ENSG00000204138 E023 215.6838363 0.0020693223 4.801169e-09 6.287185e-08 1 28466382 28466768 387 + 2.411 2.256 -0.518
ENSG00000204138 E024 1.5511803 0.0083782010 6.242960e-03 1.925046e-02 1 28466769 28467241 473 + 0.590 0.124 -3.127
ENSG00000204138 E025 318.0980295 0.0026284071 2.955842e-06 2.214567e-05 1 28473554 28474151 598 + 2.557 2.447 -0.369
ENSG00000204138 E026 219.1219142 0.0019046458 3.681928e-03 1.224381e-02 1 28476107 28476291 185 + 2.372 2.312 -0.200
ENSG00000204138 E027 219.7517192 0.0001769779 2.466473e-07 2.322741e-06 1 28480451 28480604 154 + 2.389 2.296 -0.310
ENSG00000204138 E028 142.9740734 0.0031416868 2.706289e-04 1.260227e-03 1 28489170 28489225 56 + 2.214 2.100 -0.379
ENSG00000204138 E029 8.1733172 0.0020663845 8.755529e-03 2.567382e-02 1 28489774 28489894 121 + 1.087 0.820 -1.000
ENSG00000204138 E030 138.7484166 0.0005608629 3.978871e-02 9.063296e-02 1 28490951 28491012 62 + 2.160 2.125 -0.117
ENSG00000204138 E031 107.6956352 0.0003037930 1.820990e-01 3.038438e-01 1 28491650 28491694 45 + 2.043 2.027 -0.054
ENSG00000204138 E032 127.7417669 0.0002889006 1.294896e-01 2.334457e-01 1 28491695 28491787 93 + 2.117 2.099 -0.061
ENSG00000204138 E033 108.5069744 0.0058543696 9.125891e-01 9.485958e-01 1 28493015 28493091 77 + 2.025 2.046 0.071
ENSG00000204138 E034 1.9059665 0.0649126495 6.447037e-01 7.569516e-01 1 28494230 28494322 93 + 0.415 0.518 0.518
ENSG00000204138 E035 3.2568802 0.0097977624 6.587966e-02 1.365088e-01 1 28494874 28494939 66 + 0.740 0.475 -1.178
ENSG00000204138 E036 464.6768279 0.0001932917 4.540009e-01 5.946837e-01 1 28496534 28497271 738 + 2.642 2.684 0.140
ENSG00000204138 E037 70.0520002 0.0003702962 3.258421e-04 1.484282e-03 1 28497272 28497458 187 + 1.742 1.925 0.618
ENSG00000204138 E038 171.7897954 0.0003023224 2.670287e-03 9.283186e-03 1 28497459 28497925 467 + 2.172 2.284 0.377
ENSG00000204138 E039 610.9326542 0.0005984686 1.222731e-31 2.291223e-29 1 28497926 28499419 1494 + 2.645 2.877 0.771
ENSG00000204138 E040 615.8586205 0.0062215921 3.389338e-18 1.747686e-16 1 28499420 28500364 945 + 2.563 2.918 1.181