ENSG00000254004

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
ENST00000523638 ENSG00000254004 HEK293_OSMI2_2hA HEK293_TMG_2hB ZNF260 protein_coding protein_coding 3.671525 0.7392469 5.189241 0.08452522 0.3187912 2.794788 2.6974158 0.7392469 3.904908 0.08452522 0.1387631 2.385465 0.8129000 1 0.7594333 -0.2405667 0.001728746 0.001399065 FALSE TRUE
ENST00000593142 ENSG00000254004 HEK293_OSMI2_2hA HEK293_TMG_2hB ZNF260 protein_coding protein_coding 3.671525 0.7392469 5.189241 0.08452522 0.3187912 2.794788 0.7208528 0.0000000 1.171866 0.00000000 0.3209436 6.884922 0.1196083 0 0.2197333 0.2197333 0.001399065 0.001399065 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
ENSG00000254004 E001 20.3290928 0.0020508508 3.257407e-14 9.937294e-13 19 36510687 36511027 341 - 1.043 1.629 2.051
ENSG00000254004 E002 60.6314931 0.0239369961 5.305342e-08 5.688065e-07 19 36511028 36511778 751 - 1.570 1.982 1.394
ENSG00000254004 E003 262.8042772 0.0217799456 1.348359e-03 5.137417e-03 19 36511779 36515443 3665 - 2.326 2.186 -0.468
ENSG00000254004 E004 29.8075197 0.0006784551 1.010330e-04 5.267031e-04 19 36515444 36515699 256 - 1.424 1.011 -1.466
ENSG00000254004 E005 0.6934950 0.0767335024 1.011744e-01 1.922659e-01 19 36517286 36517393 108 - 0.105 0.407 2.498
ENSG00000254004 E006 0.4513240 0.1918251452 4.092060e-01 5.528185e-01 19 36518030 36518143 114 - 0.106 0.246 1.468
ENSG00000254004 E007 0.1817044 0.0472360324 6.311508e-02   19 36525091 36525154 64 - 0.000 0.248 11.087
ENSG00000254004 E008 9.8412606 0.0025491455 3.567306e-01 5.011236e-01 19 36525155 36525173 19 - 0.953 0.806 -0.563
ENSG00000254004 E009 24.5603244 0.0008148751 1.499498e-04 7.467416e-04 19 36525174 36525373 200 - 1.348 0.900 -1.618
ENSG00000254004 E010 14.8025844 0.0012113578 1.259193e-05 8.176531e-05 19 36528219 36528407 189 - 1.156 0.405 -3.112