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_OSMI2_2hA HEK293_TMG_2hB SFPQ protein_coding protein_coding 416.2043 397.7416 516.6374 33.53435 14.83779 0.3773122 68.66990 68.85281 95.31226 10.471566 2.089667 0.4690881 0.1635667 0.1712667 0.1845667 0.0133000 7.185396e-01 2.78323e-20 FALSE TRUE
ENST00000470472 ENSG00000116560 HEK293_OSMI2_2hA HEK293_TMG_2hB SFPQ protein_coding nonsense_mediated_decay 416.2043 397.7416 516.6374 33.53435 14.83779 0.3773122 91.67246 113.54857 94.03220 18.004178 7.501271 -0.2720563 0.2268917 0.2825000 0.1814667 -0.1010333 1.317219e-02 2.78323e-20 TRUE TRUE
MSTRG.817.19 ENSG00000116560 HEK293_OSMI2_2hA HEK293_TMG_2hB SFPQ protein_coding   416.2043 397.7416 516.6374 33.53435 14.83779 0.3773122 63.28002 84.67949 66.51924 3.835287 1.341911 -0.3481942 0.1554583 0.2153000 0.1289000 -0.0864000 4.120578e-04 2.78323e-20 FALSE TRUE
MSTRG.817.3 ENSG00000116560 HEK293_OSMI2_2hA HEK293_TMG_2hB SFPQ protein_coding   416.2043 397.7416 516.6374 33.53435 14.83779 0.3773122 147.33623 96.64897 201.79604 5.854982 4.470324 1.0619939 0.3385125 0.2441000 0.3907667 0.1466667 6.326201e-16 2.78323e-20 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
ENSG00000116560 E001 2.173597 0.0107331888 8.632883e-01 9.158214e-01 1 35176306 35176377 72 - 0.504 0.482 -0.107
ENSG00000116560 E002 1.431928 0.0597555054 4.453824e-01 5.869266e-01 1 35176378 35176379 2 - 0.287 0.433 0.865
ENSG00000116560 E003 5.718363 0.0029378848 2.842116e-02 6.885916e-02 1 35176380 35176392 13 - 0.648 0.944 1.177
ENSG00000116560 E004 161.581521 0.0147587969 1.395853e-01 2.474595e-01 1 35176393 35176471 79 - 2.147 2.261 0.378
ENSG00000116560 E005 109.638467 0.0079072757 5.092680e-02 1.108155e-01 1 35176472 35176474 3 - 1.978 2.097 0.399
ENSG00000116560 E006 15.045970 0.0085727142 7.238627e-02 1.473157e-01 1 35177209 35177318 110 - 1.110 1.297 0.661
ENSG00000116560 E007 240.430847 0.0106564853 5.069576e-02 1.104002e-01 1 35177319 35177399 81 - 2.316 2.435 0.398
ENSG00000116560 E008 19.931611 0.0141305098 4.012573e-01 5.449521e-01 1 35177400 35177661 262 - 1.275 1.370 0.329
ENSG00000116560 E009 214.027340 0.0114828065 1.040139e-02 2.975075e-02 1 35177989 35178036 48 - 2.240 2.402 0.540
ENSG00000116560 E010 468.158931 0.0041181358 1.414063e-01 2.499650e-01 1 35178037 35178664 628 - 2.696 2.647 -0.162
ENSG00000116560 E011 149.240501 0.0003237975 1.906493e-08 2.231982e-07 1 35178665 35178754 90 - 2.254 2.096 -0.526
ENSG00000116560 E012 954.073028 0.0053906223 1.219298e-20 8.418090e-19 1 35178755 35180645 1891 - 3.132 2.776 -1.185
ENSG00000116560 E013 284.136946 0.0038429178 1.135572e-34 2.733554e-32 1 35181135 35181695 561 - 2.640 2.170 -1.569
ENSG00000116560 E014 310.674212 0.0022276278 8.417606e-23 7.311739e-21 1 35182936 35183444 509 - 2.628 2.333 -0.983
ENSG00000116560 E015 1515.472074 0.0027551053 4.816680e-03 1.542072e-02 1 35183445 35183830 386 - 3.132 3.221 0.294
ENSG00000116560 E016 7097.661165 0.0008046275 1.239887e-43 5.326370e-41 1 35183831 35184593 763 - 3.744 3.929 0.616
ENSG00000116560 E017 46.373162 0.0098596745 2.201398e-05 1.351464e-04 1 35186947 35187000 54 - 1.809 1.517 -0.994
ENSG00000116560 E018 3627.756273 0.0009505078 2.170849e-10 3.612305e-09 1 35187001 35187122 122 - 3.501 3.608 0.355
ENSG00000116560 E019 3538.097513 0.0010684630 6.571565e-04 2.741727e-03 1 35187203 35187251 49 - 3.514 3.579 0.215
ENSG00000116560 E020 5453.825427 0.0005753615 1.462154e-01 2.565392e-01 1 35187973 35188090 118 - 3.724 3.749 0.082
ENSG00000116560 E021 4735.330829 0.0003340956 3.798290e-01 5.240817e-01 1 35189003 35189087 85 - 3.677 3.675 -0.006
ENSG00000116560 E022 5809.130183 0.0002582854 2.125329e-01 3.415421e-01 1 35189186 35189382 197 - 3.767 3.763 -0.014
ENSG00000116560 E023 3200.095192 0.0004820819 1.753802e-03 6.452358e-03 1 35190498 35190593 96 - 3.522 3.490 -0.106
ENSG00000116560 E024 4904.730394 0.0005566820 8.281120e-04 3.359890e-03 1 35190694 35190995 302 - 3.709 3.674 -0.116
ENSG00000116560 E025 2605.671010 0.0014749551 5.210158e-09 6.776384e-08 1 35191341 35191497 157 - 3.471 3.360 -0.370
ENSG00000116560 E026 892.479041 0.0038525822 1.219403e-11 2.504331e-10 1 35191498 35191529 32 - 3.053 2.832 -0.737
ENSG00000116560 E027 0.451324 0.1593455889 6.302186e-01 7.454237e-01 1 35191866 35191922 57 - 0.211 0.126 -0.903
ENSG00000116560 E028 2914.662615 0.0161246540 9.942555e-04 3.938674e-03 1 35192222 35193603 1382 - 3.558 3.358 -0.663