ENSG00000179409

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
ENST00000319004 ENSG00000179409 HEK293_OSMI2_2hA HEK293_TMG_2hB GEMIN4 protein_coding protein_coding 65.95539 98.44873 50.60804 5.189935 1.029061 -0.9598673 61.97665 94.80034 45.56384 4.907646 0.6645684 -1.056839 0.9334375 0.9630667 0.9005667 -0.0625 2.11171e-10 7.997072e-32 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.

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
ENSG00000179409 E001 64.8410669 4.014279e-04 1.215913e-01 2.222007e-01 17 744421 744622 202 - 1.687 1.814 0.430
ENSG00000179409 E002 4893.0874186 1.711902e-03 2.504677e-14 7.766015e-13 17 744623 746630 2008 - 3.544 3.690 0.483
ENSG00000179409 E003 1490.0940243 9.925285e-05 3.583246e-04 1.612358e-03 17 746631 747166 536 - 3.121 3.138 0.055
ENSG00000179409 E004 470.4777225 6.653815e-04 1.215898e-03 4.694280e-03 17 747167 747239 73 - 2.642 2.627 -0.050
ENSG00000179409 E005 391.2217147 6.024336e-04 3.962425e-04 1.759945e-03 17 747240 747282 43 - 2.569 2.544 -0.085
ENSG00000179409 E006 619.6807339 1.533951e-03 1.032817e-03 4.071926e-03 17 747283 747440 158 - 2.769 2.745 -0.078
ENSG00000179409 E007 479.7874737 1.570248e-03 3.770489e-02 8.677693e-02 17 747441 747544 104 - 2.641 2.642 0.005
ENSG00000179409 E008 880.0908794 4.503537e-04 4.666459e-08 5.064429e-07 17 747545 747843 299 - 2.926 2.895 -0.104
ENSG00000179409 E009 529.6945566 7.853780e-04 3.277184e-12 7.392863e-11 17 747844 748032 189 - 2.745 2.656 -0.297
ENSG00000179409 E010 30.3918232 7.592955e-04 1.512567e-05 9.645919e-05 17 748033 749351 1319 - 1.602 1.374 -0.785
ENSG00000179409 E011 19.5169879 4.038988e-03 1.043582e-07 1.056165e-06 17 749814 749909 96 - 1.503 1.119 -1.344
ENSG00000179409 E012 19.7304094 2.943276e-02 2.259297e-02 5.690431e-02 17 751651 752132 482 - 1.414 1.205 -0.728
ENSG00000179409 E013 230.9046304 6.500638e-03 1.147552e-05 7.521979e-05 17 752133 752264 132 - 2.422 2.277 -0.482
ENSG00000179409 E014 7.7748878 2.134784e-03 2.716015e-01 4.103753e-01 17 752618 752776 159 - 0.962 0.877 -0.321
ENSG00000179409 E015 0.1515154 4.334760e-02 2.236055e-01   17 753959 753999 41 - 0.163 0.000 -10.340