ENSG00000110060

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
ENST00000227474 ENSG00000110060 HEK293_OSMI2_2hA HEK293_TMG_2hB PUS3 protein_coding protein_coding 17.32453 11.4393 26.27973 1.655976 0.3099805 1.19924 5.653084 3.714152 6.042755 0.1502286 1.0675531 0.7006800 0.37077917 0.3340000 0.2309667 -0.10303333 3.715614e-01 1.567336e-27 FALSE TRUE
ENST00000534158 ENSG00000110060 HEK293_OSMI2_2hA HEK293_TMG_2hB PUS3 protein_coding protein_coding 17.32453 11.4393 26.27973 1.655976 0.3099805 1.19924 2.605264 0.000000 6.349149 0.0000000 0.6822992 9.3126899 0.10441250 0.0000000 0.2410667 0.24106667 1.567336e-27 1.567336e-27 FALSE FALSE
ENST00000613398 ENSG00000110060 HEK293_OSMI2_2hA HEK293_TMG_2hB PUS3 protein_coding protein_coding 17.32453 11.4393 26.27973 1.655976 0.3099805 1.19924 7.022362 5.594334 10.463180 1.4271453 0.5835868 0.9020848 0.39471667 0.4757000 0.3977667 -0.07793333 5.182481e-01 1.567336e-27 FALSE TRUE
MSTRG.6519.4 ENSG00000110060 HEK293_OSMI2_2hA HEK293_TMG_2hB PUS3 protein_coding   17.32453 11.4393 26.27973 1.655976 0.3099805 1.19924 1.072786 1.338991 2.370693 0.1315468 0.1247940 0.8195011 0.06464583 0.1185667 0.0901000 -0.02846667 2.943815e-01 1.567336e-27 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
ENSG00000110060 E001 0.7717566 0.0159646286 6.282694e-02 1.314149e-01 11 125893485 125893485 1 - 0.098 0.425 2.708
ENSG00000110060 E002 43.5124818 0.0006397664 2.561638e-05 1.548977e-04 11 125893486 125893614 129 - 1.538 1.770 0.786
ENSG00000110060 E003 198.7482299 0.0024001472 5.327057e-04 2.282266e-03 11 125893615 125893984 370 - 2.249 2.363 0.381
ENSG00000110060 E004 203.3755138 0.0020836983 1.839823e-03 6.725887e-03 11 125893985 125894286 302 - 2.267 2.362 0.319
ENSG00000110060 E005 185.2764652 0.0003118345 6.534156e-01 7.638995e-01 11 125895224 125895660 437 - 2.272 2.274 0.004
ENSG00000110060 E006 43.1531262 0.0015769711 2.614303e-01 3.990781e-01 11 125895661 125895669 9 - 1.670 1.620 -0.168
ENSG00000110060 E007 91.2833918 0.0024707439 4.628025e-03 1.489679e-02 11 125895670 125895789 120 - 2.009 1.899 -0.369
ENSG00000110060 E008 57.6910607 0.0005368726 1.550513e-03 5.799524e-03 11 125895907 125895969 63 - 1.820 1.682 -0.467
ENSG00000110060 E009 106.5921020 0.0004393753 8.743823e-07 7.352380e-06 11 125895970 125896330 361 - 2.090 1.930 -0.536
ENSG00000110060 E010 3.3278698 0.0049125480 1.592325e-01 2.740880e-01 11 125900679 125900844 166 - 0.705 0.489 -0.964
ENSG00000110060 E011 42.6677560 0.0048283819 4.358628e-03 1.414452e-02 11 125903170 125903221 52 - 1.702 1.525 -0.602