ENSG00000116560

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
ENST00000357214 ENSG00000116560 HEK293_DMSO_6hA HEK293_OSMI2_6hA SFPQ protein_coding protein_coding 416.2043 244.4851 297.7928 40.26355 48.92426 0.2845519 68.66990 38.24983 43.16489 5.750054 9.157087 0.1743618 0.16356667 0.1572667 0.14266667 -0.01460000 0.7056814447 0.0001119327 FALSE TRUE
ENST00000468598 ENSG00000116560 HEK293_DMSO_6hA HEK293_OSMI2_6hA SFPQ protein_coding processed_transcript 416.2043 244.4851 297.7928 40.26355 48.92426 0.2845519 16.63651 29.98567 10.19832 7.729233 1.903051 -1.5550088 0.04412917 0.1192333 0.03643333 -0.08280000 0.0001119327 0.0001119327   FALSE
ENST00000470472 ENSG00000116560 HEK293_DMSO_6hA HEK293_OSMI2_6hA SFPQ protein_coding nonsense_mediated_decay 416.2043 244.4851 297.7928 40.26355 48.92426 0.2845519 91.67246 60.51923 75.70825 11.133347 10.205054 0.3230090 0.22689167 0.2457000 0.25750000 0.01180000 0.7983154545 0.0001119327 TRUE TRUE
MSTRG.817.19 ENSG00000116560 HEK293_DMSO_6hA HEK293_OSMI2_6hA SFPQ protein_coding   416.2043 244.4851 297.7928 40.26355 48.92426 0.2845519 63.28002 27.03422 57.67706 2.989893 13.651556 1.0929273 0.15545833 0.1135000 0.18796667 0.07446667 0.0352063207 0.0001119327 FALSE TRUE
MSTRG.817.3 ENSG00000116560 HEK293_DMSO_6hA HEK293_OSMI2_6hA SFPQ protein_coding   416.2043 244.4851 297.7928 40.26355 48.92426 0.2845519 147.33623 61.96511 89.33077 9.051545 14.528041 0.5276298 0.33851250 0.2550000 0.30020000 0.04520000 0.0174322109 0.0001119327 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_OSMI2_6hA HEK293_DMSO_6hA log2fold_HEK293_DMSO_6hA_HEK293_OSMI2_6hA
ENSG00000116560 E001 2.0261209 4.051793e-02 6.231931e-01 8.853660e-01 1 35176306 35176377 72 - 0.427 0.545 0.584
ENSG00000116560 E002 1.6124876 4.001672e-02 8.367739e-01   1 35176378 35176379 2 - 0.380 0.447 0.361
ENSG00000116560 E003 8.4950572 1.188152e-01 7.740986e-02 4.122083e-01 1 35176380 35176392 13 - 0.765 1.132 1.380
ENSG00000116560 E004 196.5439817 1.737148e-02 8.117648e-06 2.637583e-03 1 35176393 35176471 79 - 2.085 2.452 1.226
ENSG00000116560 E005 131.0720642 1.928044e-02 1.410991e-06 7.375832e-04 1 35176472 35176474 3 - 1.871 2.294 1.419
ENSG00000116560 E006 31.1371055 6.095405e-02 4.032641e-04 3.174560e-02 1 35177209 35177318 110 - 1.184 1.705 1.800
ENSG00000116560 E007 302.5683491 1.848650e-02 9.848959e-06 3.016749e-03 1 35177319 35177399 81 - 2.273 2.638 1.217
ENSG00000116560 E008 44.8211036 1.224244e-01 1.057642e-02 1.779117e-01 1 35177400 35177661 262 - 1.384 1.843 1.564
ENSG00000116560 E009 248.2765865 7.832837e-03 1.349156e-06 7.233714e-04 1 35177989 35178036 48 - 2.233 2.528 0.983
ENSG00000116560 E010 728.5758510 2.649019e-02 1.507032e-08 2.291090e-05 1 35178037 35178664 628 - 2.551 3.062 1.698
ENSG00000116560 E011 244.5238860 2.587823e-02 5.659830e-08 6.294528e-05 1 35178665 35178754 90 - 2.086 2.585 1.667
ENSG00000116560 E012 1375.6102621 5.061830e-02 3.062485e-05 6.440119e-03 1 35178755 35180645 1891 - 2.839 3.333 1.641
ENSG00000116560 E013 322.1873928 5.869888e-02 4.802343e-04 3.518088e-02 1 35181135 35181695 561 - 2.234 2.694 1.533
ENSG00000116560 E014 227.6322799 8.841470e-03 3.358446e-09 7.322694e-06 1 35182936 35183444 509 - 2.153 2.514 1.203
ENSG00000116560 E015 793.5294003 1.838885e-03 8.476657e-03 1.605140e-01 1 35183445 35183830 386 - 2.846 2.951 0.346
ENSG00000116560 E016 3851.1239720 4.413484e-03 7.897532e-01 9.449041e-01 1 35183831 35184593 763 - 3.571 3.600 0.098
ENSG00000116560 E017 35.4454957 3.745347e-02 5.343204e-02 3.540394e-01 1 35186947 35187000 54 - 1.415 1.681 0.910
ENSG00000116560 E018 2040.5365674 4.241792e-04 2.443185e-09 5.867504e-06 1 35187001 35187122 122 - 3.322 3.293 -0.095
ENSG00000116560 E019 1954.5309892 8.416359e-04 3.494379e-05 6.959737e-03 1 35187203 35187251 49 - 3.300 3.279 -0.067
ENSG00000116560 E020 3083.7001590 3.224798e-04 1.702482e-08 2.453188e-05 1 35187973 35188090 118 - 3.493 3.482 -0.039
ENSG00000116560 E021 2667.2642734 2.174461e-04 2.644223e-11 1.413457e-07 1 35189003 35189087 85 - 3.433 3.415 -0.059
ENSG00000116560 E022 3266.2121560 8.687296e-05 4.839180e-13 4.454976e-09 1 35189186 35189382 197 - 3.515 3.509 -0.022
ENSG00000116560 E023 1780.7341040 1.536086e-04 7.076743e-10 2.212604e-06 1 35190498 35190593 96 - 3.256 3.239 -0.056
ENSG00000116560 E024 2749.4450574 7.784121e-04 9.793041e-06 3.005176e-03 1 35190694 35190995 302 - 3.448 3.427 -0.070
ENSG00000116560 E025 1355.5035250 1.411187e-03 5.701226e-05 9.759756e-03 1 35191341 35191497 157 - 3.150 3.108 -0.140
ENSG00000116560 E026 441.5384736 9.685530e-04 8.906669e-06 2.822018e-03 1 35191498 35191529 32 - 2.670 2.612 -0.194
ENSG00000116560 E027 0.3089214 2.408069e-01 2.237231e-01   1 35191866 35191922 57 - 0.000 0.233 9.724
ENSG00000116560 E028 1601.8658077 7.430405e-03 5.628875e-05 9.696001e-03 1 35192222 35193603 1382 - 3.260 3.129 -0.436