ENSG00000176542

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
ENST00000316407 ENSG00000176542 HEK293_OSMI2_6hA HEK293_TMG_6hB USF3 protein_coding protein_coding 2.422147 3.151224 2.261918 0.8735595 0.4471428 -0.4765725 1.4877490 1.413950 2.261918 0.2865014 0.4471428 0.6740123 0.67895 0.4823667 1 0.5176333 2.462585e-11 2.462585e-11 FALSE TRUE
ENST00000491165 ENSG00000176542 HEK293_OSMI2_6hA HEK293_TMG_6hB USF3 protein_coding protein_coding 2.422147 3.151224 2.261918 0.8735595 0.4471428 -0.4765725 0.9343977 1.737274 0.000000 0.6264627 0.0000000 -7.4489621 0.32105 0.5176333 0 -0.5176333 2.592819e-11 2.462585e-11   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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000176542 E001 130.732681 0.05997117 0.0001961697 0.002632695 3 113648385 113649850 1466 - 1.888 2.270 1.281
ENSG00000176542 E002 187.765141 0.32344430 0.1327754487 0.336159207 3 113649851 113653238 3388 - 2.178 2.355 0.593
ENSG00000176542 E003 279.238443 0.30814018 0.9515874243 0.977719750 3 113653239 113661425 8187 - 2.509 2.378 -0.437
ENSG00000176542 E004 8.249121 0.11936867 0.0879002560 0.259811934 3 113664313 113664409 97 - 1.060 0.854 -0.768
ENSG00000176542 E005 10.622775 0.33922520 0.0529441414 0.186576737 3 113670121 113670203 83 - 1.213 0.848 -1.342
ENSG00000176542 E006 0.000000       3 113670204 113670233 30 -      
ENSG00000176542 E007 7.644643 0.39347499 0.0114509971 0.064217056 3 113673348 113673376 29 - 1.139 0.555 -2.300
ENSG00000176542 E008 7.428031 0.35462958 0.0146066772 0.076618829 3 113674832 113674896 65 - 1.119 0.566 -2.181
ENSG00000176542 E009 6.881709 0.51177504 0.0544151319 0.190060693 3 113677282 113677397 116 - 1.078 0.587 -1.939
ENSG00000176542 E010 3.783702 0.61192418 0.1225520298 0.319857276 3 113696370 113696646 277 - 0.838 0.423 -1.839