ENSG00000229124

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
ENST00000437232 ENSG00000229124 HEK293_DMSO_6hA HEK293_OSMI2_6hA VIM-AS1 lncRNA lncRNA 1.159309 0.9284656 0.6977446 0.1483041 0.1387125 -0.4070751 0.01871467 0.02845733 0.05482009 0.02845733 0.05482009 0.7531824 0.03003333 0.0360000 0.1261 0.0901000 9.453764e-01 6.026694e-06   FALSE
ENST00000605833 ENSG00000229124 HEK293_DMSO_6hA HEK293_OSMI2_6hA VIM-AS1 lncRNA lncRNA 1.159309 0.9284656 0.6977446 0.1483041 0.1387125 -0.4070751 0.74747846 0.16363705 0.36733407 0.08248583 0.20055177 1.1197675 0.59709583 0.1759667 0.5696 0.3936333 6.965651e-01 6.026694e-06   FALSE
ENST00000661048 ENSG00000229124 HEK293_DMSO_6hA HEK293_OSMI2_6hA VIM-AS1 lncRNA lncRNA 1.159309 0.9284656 0.6977446 0.1483041 0.1387125 -0.4070751 0.18562828 0.10027277 0.27559045 0.10027277 0.27559045 1.3728712 0.18643333 0.1268667 0.3043 0.1774333 9.441032e-01 6.026694e-06   FALSE
ENST00000664157 ENSG00000229124 HEK293_DMSO_6hA HEK293_OSMI2_6hA VIM-AS1 lncRNA lncRNA 1.159309 0.9284656 0.6977446 0.1483041 0.1387125 -0.4070751 0.20748786 0.63609849 0.00000000 0.18310405 0.00000000 -6.0136822 0.18643333 0.6611667 0.0000 -0.6611667 6.026694e-06 6.026694e-06   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
ENSG00000229124 E001 0.1544607 0.033363597 7.093509e-01   10 17214239 17214243 5 - 0.000 0.104 9.676
ENSG00000229124 E002 0.1544607 0.033363597 7.093509e-01   10 17214244 17214245 2 - 0.000 0.104 11.100
ENSG00000229124 E003 0.4901314 0.027984034 8.293153e-01   10 17214246 17214331 86 - 0.137 0.188 0.541
ENSG00000229124 E004 24.8408647 0.002237509 7.785339e-01 0.94194515 10 17214332 17215364 1033 - 1.393 1.413 0.069
ENSG00000229124 E005 5.1519345 0.006451638 3.293586e-02 0.29064691 10 17216167 17216274 108 - 0.556 0.875 1.323
ENSG00000229124 E006 2.7085813 0.008361920 8.135368e-05 0.01209062 10 17216275 17216375 101 - 0.000 0.727 14.305
ENSG00000229124 E007 1.3333318 0.019747299 8.875322e-02   10 17217602 17217675 74 - 0.137 0.462 2.351
ENSG00000229124 E008 0.2842848 0.029277982 7.756600e-01   10 17226856 17226898 43 - 0.137 0.104 -0.449
ENSG00000229124 E009 10.8884822 0.015378759 8.567676e-04 0.04952009 10 17229345 17230018 674 - 1.217 0.935 -1.024