ENSG00000227963

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
ENST00000686992 ENSG00000227963 HEK293_OSMI2_2hA HEK293_TMG_2hB RBM15-AS1 lncRNA lncRNA 6.647328 12.12367 3.632053 0.1221353 0.2382425 -1.736192 0.7723773 1.388340 0.3366608 0.48350072 0.07745329 -2.012119 0.1198167 0.1140000 0.09250000 -0.02150000 0.9011579627 0.0008797594    
MSTRG.1783.3 ENSG00000227963 HEK293_OSMI2_2hA HEK293_TMG_2hB RBM15-AS1 lncRNA   6.647328 12.12367 3.632053 0.1221353 0.2382425 -1.736192 1.5950565 2.652673 0.8532831 0.46821562 0.23664240 -1.624970 0.2451083 0.2189333 0.23830000 0.01936667 0.9744498775 0.0008797594    
MSTRG.1783.4 ENSG00000227963 HEK293_OSMI2_2hA HEK293_TMG_2hB RBM15-AS1 lncRNA   6.647328 12.12367 3.632053 0.1221353 0.2382425 -1.736192 3.0238566 5.506412 1.6958658 0.15841025 0.07393468 -1.693226 0.4448792 0.4545000 0.46986667 0.01536667 0.9193787536 0.0008797594    
MSTRG.1783.5 ENSG00000227963 HEK293_OSMI2_2hA HEK293_TMG_2hB RBM15-AS1 lncRNA   6.647328 12.12367 3.632053 0.1221353 0.2382425 -1.736192 0.8113181 1.877924 0.2094571 0.09323338 0.01095579 -3.104789 0.1167875 0.1550000 0.05796667 -0.09703333 0.0008797594 0.0008797594    
  • 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
ENSG00000227963 E001 16.648689 0.0013508828 0.0000135444 8.728003e-05 1 110286375 110288571 2197 - 1.417 1.046 -1.309
ENSG00000227963 E002 3.990690 0.0448476086 0.3412754566 4.851921e-01 1 110292260 110292386 127 - 0.460 0.653 0.891
ENSG00000227963 E003 12.328543 0.0436581243 0.8662780720 9.178986e-01 1 110292387 110292507 121 - 0.990 1.030 0.146
ENSG00000227963 E004 1.325276 0.0105221532 0.5296730925 6.624130e-01 1 110315484 110315484 1 - 0.211 0.338 0.911
ENSG00000227963 E005 3.712840 0.0045677914 0.4183095877 5.615929e-01 1 110315485 110315525 41 - 0.460 0.606 0.692
ENSG00000227963 E006 27.280077 0.0009006728 0.4761442049 6.148214e-01 1 110315526 110315624 99 - 1.297 1.354 0.199
ENSG00000227963 E007 54.419638 0.0004735234 0.4276056372 5.704711e-01 1 110315625 110315751 127 - 1.594 1.637 0.147
ENSG00000227963 E008 65.781270 0.0005281712 0.2208798876 3.514883e-01 1 110318765 110318882 118 - 1.664 1.724 0.203
ENSG00000227963 E009 6.596706 0.0027800602 0.9796219619 9.913011e-01 1 110318883 110318886 4 - 0.780 0.783 0.013
ENSG00000227963 E010 21.002827 0.0010815367 0.4251383555 5.680836e-01 1 110331034 110331146 113 - 1.283 1.214 -0.243
ENSG00000227963 E011 60.727336 0.0009052202 0.9614249266 9.797164e-01 1 110338997 110339224 228 - 1.676 1.673 -0.009