ENSG00000116704

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
ENST00000235345 ENSG00000116704 HEK293_OSMI2_6hA HEK293_TMG_6hB SLC35D1 protein_coding protein_coding 8.943689 3.831724 13.31078 0.5718085 0.10686 1.793853 6.745147 3.6780355 8.838844 0.4732215 0.4880069 1.262636 0.8182958 0.96573333 0.6646 -0.3011333 0.001139922 0.001139922 FALSE TRUE
MSTRG.1373.3 ENSG00000116704 HEK293_OSMI2_6hA HEK293_TMG_6hB SLC35D1 protein_coding   8.943689 3.831724 13.31078 0.5718085 0.10686 1.793853 2.111299 0.1001583 4.283608 0.1001583 0.5349079 5.284540 0.1698958 0.02043333 0.3213 0.3008667 0.011689057 0.001139922 FALSE 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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000116704 E001 2.092245 0.3480225664 6.140402e-01 7.795681e-01 1 66970809 66970961 153 - 0.424 0.562 0.677
ENSG00000116704 E002 1.690275 0.0185401360 1.736550e-01 3.954111e-01 1 66975382 66975518 137 - 0.326 0.578 1.318
ENSG00000116704 E003 154.657071 0.0056243877 2.801807e-13 3.195509e-11 1 66999350 67000400 1051 - 2.016 2.354 1.131
ENSG00000116704 E004 857.652517 0.0009165050 3.334035e-01 5.719676e-01 1 67000401 67004018 3618 - 2.864 2.893 0.098
ENSG00000116704 E005 65.733125 0.0008027466 8.368278e-02 2.521650e-01 1 67004019 67004315 297 - 1.782 1.710 -0.243
ENSG00000116704 E006 65.528529 0.0034082124 2.175484e-02 1.017817e-01 1 67004316 67004448 133 - 1.792 1.676 -0.393
ENSG00000116704 E007 44.524407 0.0016216359 1.346441e-02 7.224377e-02 1 67009085 67009167 83 - 1.630 1.487 -0.490
ENSG00000116704 E008 36.098450 0.0100546002 2.656806e-02 1.169787e-01 1 67020369 67020447 79 - 1.545 1.372 -0.597
ENSG00000116704 E009 34.988588 0.0021420481 5.614754e-02 1.939614e-01 1 67021535 67021602 68 - 1.521 1.399 -0.420
ENSG00000116704 E010 46.615123 0.0009180966 8.544801e-03 5.181515e-02 1 67042236 67042328 93 - 1.649 1.502 -0.502
ENSG00000116704 E011 45.098009 0.0009117625 6.896781e-02 2.227058e-01 1 67047265 67047367 103 - 1.627 1.531 -0.326
ENSG00000116704 E012 38.944392 0.0022112959 3.909228e-01 6.210958e-01 1 67049782 67049850 69 - 1.550 1.509 -0.140
ENSG00000116704 E013 51.884494 0.0006837849 5.674621e-01 7.483915e-01 1 67050433 67050504 72 - 1.665 1.650 -0.052
ENSG00000116704 E014 55.396468 0.0035376336 2.573289e-01 4.960652e-01 1 67052012 67052079 68 - 1.702 1.651 -0.174
ENSG00000116704 E015 58.988414 0.0058540781 1.030369e-01 2.872440e-01 1 67052771 67052857 87 - 1.738 1.650 -0.296
ENSG00000116704 E016 36.750087 0.0298167887 1.564504e-01 3.715352e-01 1 67052956 67052989 34 - 1.548 1.415 -0.456
ENSG00000116704 E017 67.485886 0.0144531135 2.377793e-01 4.740038e-01 1 67053811 67054523 713 - 1.794 1.722 -0.244