ENSG00000140497

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
ENST00000268099 ENSG00000140497 HEK293_OSMI2_2hA HEK293_TMG_2hB SCAMP2 protein_coding protein_coding 85.72348 120.5882 64.96336 8.081073 3.588034 -0.8922886 69.853695 104.875972 45.303599 3.811653 1.333181 -1.21080575 0.80747083 0.87383333 0.7001000 -0.17373333 0.03227300 1.459591e-12 FALSE TRUE
ENST00000562363 ENSG00000140497 HEK293_OSMI2_2hA HEK293_TMG_2hB SCAMP2 protein_coding protein_coding 85.72348 120.5882 64.96336 8.081073 3.588034 -0.8922886 6.010586 7.856866 8.251195 2.214782 1.052435 0.07056154 0.06911667 0.06323333 0.1261333 0.06290000 0.09598364 1.459591e-12 FALSE FALSE
ENST00000569904 ENSG00000140497 HEK293_OSMI2_2hA HEK293_TMG_2hB SCAMP2 protein_coding nonsense_mediated_decay 85.72348 120.5882 64.96336 8.081073 3.588034 -0.8922886 4.480054 3.259852 6.378016 1.711307 2.006676 0.96614267 0.05524583 0.02533333 0.0959000 0.07056667 0.50876573 1.459591e-12 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.

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
ENSG00000140497 E001 3.601936 0.0638970351 1.551996e-01 2.686547e-01 15 74843730 74843731 2 - 0.399 0.692 1.377
ENSG00000140497 E002 38.085075 0.0084420936 6.382208e-02 1.330542e-01 15 74843732 74843763 32 - 1.418 1.575 0.540
ENSG00000140497 E003 1919.682330 0.0019946730 1.128337e-03 4.399080e-03 15 74843764 74844854 1091 - 3.164 3.244 0.264
ENSG00000140497 E004 669.631780 0.0001153851 1.729801e-01 2.920701e-01 15 74844855 74845007 153 - 2.744 2.773 0.097
ENSG00000140497 E005 1083.386933 0.0001414060 1.325845e-05 8.560337e-05 15 74845008 74845205 198 - 2.926 2.990 0.214
ENSG00000140497 E006 489.767429 0.0023818647 1.332384e-01 2.386303e-01 15 74845206 74845217 12 - 2.591 2.644 0.177
ENSG00000140497 E007 16.946288 0.0034005158 9.243728e-01 9.563579e-01 15 74845218 74845472 255 - 1.193 1.191 -0.006
ENSG00000140497 E008 841.690154 0.0011934590 2.216170e-02 5.601243e-02 15 74845473 74845579 107 - 2.822 2.880 0.192
ENSG00000140497 E009 455.966924 0.0002451806 3.065461e-02 7.324097e-02 15 74845580 74845593 14 - 2.559 2.610 0.170
ENSG00000140497 E010 11.887959 0.0028700166 9.402954e-08 9.597335e-07 15 74848426 74848599 174 - 1.364 0.852 -1.858
ENSG00000140497 E011 392.284417 0.0001377889 2.860420e-01 4.264194e-01 15 74848600 74848603 4 - 2.511 2.540 0.098
ENSG00000140497 E012 608.149866 0.0002928213 5.710087e-01 6.973960e-01 15 74848604 74848645 42 - 2.724 2.722 -0.006
ENSG00000140497 E013 469.774154 0.0001438689 6.658032e-02 1.376908e-01 15 74848646 74848681 36 - 2.630 2.603 -0.088
ENSG00000140497 E014 567.039885 0.0001122846 1.860828e-05 1.163038e-04 15 74848682 74848701 20 - 2.739 2.675 -0.211
ENSG00000140497 E015 1.949898 0.1466862560 8.489705e-01 9.062759e-01 15 74850512 74850513 2 - 0.400 0.456 0.298
ENSG00000140497 E016 982.866472 0.0003636387 2.820226e-06 2.123881e-05 15 74850514 74850673 160 - 2.975 2.915 -0.200
ENSG00000140497 E017 815.504058 0.0001404412 3.685394e-05 2.142335e-04 15 74851353 74851481 129 - 2.887 2.837 -0.169
ENSG00000140497 E018 1.801577 0.0081144865 1.451666e-01 2.550649e-01 15 74851904 74852068 165 - 0.177 0.462 1.912
ENSG00000140497 E019 745.294264 0.0009520974 2.173350e-02 5.512433e-02 15 74852069 74852186 118 - 2.839 2.802 -0.121
ENSG00000140497 E020 19.089680 0.0010894355 1.246431e-04 6.350381e-04 15 74852187 74853367 1181 - 1.442 1.141 -1.055
ENSG00000140497 E021 7.415115 0.0703759815 8.384825e-01 8.990259e-01 15 74853368 74853496 129 - 0.905 0.871 -0.127
ENSG00000140497 E022 3.711901 0.0108065543 2.582756e-02 6.358533e-02 15 74853497 74853756 260 - 0.847 0.520 -1.384
ENSG00000140497 E023 6.283745 0.0311654806 4.059143e-04 1.797467e-03 15 74853757 74854020 264 - 1.117 0.619 -1.935
ENSG00000140497 E024 734.746297 0.0013675438 1.342087e-01 2.400074e-01 15 74854021 74854119 99 - 2.823 2.800 -0.078
ENSG00000140497 E025 624.953461 0.0012449782 2.434449e-01 3.782242e-01 15 74854581 74854649 69 - 2.750 2.732 -0.057
ENSG00000140497 E026 2.419842 0.0270587698 6.350222e-02 1.325310e-01 15 74872924 74873198 275 - 0.177 0.549 2.335
ENSG00000140497 E027 645.125008 0.0021015526 3.628443e-01 5.072634e-01 15 74873199 74873365 167 - 2.761 2.747 -0.047