ENSG00000178538

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
ENST00000317995 ENSG00000178538 HEK293_OSMI2_2hA HEK293_TMG_2hB CA8 protein_coding protein_coding 16.7279 17.70832 18.41022 2.385263 0.3673641 0.0560488 1.544726 0.935946 2.713470 0.1770201 0.1890515 1.5256161 0.0881125 0.0531000 0.1473667 0.09426667 4.731987e-06 4.731987e-06 FALSE TRUE
ENST00000524872 ENSG00000178538 HEK293_OSMI2_2hA HEK293_TMG_2hB CA8 protein_coding retained_intron 16.7279 17.70832 18.41022 2.385263 0.3673641 0.0560488 9.828201 11.645075 9.496881 1.3708264 0.4000103 -0.2939143 0.5864458 0.6608667 0.5160667 -0.14480000 1.616160e-03 4.731987e-06 FALSE TRUE
MSTRG.31541.2 ENSG00000178538 HEK293_OSMI2_2hA HEK293_TMG_2hB CA8 protein_coding   16.7279 17.70832 18.41022 2.385263 0.3673641 0.0560488 5.132563 5.037535 5.789329 0.8492825 0.3334183 0.2003070 0.3101500 0.2814333 0.3140000 0.03256667 6.009879e-01 4.731987e-06 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
ENSG00000178538 E001 174.5583233 0.0123663040 7.746592e-14 2.239537e-12 8 60185412 60189482 4071 - 2.454 1.988 -1.557
ENSG00000178538 E002 121.9584523 0.0003305719 1.515256e-03 5.685496e-03 8 60189483 60189985 503 - 2.165 2.029 -0.458
ENSG00000178538 E003 129.6733180 0.0006822168 2.716853e-08 3.084620e-07 8 60208071 60208749 679 - 2.025 2.168 0.478
ENSG00000178538 E004 180.7141334 0.0002514390 1.212522e-07 1.212311e-06 8 60208750 60208919 170 - 2.196 2.296 0.333
ENSG00000178538 E005 153.2951082 0.0002435083 2.148517e-06 1.659519e-05 8 60222649 60222761 113 - 2.130 2.226 0.321
ENSG00000178538 E006 123.5015944 0.0002711148 4.503647e-03 1.455306e-02 8 60224537 60224585 49 - 2.064 2.115 0.172
ENSG00000178538 E007 140.7869997 0.0013974650 3.298055e-02 7.776644e-02 8 60226873 60226935 63 - 2.130 2.159 0.097
ENSG00000178538 E008 160.1435086 0.0002906810 4.832414e-03 1.546508e-02 8 60232284 60232379 96 - 2.182 2.221 0.132
ENSG00000178538 E009 1.5584509 0.1571035068 8.543694e-01 9.098933e-01 8 60232485 60232673 189 - 0.386 0.398 0.064
ENSG00000178538 E010 0.5514428 0.0193874923 9.956149e-02 1.898140e-01 8 60264822 60265924 1103 - 0.000 0.276 9.755
ENSG00000178538 E011 225.1106474 0.0001790935 3.959456e-01 5.397386e-01 8 60265925 60266049 125 - 2.365 2.346 -0.062
ENSG00000178538 E012 213.1549825 0.0025237982 6.949167e-01 7.956354e-01 8 60279689 60279880 192 - 2.360 2.307 -0.175
ENSG00000178538 E013 146.3388777 0.0103404072 2.340173e-02 5.858224e-02 8 60281048 60281400 353 - 2.253 2.090 -0.546