ENSG00000242125

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
ENST00000413987 ENSG00000242125 HEK293_OSMI2_2hA HEK293_TMG_2hB SNHG3 lncRNA lncRNA 115.6712 128.9377 112.2244 17.7076 3.375011 -0.2002717 45.20330 61.30014 34.45516 3.878564 0.3986956 -0.8309871 0.3958375 0.5002333 0.3073667 -0.19286667 0.208563991 0.001458857   FALSE
ENST00000437681 ENSG00000242125 HEK293_OSMI2_2hA HEK293_TMG_2hB SNHG3 lncRNA retained_intron 115.6712 128.9377 112.2244 17.7076 3.375011 -0.2002717 16.56305 14.51949 18.44860 1.580742 0.6732923 0.3453090 0.1485917 0.1144667 0.1648000 0.05033333 0.043015092 0.001458857   FALSE
ENST00000447507 ENSG00000242125 HEK293_OSMI2_2hA HEK293_TMG_2hB SNHG3 lncRNA retained_intron 115.6712 128.9377 112.2244 17.7076 3.375011 -0.2002717 20.76680 14.26307 32.13039 1.659518 2.2689107 1.1710914 0.1850375 0.1164667 0.2861333 0.16966667 0.001458857 0.001458857   FALSE
MSTRG.692.15 ENSG00000242125 HEK293_OSMI2_2hA HEK293_TMG_2hB SNHG3 lncRNA   115.6712 128.9377 112.2244 17.7076 3.375011 -0.2002717 31.60920 35.92230 25.90850 18.209608 2.3694845 -0.4712988 0.2567583 0.2447667 0.2302333 -0.01453333 0.949864561 0.001458857   FALSE
  • 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.