ENSG00000111052

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
ENST00000261203 ENSG00000111052 HEK293_OSMI2_2hA HEK293_TMG_2hB LIN7A protein_coding nonsense_mediated_decay 1.630288 1.734591 2.388128 0.1076097 0.1903743 0.4590199 0.4213208 0.6331567 0.4750405 0.05583171 0.02146449 -0.4070650 0.2435125 0.3699667 0.2005333 -0.1694333 8.061685e-02 2.298936e-08 FALSE TRUE
ENST00000552093 ENSG00000111052 HEK293_OSMI2_2hA HEK293_TMG_2hB LIN7A protein_coding protein_coding 1.630288 1.734591 2.388128 0.1076097 0.1903743 0.4590199 0.3632609 0.7260834 0.3856320 0.14303801 0.10795480 -0.8957101 0.2243750 0.4131000 0.1569333 -0.2561667 2.372983e-02 2.298936e-08 FALSE FALSE
ENST00000552864 ENSG00000111052 HEK293_OSMI2_2hA HEK293_TMG_2hB LIN7A protein_coding protein_coding 1.630288 1.734591 2.388128 0.1076097 0.1903743 0.4590199 0.8457061 0.3753508 1.5274555 0.02749653 0.09304372 1.9963004 0.5321083 0.2169000 0.6425333 0.4256333 2.298936e-08 2.298936e-08 FALSE TRUE
  • 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
ENSG00000111052 E001 113.222772 0.016884934 1.240134e-07 1.237437e-06 12 80792520 80797574 5055 - 2.149 1.837 -1.048
ENSG00000111052 E002 14.757841 0.002731676 2.005912e-01 3.269393e-01 12 80797575 80797726 152 - 1.183 1.213 0.108
ENSG00000111052 E003 20.984479 0.007509719 2.029279e-01 3.298761e-01 12 80811465 80811683 219 - 1.328 1.344 0.054
ENSG00000111052 E004 0.000000       12 80841689 80842128 440 -      
ENSG00000111052 E005 2.096192 0.007116331 2.578781e-01 3.950594e-01 12 80845564 80845729 166 - 0.430 0.560 0.641
ENSG00000111052 E006 23.729457 0.001095511 3.592889e-04 1.616031e-03 12 80845730 80845939 210 - 1.313 1.470 0.546
ENSG00000111052 E007 2.294621 0.182440761 3.143201e-01 4.570309e-01 12 80848099 80848175 77 - 0.430 0.640 0.997
ENSG00000111052 E008 13.092171 0.011298382 1.702267e-04 8.359888e-04 12 80848251 80848322 72 - 0.997 1.290 1.050
ENSG00000111052 E009 14.040869 0.001367439 3.740592e-02 8.623385e-02 12 80889251 80889369 119 - 1.124 1.225 0.361
ENSG00000111052 E010 10.342317 0.022363703 8.915859e-02 1.738437e-01 12 80937641 80937934 294 - 0.986 1.112 0.459