ENSG00000188725

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
ENST00000339020 ENSG00000188725 HEK293_OSMI2_6hA HEK293_TMG_6hB SMIM15 protein_coding protein_coding 22.82345 4.875703 38.71936 0.446608 0.7200921 2.98679 13.131628 4.0371129 21.394679 0.8940588 0.9254847 2.402961 0.6843292 0.8079 0.5520667 -0.2558333 6.199415e-01 2.489046e-11 TRUE FALSE
ENST00000507416 ENSG00000188725 HEK293_OSMI2_6hA HEK293_TMG_6hB SMIM15 protein_coding protein_coding 22.82345 4.875703 38.71936 0.446608 0.7200921 2.98679 4.712327 0.0000000 7.411356 0.0000000 0.9203044 9.535539 0.1350125 0.0000 0.1923667 0.1923667 2.489046e-11 2.489046e-11   FALSE
MSTRG.26251.2 ENSG00000188725 HEK293_OSMI2_6hA HEK293_TMG_6hB SMIM15 protein_coding   22.82345 4.875703 38.71936 0.446608 0.7200921 2.98679 4.979494 0.8385898 9.913325 0.4986013 0.9009832 3.547684 0.1806500 0.1921 0.2555000 0.0634000 8.378526e-01 2.489046e-11   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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000188725 E001 468.37932 0.0273331375 0.224051868 0.45823453 5 61157704 61159921 2218 - 2.577 2.644 0.223
ENSG00000188725 E002 196.54801 0.0003552240 0.008988974 0.05377204 5 61159922 61160199 278 - 2.246 2.198 -0.160
ENSG00000188725 E003 120.17277 1.0930767295 0.437474200 0.65685143 5 61161088 61161227 140 - 2.003 2.012 0.031
ENSG00000188725 E004 85.09042 0.0005442404 0.537902602 0.72754973 5 61162217 61162359 143 - 1.864 1.913 0.167
ENSG00000188725 E005 45.02698 0.0146431407 0.470370336 0.68033658 5 61162360 61162445 86 - 1.575 1.660 0.287
ENSG00000188725 E006 12.68036 0.0782521783 0.544227985 0.73211219 5 61162446 61162514 69 - 1.086 0.985 -0.369