ENSG00000126953

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
ENST00000372902 ENSG00000126953 HEK293_DMSO_6hA HEK293_OSMI2_6hA TIMM8A protein_coding protein_coding 38.05508 31.41358 32.33871 1.996318 7.090592 0.04186026 24.876049 21.127423 18.605298 1.4572626 2.841717 -0.183310752 0.67575417 0.6731333 0.5966333 -0.07650000 0.61123322 0.01989424 FALSE FALSE
MSTRG.34597.7 ENSG00000126953 HEK293_DMSO_6hA HEK293_OSMI2_6hA TIMM8A protein_coding   38.05508 31.41358 32.33871 1.996318 7.090592 0.04186026 7.270951 5.634482 5.598075 1.2553914 2.017750 -0.009335348 0.17761667 0.1771667 0.1625000 -0.01466667 0.91685400 0.01989424 FALSE FALSE
MSTRG.34597.8 ENSG00000126953 HEK293_DMSO_6hA HEK293_OSMI2_6hA TIMM8A protein_coding   38.05508 31.41358 32.33871 1.996318 7.090592 0.04186026 3.846053 2.874500 6.764877 0.2420871 2.154995 1.231873534 0.09067083 0.0923000 0.1974667 0.10516667 0.01989424 0.01989424   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_OSMI2_6hA HEK293_DMSO_6hA log2fold_HEK293_DMSO_6hA_HEK293_OSMI2_6hA
ENSG00000126953 E001 68.746607 0.023780120 0.4136863883 0.7826759 X 101345661 101345783 123 - 1.801 1.868 0.227
ENSG00000126953 E002 102.253129 0.016160730 0.4357505871 0.7948656 X 101345784 101346091 308 - 1.980 2.034 0.180
ENSG00000126953 E003 89.058213 0.025796799 0.7289319465 0.9253336 X 101346092 101346199 108 - 1.933 1.967 0.115
ENSG00000126953 E004 76.197887 0.013013471 0.4934134958 0.8261081 X 101346200 101346252 53 - 1.859 1.906 0.156
ENSG00000126953 E005 548.876474 0.003429163 0.3227703651 0.7189939 X 101346253 101346660 408 - 2.723 2.746 0.077
ENSG00000126953 E006 46.994250 0.001377335 0.0353999180 0.2984222 X 101346661 101347926 1266 - 1.610 1.721 0.376
ENSG00000126953 E007 13.094333 0.002794548 0.3255172285 0.7212353 X 101347927 101348040 114 - 1.095 1.185 0.321
ENSG00000126953 E008 10.838352 0.004030476 0.5680853081 0.8614674 X 101348041 101348060 20 - 1.106 1.047 -0.216
ENSG00000126953 E009 86.693119 0.012661191 0.0005351024 0.0375090 X 101348061 101348401 341 - 2.057 1.820 -0.794
ENSG00000126953 E010 6.928829 0.003401865 0.7175145032 0.9212804 X 101348402 101348532 131 - 0.869 0.912 0.161
ENSG00000126953 E011 335.411465 0.004018000 0.3453533511 0.7357945 X 101348533 101348592 60 - 2.536 2.511 -0.083
ENSG00000126953 E012 346.653379 0.002548707 0.4197347832 0.7858480 X 101348593 101348742 150 - 2.546 2.528 -0.059