ENSG00000188542

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
ENST00000405954 ENSG00000188542 HEK293_OSMI2_2hA HEK293_TMG_2hB DUSP28 protein_coding protein_coding 2.581548 3.419615 2.506538 0.05305943 0.1153349 -0.4466059 1.7045177 1.871125 1.9436100 0.01969025 0.06879984 0.05454672 0.6802042 0.5476333 0.7768667 0.2292333 6.097426e-04 8.037598e-05 FALSE TRUE
ENST00000438823 ENSG00000188542 HEK293_OSMI2_2hA HEK293_TMG_2hB DUSP28 protein_coding nonsense_mediated_decay 2.581548 3.419615 2.506538 0.05305943 0.1153349 -0.4466059 0.6497424 1.383837 0.3827608 0.14125543 0.02059087 -1.82733871 0.2254250 0.4036333 0.1527000 -0.2509333 8.037598e-05 8.037598e-05 TRUE 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
ENSG00000188542 E001 0.0000000       2 240560054 240560143 90 +      
ENSG00000188542 E002 0.5879639 0.0214513464 0.1799821740 0.3011604317 2 240560144 240560356 213 + 0.334 0.105 -2.078
ENSG00000188542 E003 7.2236261 0.0075052642 0.0048905611 0.0156255631 2 240560357 240560456 100 + 1.072 0.733 -1.295
ENSG00000188542 E004 12.2132231 0.0015020473 0.0169912486 0.0449158747 2 240560457 240560791 335 + 1.226 1.003 -0.804
ENSG00000188542 E005 4.6834337 0.0035931352 0.3741042731 0.5185222158 2 240560792 240560846 55 + 0.806 0.685 -0.491
ENSG00000188542 E006 5.8615501 0.0035361251 0.2477655566 0.3832992381 2 240560847 240560849 3 + 0.900 0.754 -0.573
ENSG00000188542 E007 45.6938312 0.0081757967 0.0142002378 0.0386783095 2 240560850 240561077 228 + 1.544 1.703 0.542
ENSG00000188542 E008 74.3174536 0.0004495376 0.0004215885 0.0018570657 2 240561330 240561519 190 + 1.770 1.911 0.473
ENSG00000188542 E009 99.3792821 0.0019805014 0.0001188959 0.0006088518 2 240561520 240562486 967 + 2.066 1.932 -0.449
ENSG00000188542 E010 20.4981404 0.0010899656 0.2821792553 0.4221524842 2 240562487 240562596 110 + 1.362 1.281 -0.280
ENSG00000188542 E011 26.1556903 0.0008852793 0.0541101609 0.1164415881 2 240562597 240562982 386 + 1.493 1.366 -0.437
ENSG00000188542 E012 15.0068189 0.0014784117 0.8986857018 0.9393908019 2 240562983 240563130 148 + 1.195 1.184 -0.039
ENSG00000188542 E013 39.6824011 0.0006363068 0.6548120480 0.7648913495 2 240563131 240563673 543 + 1.610 1.586 -0.081
ENSG00000188542 E014 90.1138766 0.0010712953 0.0003723211 0.0016671423 2 240563674 240565256 1583 + 1.860 1.991 0.442