ENSG00000172663

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
ENST00000393877 ENSG00000172663 HEK293_DMSO_6hA HEK293_OSMI2_6hA TMEM134 protein_coding protein_coding 50.9336 41.10452 78.04057 4.937801 17.1212 0.9247611 4.411741 2.299345 7.078173 0.6072088 2.133459 1.6179300 0.08656250 0.05606667 0.08656667 0.030500000 5.082827e-01 6.209243e-35 FALSE  
ENST00000535175 ENSG00000172663 HEK293_DMSO_6hA HEK293_OSMI2_6hA TMEM134 protein_coding retained_intron 50.9336 41.10452 78.04057 4.937801 17.1212 0.9247611 3.063418 4.553070 2.914867 0.4117346 1.059962 -0.6416337 0.07573750 0.11473333 0.04826667 -0.066466667 2.890933e-01 6.209243e-35    
ENST00000537601 ENSG00000172663 HEK293_DMSO_6hA HEK293_OSMI2_6hA TMEM134 protein_coding processed_transcript 50.9336 41.10452 78.04057 4.937801 17.1212 0.9247611 0.995014 2.791396 0.000000 0.4051013 0.000000 -8.1300023 0.02826667 0.06760000 0.00000000 -0.067600000 6.209243e-35 6.209243e-35 FALSE  
ENST00000545682 ENSG00000172663 HEK293_DMSO_6hA HEK293_OSMI2_6hA TMEM134 protein_coding nonsense_mediated_decay 50.9336 41.10452 78.04057 4.937801 17.1212 0.9247611 5.281868 3.370166 10.378821 0.3527509 2.317986 1.6198661 0.09622083 0.08236667 0.13256667 0.050200000 2.098112e-03 6.209243e-35 TRUE  
MSTRG.5827.5 ENSG00000172663 HEK293_DMSO_6hA HEK293_OSMI2_6hA TMEM134 protein_coding   50.9336 41.10452 78.04057 4.937801 17.1212 0.9247611 17.013541 11.784792 27.978298 1.9196707 6.722528 1.2466738 0.32378333 0.28653333 0.35383333 0.067300000 4.597640e-01 6.209243e-35 FALSE  
MSTRG.5827.6 ENSG00000172663 HEK293_DMSO_6hA HEK293_OSMI2_6hA TMEM134 protein_coding   50.9336 41.10452 78.04057 4.937801 17.1212 0.9247611 4.433906 2.251417 5.831811 0.8910862 3.610428 1.3691885 0.07392917 0.05150000 0.05986667 0.008366667 9.395385e-01 6.209243e-35 TRUE  
MSTRG.5827.7 ENSG00000172663 HEK293_DMSO_6hA HEK293_OSMI2_6hA TMEM134 protein_coding   50.9336 41.10452 78.04057 4.937801 17.1212 0.9247611 8.280272 5.124965 14.205033 1.0881630 2.611869 1.4689912 0.14794583 0.12263333 0.18653333 0.063900000 1.581599e-01 6.209243e-35 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.