ENSG00000172115

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
ENST00000409409 ENSG00000172115 HEK293_OSMI2_6hA HEK293_TMG_6hB CYCS protein_coding protein_coding 209.7187 86.10039 306.7206 16.23989 12.75845 1.832713 121.88260 44.65027 217.603049 9.495944 9.039764 2.284701 0.5397542 0.5128667 0.70963333 0.1967667 0.0001716155 0.0001716155 FALSE FALSE
ENST00000409764 ENSG00000172115 HEK293_OSMI2_6hA HEK293_TMG_6hB CYCS protein_coding protein_coding 209.7187 86.10039 306.7206 16.23989 12.75845 1.832713 31.99906 19.66250 4.514479 5.013006 3.449544 -2.120357 0.1939958 0.2246000 0.01433333 -0.2102667 0.1752386902 0.0001716155 FALSE TRUE
MSTRG.29589.2 ENSG00000172115 HEK293_OSMI2_6hA HEK293_TMG_6hB CYCS protein_coding   209.7187 86.10039 306.7206 16.23989 12.75845 1.832713 50.90697 19.04845 78.276132 4.039400 2.824852 2.038326 0.2365875 0.2186333 0.25533333 0.0367000 0.4573678968 0.0001716155 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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000172115 E001 70.419234 0.0268769838 8.078161e-01 9.009019e-01 7 25118656 25119317 662 - 1.807 1.762 -0.151
ENSG00000172115 E002 80.002600 0.0283284794 4.331466e-01 6.535656e-01 7 25119318 25120167 850 - 1.874 1.777 -0.325
ENSG00000172115 E003 104.854018 0.0465713485 1.292876e-01 3.306328e-01 7 25120168 25121496 1329 - 2.008 1.811 -0.663
ENSG00000172115 E004 1998.684980 0.0031985509 3.774534e-10 2.371449e-08 7 25121497 25123306 1810 - 3.280 3.110 -0.562
ENSG00000172115 E005 1402.426243 0.0027267486 4.598167e-05 7.744465e-04 7 25123307 25123443 137 - 3.115 3.001 -0.376
ENSG00000172115 E006 2205.339511 0.0012034687 6.471033e-04 6.979994e-03 7 25123444 25123715 272 - 3.301 3.236 -0.216
ENSG00000172115 E007 2232.224236 0.0003391459 7.633315e-09 3.680615e-07 7 25123716 25123849 134 - 3.278 3.328 0.167
ENSG00000172115 E008 2548.584294 0.0023965505 3.375329e-07 1.095582e-05 7 25123951 25124127 177 - 3.324 3.410 0.286
ENSG00000172115 E009 2.624036 0.0143362947 5.583224e-01 7.420684e-01 7 25124690 25124815 126 - 0.485 0.578 0.440
ENSG00000172115 E010 1.327410 0.0132336775 4.307265e-01   7 25124816 25124844 29 - 0.287 0.426 0.835
ENSG00000172115 E011 2.873524 0.2754486851 7.786828e-01 8.839565e-01 7 25124996 25125199 204 - 0.528 0.589 0.277
ENSG00000172115 E012 1055.893589 0.0030733373 1.175680e-06 3.267183e-05 7 25125200 25125260 61 - 2.933 3.049 0.385