ENSG00000112658

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
ENST00000265354 ENSG00000112658 HEK293_OSMI2_2hA HEK293_TMG_2hB SRF protein_coding protein_coding 43.67454 69.64083 33.64407 3.117316 0.3285286 -1.049359 21.61674 25.56868 22.48411 4.671008 0.5098410 -0.1853946 0.5115250 0.3639000 0.6686667 0.3047667 0.0007406225 0.0004436914 FALSE TRUE
MSTRG.28311.3 ENSG00000112658 HEK293_OSMI2_2hA HEK293_TMG_2hB SRF protein_coding   43.67454 69.64083 33.64407 3.117316 0.3285286 -1.049359 21.75832 43.61743 10.91476 3.128744 0.7218126 -1.9976337 0.4822875 0.6294333 0.3241000 -0.3053333 0.0004436914 0.0004436914 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_2hB HEK293_OSMI2_2hA log2fold_HEK293_OSMI2_2hA_HEK293_TMG_2hB
ENSG00000112658 E001 576.671236 0.0129859004 7.691268e-05 4.134520e-04 6 43171269 43172169 901 + 2.821 2.678 -0.475
ENSG00000112658 E002 3.392323 0.0049007799 5.765674e-01 7.019630e-01 6 43172435 43172539 105 + 0.655 0.615 -0.174
ENSG00000112658 E003 1.770359 0.0080908635 3.684128e-01 5.128305e-01 6 43172540 43172578 39 + 0.505 0.388 -0.610
ENSG00000112658 E004 751.510694 0.0002371897 1.882799e-23 1.756232e-21 6 43173847 43174113 267 + 2.895 2.812 -0.276
ENSG00000112658 E005 716.512484 0.0001045839 9.226575e-11 1.638342e-09 6 43175706 43175967 262 + 2.840 2.809 -0.102
ENSG00000112658 E006 418.706807 0.0002072634 5.269804e-05 2.952384e-04 6 43176548 43176667 120 + 2.598 2.581 -0.056
ENSG00000112658 E007 567.919468 0.0001155596 1.493021e-04 7.440049e-04 6 43178294 43178485 192 + 2.719 2.719 -0.002
ENSG00000112658 E008 351.551562 0.0003212502 1.569503e-01 2.710337e-01 6 43178806 43178882 77 + 2.490 2.519 0.098
ENSG00000112658 E009 3644.985100 0.0019669325 1.025338e-20 7.173086e-19 6 43179095 43181506 2412 + 3.398 3.576 0.592