ENSG00000022840

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
ENST00000325954 ENSG00000022840 HEK293_OSMI2_6hA HEK293_TMG_6hB RNF10 protein_coding protein_coding 108.9663 143.0712 85.64562 23.09553 1.091004 -0.7402142 37.674446 54.38050 18.21459 11.324299 0.8338442 -1.5774681 0.3435833 0.3739667 0.21280000 -0.16116667 0.01482818 0.01209685 FALSE TRUE
ENST00000413266 ENSG00000022840 HEK293_OSMI2_6hA HEK293_TMG_6hB RNF10 protein_coding protein_coding 108.9663 143.0712 85.64562 23.09553 1.091004 -0.7402142 9.120354 12.50257 8.30896 2.365160 0.3678195 -0.5889027 0.0788000 0.0864000 0.09693333 0.01053333 0.78395365 0.01209685 FALSE TRUE
ENST00000544124 ENSG00000022840 HEK293_OSMI2_6hA HEK293_TMG_6hB RNF10 protein_coding retained_intron 108.9663 143.0712 85.64562 23.09553 1.091004 -0.7402142 16.032588 19.39214 14.00405 1.830023 0.4591174 -0.4693417 0.1536417 0.1410333 0.16370000 0.02266667 0.82492285 0.01209685   FALSE
ENST00000546262 ENSG00000022840 HEK293_OSMI2_6hA HEK293_TMG_6hB RNF10 protein_coding nonsense_mediated_decay 108.9663 143.0712 85.64562 23.09553 1.091004 -0.7402142 8.946537 15.96297 3.94162 5.491702 1.0847293 -2.0151164 0.0764375 0.1046333 0.04573333 -0.05890000 0.30281218 0.01209685 FALSE FALSE
MSTRG.8163.4 ENSG00000022840 HEK293_OSMI2_6hA HEK293_TMG_6hB RNF10 protein_coding   108.9663 143.0712 85.64562 23.09553 1.091004 -0.7402142 14.610411 15.93945 21.99077 4.015685 2.0270946 0.4640479 0.1315125 0.1112333 0.25626667 0.14503333 0.01209685 0.01209685 FALSE 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.