ENSG00000121039

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
ENST00000240285 ENSG00000121039 HEK293_OSMI2_2hA HEK293_TMG_2hB RDH10 protein_coding protein_coding 12.13845 6.99691 16.65276 1.149648 0.3244936 1.249777 3.794339 1.655905 6.434243 0.2375722 0.3423074 1.9517049 0.3171792 0.2469000 0.3873667 0.1404667 1.520125e-01 1.56432e-20 FALSE TRUE
ENST00000519380 ENSG00000121039 HEK293_OSMI2_2hA HEK293_TMG_2hB RDH10 protein_coding protein_coding 12.13845 6.99691 16.65276 1.149648 0.3244936 1.249777 4.523214 5.185617 4.151572 1.1322275 0.6793481 -0.3201665 0.4260292 0.7292667 0.2494000 -0.4798667 3.679681e-07 1.56432e-20 FALSE TRUE
ENST00000521928 ENSG00000121039 HEK293_OSMI2_2hA HEK293_TMG_2hB RDH10 protein_coding protein_coding 12.13845 6.99691 16.65276 1.149648 0.3244936 1.249777 3.456213 0.000000 5.764542 0.0000000 0.8179529 9.1735627 0.2203750 0.0000000 0.3450333 0.3450333 1.564320e-20 1.56432e-20   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
ENSG00000121039 E001 74.9174923 0.0095112554 3.946180e-07 3.561658e-06 8 73294602 73295515 914 + 1.956 1.689 -0.900
ENSG00000121039 E002 31.8383762 0.0006891986 1.575995e-03 5.881366e-03 8 73295516 73295578 63 + 1.560 1.425 -0.463
ENSG00000121039 E003 0.1472490 0.0448133162 8.113593e-01   8 73295839 73295882 44 + 0.092 0.000 -9.570
ENSG00000121039 E004 0.2903454 0.3466704286 4.956928e-01   8 73297016 73297193 178 + 0.167 0.000 -9.759
ENSG00000121039 E005 113.3773742 0.0002683372 2.081361e-05 1.285898e-04 8 73297194 73297429 236 + 2.080 2.007 -0.243
ENSG00000121039 E006 0.7845438 0.2593826090 8.585696e-01 9.127475e-01 8 73297430 73297740 311 + 0.233 0.277 0.327
ENSG00000121039 E007 93.3004730 0.0003343304 6.884224e-03 2.092404e-02 8 73319096 73319194 99 + 1.979 1.948 -0.104
ENSG00000121039 E008 102.0401062 0.0028790298 8.842703e-03 2.588897e-02 8 73320932 73321077 146 + 2.022 1.976 -0.155
ENSG00000121039 E009 4.1289591 0.0592408473 6.839960e-01 7.870613e-01 8 73321840 73322678 839 + 0.699 0.668 -0.128
ENSG00000121039 E010 95.7545979 0.0070019935 3.710788e-02 8.567812e-02 8 73322679 73322810 132 + 1.994 1.949 -0.153
ENSG00000121039 E011 592.4728691 0.0041047163 2.590697e-12 5.949087e-11 8 73322913 73325281 2369 + 2.683 2.868 0.612