ENSG00000116560

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_6hA HEK293_TMG_6hB SFPQ protein_coding protein_coding 416.2043 297.7928 498.4059 48.92426 24.69398 0.742993 68.66990 43.16489 78.33534 9.157087 3.567251 0.8596551 0.1635667 0.1426667 0.15730000 0.01463333 7.901970e-01 1.305281e-21 FALSE TRUE
ENST00000470472 ENSG00000116560 HEK293_OSMI2_6hA HEK293_TMG_6hB SFPQ protein_coding nonsense_mediated_decay 416.2043 297.7928 498.4059 48.92426 24.69398 0.742993 91.67246 75.70825 102.30427 10.205054 5.501126 0.4342945 0.2268917 0.2575000 0.20686667 -0.05063333 5.804691e-01 1.305281e-21 TRUE TRUE
MSTRG.817.19 ENSG00000116560 HEK293_OSMI2_6hA HEK293_TMG_6hB SFPQ protein_coding   416.2043 297.7928 498.4059 48.92426 24.69398 0.742993 63.28002 57.67706 43.28838 13.651556 2.969144 -0.4139346 0.1554583 0.1879667 0.08723333 -0.10073333 2.762401e-03 1.305281e-21 FALSE TRUE
MSTRG.817.3 ENSG00000116560 HEK293_OSMI2_6hA HEK293_TMG_6hB SFPQ protein_coding   416.2043 297.7928 498.4059 48.92426 24.69398 0.742993 147.33623 89.33077 233.02926 14.528041 11.980897 1.3831825 0.3385125 0.3002000 0.46743333 0.16723333 1.305281e-21 1.305281e-21 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.