ENSG00000257704

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
ENST00000552360 ENSG00000257704 HEK293_OSMI2_2hA HEK293_TMG_2hB INAFM1 protein_coding protein_coding 9.666437 18.34134 5.489946 0.4437361 0.1069003 -1.738396 4.477013 6.911671 3.248620 1.236293 0.3132581 -1.086859 0.4695417 0.3750000 0.5944333 0.2194333 1.648115e-01 5.445203e-09 FALSE FALSE
MSTRG.17396.1 ENSG00000257704 HEK293_OSMI2_2hA HEK293_TMG_2hB INAFM1 protein_coding   9.666437 18.34134 5.489946 0.4437361 0.1069003 -1.738396 3.045786 5.265174 2.241326 0.593163 0.4200454 -1.228444 0.3044708 0.2858667 0.4055667 0.1197000 3.874143e-01 5.445203e-09   FALSE
MSTRG.17396.3 ENSG00000257704 HEK293_OSMI2_2hA HEK293_TMG_2hB INAFM1 protein_coding   9.666437 18.34134 5.489946 0.4437361 0.1069003 -1.738396 1.787554 5.527628 0.000000 1.592360 0.0000000 -9.113124 0.2002167 0.3045667 0.0000000 -0.3045667 5.445203e-09 5.445203e-09   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_2hB HEK293_OSMI2_2hA log2fold_HEK293_OSMI2_2hA_HEK293_TMG_2hB
ENSG00000257704 E001 2.940039 0.0064486076 0.482085432 0.62024366 19 47274379 47274384 6 + 0.413 0.557 0.711
ENSG00000257704 E002 26.103491 0.0007582377 0.797980212 0.87109445 19 47274385 47274441 57 + 1.357 1.362 0.017
ENSG00000257704 E003 49.266816 0.0004758349 0.556102361 0.68483716 19 47274442 47274498 57 + 1.632 1.625 -0.024
ENSG00000257704 E004 21.592416 0.0027545809 0.774085584 0.85432435 19 47274885 47275046 162 + 1.279 1.279 0.000
ENSG00000257704 E005 41.406391 0.0007530183 0.009885864 0.02848346 19 47275047 47275123 77 + 1.643 1.521 -0.415
ENSG00000257704 E006 72.295477 0.0005663528 0.137252784 0.24424811 19 47275124 47275272 149 + 1.817 1.778 -0.131
ENSG00000257704 E007 180.225100 0.0094930523 0.029674325 0.07132070 19 47275273 47275784 512 + 2.102 2.211 0.363