ENSG00000128059

1 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
ENST00000264220 ENSG00000128059 HEK293_OSMI2_2hA HEK293_TMG_2hB PPAT protein_coding protein_coding 25.86754 7.856479 46.88613 0.7187344 1.575494 2.575679 22.809908 7.4004405 41.150094 0.6991493 1.628024039 2.473615 0.88376667 0.94143333 0.87733333 -0.064100000 2.703504e-03 4.79647e-11 FALSE  
ENST00000425339 ENSG00000128059 HEK293_OSMI2_2hA HEK293_TMG_2hB PPAT protein_coding retained_intron 25.86754 7.856479 46.88613 0.7187344 1.575494 2.575679 1.001147 0.2918931 1.534077 0.0475138 0.008119125 2.354635 0.05087917 0.03756667 0.03280000 -0.004766667 8.091592e-01 4.79647e-11 FALSE  
ENST00000507724 ENSG00000128059 HEK293_OSMI2_2hA HEK293_TMG_2hB PPAT protein_coding nonsense_mediated_decay 25.86754 7.856479 46.88613 0.7187344 1.575494 2.575679 1.640865 0.0000000 3.482579 0.0000000 0.385853934 8.448149 0.04902500 0.00000000 0.07463333 0.074633333 4.796470e-11 4.79647e-11 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.

2 Differential Exon Usage

Counts

All exons whithin this gene region are shown and numbering below.

Expression

All exons whithin this gene region are shown and numbering below.

Splicing

All exons whithin this gene region are shown and numbering below.

Transcripts

All isoforms whithin this gene region are shown below.

Results

groupID featureID exonBaseMean dispersion pvalue padj seqnames start end width strand HEK293_TMG_2hB HEK293_OSMI2_2hA log2fold_HEK293_OSMI2_2hA_HEK293_TMG_2hB
ENSG00000128059 E001 7.4236477 0.0148321567 2.625781e-01 4.003657e-01 4 56392585 56393361 777 - 0.723 1.008 1.097
ENSG00000128059 E002 1.8820185 0.0211868765 1.001821e-04 5.226846e-04 4 56393362 56393364 3 - 0.165 0.918 3.971
ENSG00000128059 E003 1232.4608805 0.0194085183 8.371077e-07 7.070332e-06 4 56393365 56395548 2184 - 2.854 3.216 1.201
ENSG00000128059 E004 225.5888599 0.0005395891 4.855731e-07 4.304449e-06 4 56396619 56396739 121 - 2.193 2.154 -0.128
ENSG00000128059 E005 303.7144140 0.0049314112 6.706179e-03 2.046091e-02 4 56399179 56399400 222 - 2.312 2.334 0.070
ENSG00000128059 E006 36.3266885 0.0005833080 6.133357e-01 7.320313e-01 4 56399401 56400783 1383 - 1.396 1.493 0.337
ENSG00000128059 E007 181.6507386 0.0043815794 9.521939e-02 1.832043e-01 4 56400784 56400911 128 - 2.085 2.143 0.193
ENSG00000128059 E008 0.7728905 0.0146070178 7.545818e-01 8.401684e-01 4 56400912 56400916 5 - 0.165 0.282 0.979
ENSG00000128059 E009 132.6714442 0.0003112209 9.890581e-02 1.888021e-01 4 56401330 56401389 60 - 1.948 2.018 0.235
ENSG00000128059 E010 151.1350241 0.0002444540 1.323995e-03 5.056687e-03 4 56401390 56401481 92 - 2.013 2.022 0.029
ENSG00000128059 E011 151.2375952 0.0002188553 2.214393e-05 1.358737e-04 4 56402109 56402181 73 - 2.020 1.982 -0.126
ENSG00000128059 E012 116.1277109 0.0002698873 6.524185e-06 4.524940e-05 4 56403040 56403062 23 - 1.912 1.831 -0.274
ENSG00000128059 E013 115.0903961 0.0003028117 1.923857e-05 1.198028e-04 4 56403063 56403073 11 - 1.906 1.836 -0.236
ENSG00000128059 E014 200.2441646 0.0029073472 1.261768e-04 6.420753e-04 4 56403074 56403185 112 - 2.140 2.108 -0.107
ENSG00000128059 E015 185.1596029 0.0002351885 9.351495e-07 7.807212e-06 4 56403289 56403401 113 - 2.108 2.062 -0.157
ENSG00000128059 E016 2.8348318 0.0063739901 1.853332e-01 3.079066e-01 4 56403980 56404118 139 - 0.489 0.282 -1.191
ENSG00000128059 E017 191.3988845 0.0009124357 1.420190e-04 7.122268e-04 4 56406495 56406618 124 - 2.118 2.110 -0.027
ENSG00000128059 E018 138.1462900 0.0002519291 1.142404e-05 7.491350e-05 4 56406619 56406701 83 - 1.984 1.930 -0.182
ENSG00000128059 E019 123.5047798 0.0002307309 3.979525e-03 1.308529e-02 4 56407650 56407716 67 - 1.928 1.939 0.035
ENSG00000128059 E020 0.0000000       4 56408099 56408328 230 -      
ENSG00000128059 E021 192.2094550 0.0008298759 2.278903e-06 1.750522e-05 4 56435350 56435639 290 - 2.126 2.081 -0.149