ENSG00000071889

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
ENST00000322269 ENSG00000071889 HEK293_DMSO_2hB HEK293_TMG_2hB FAM3A protein_coding protein_coding 94.7677 54.70812 44.169 1.961756 1.241079 -0.3086578 4.178804 0.000000 3.1608865 0.0000000 0.5541760 8.30874243 0.04325833 0.00000000 0.071866667 0.071866667 1.126396e-20 1.126396e-20 FALSE  
ENST00000359889 ENSG00000071889 HEK293_DMSO_2hB HEK293_TMG_2hB FAM3A protein_coding protein_coding 94.7677 54.70812 44.169 1.961756 1.241079 -0.3086578 13.361015 10.800831 2.9233588 3.3133781 1.4791844 -1.88185199 0.12949167 0.19463333 0.068133333 -0.126500000 9.311750e-01 1.126396e-20 FALSE  
ENST00000369641 ENSG00000071889 HEK293_DMSO_2hB HEK293_TMG_2hB FAM3A protein_coding protein_coding 94.7677 54.70812 44.169 1.961756 1.241079 -0.3086578 7.711643 3.744492 3.5336678 0.4706912 0.2052086 -0.08337426 0.08195417 0.06906667 0.079866667 0.010800000 9.311750e-01 1.126396e-20 FALSE  
ENST00000369643 ENSG00000071889 HEK293_DMSO_2hB HEK293_TMG_2hB FAM3A protein_coding protein_coding 94.7677 54.70812 44.169 1.961756 1.241079 -0.3086578 4.779613 1.650634 4.5526768 0.2771973 1.0256667 1.45814639 0.05066667 0.03000000 0.102700000 0.072700000 4.136692e-02 1.126396e-20 FALSE  
ENST00000419205 ENSG00000071889 HEK293_DMSO_2hB HEK293_TMG_2hB FAM3A protein_coding protein_coding 94.7677 54.70812 44.169 1.961756 1.241079 -0.3086578 15.229872 8.423135 7.8583286 0.8194503 0.8098467 -0.10001181 0.15340417 0.15326667 0.178433333 0.025166667 9.311750e-01 1.126396e-20 FALSE  
ENST00000447601 ENSG00000071889 HEK293_DMSO_2hB HEK293_TMG_2hB FAM3A protein_coding protein_coding 94.7677 54.70812 44.169 1.961756 1.241079 -0.3086578 23.463182 11.733446 10.0864902 1.7218286 1.3826578 -0.21800195 0.24943333 0.21650000 0.227000000 0.010500000 1.000000e+00 1.126396e-20 FALSE  
ENST00000475657 ENSG00000071889 HEK293_DMSO_2hB HEK293_TMG_2hB FAM3A protein_coding retained_intron 94.7677 54.70812 44.169 1.961756 1.241079 -0.3086578 7.098347 3.838687 2.9551915 0.5509169 0.2747005 -0.37624111 0.08545417 0.07073333 0.066666667 -0.004066667 1.000000e+00 1.126396e-20    
ENST00000621967 ENSG00000071889 HEK293_DMSO_2hB HEK293_TMG_2hB FAM3A protein_coding nonsense_mediated_decay 94.7677 54.70812 44.169 1.961756 1.241079 -0.3086578 6.531686 4.330007 0.3188796 0.3293466 0.3188796 -3.72206594 0.06541667 0.07913333 0.007466667 -0.071666667 3.141542e-01 1.126396e-20 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.