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_2hA HEK293_TMG_2hB CYCS protein_coding protein_coding 209.7187 180.4865 289.5178 23.95945 11.49845 0.6817312 121.88260 65.56037 205.26569 13.083977 11.550433 1.6464469 0.5397542 0.3578000 0.70800000 0.350200000 8.390299e-15 8.390299e-15 FALSE FALSE
ENST00000409764 ENSG00000172115 HEK293_OSMI2_2hA HEK293_TMG_2hB CYCS protein_coding protein_coding 209.7187 180.4865 289.5178 23.95945 11.49845 0.6817312 31.99906 70.13824 5.36609 6.533826 4.080549 -3.7057778 0.1939958 0.3929667 0.01976667 -0.373200000 5.192175e-02 8.390299e-15 FALSE TRUE
MSTRG.29589.2 ENSG00000172115 HEK293_OSMI2_2hA HEK293_TMG_2hB CYCS protein_coding   209.7187 180.4865 289.5178 23.95945 11.49845 0.6817312 50.90697 42.90081 70.78379 4.672650 4.165956 0.7222816 0.2365875 0.2391000 0.24413333 0.005033333 8.933693e-01 8.390299e-15 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_2hB HEK293_OSMI2_2hA log2fold_HEK293_OSMI2_2hA_HEK293_TMG_2hB
ENSG00000172115 E001 95.811380 0.0221880534 6.947473e-03 2.108685e-02 7 25118656 25119317 662 - 2.063 1.879 -0.621
ENSG00000172115 E002 110.391936 0.0103736366 6.174863e-06 4.307103e-05 7 25119318 25120167 850 - 2.148 1.891 -0.862
ENSG00000172115 E003 139.290118 0.0008006130 3.497679e-49 2.014057e-46 7 25120168 25121496 1329 - 2.318 1.788 -1.778
ENSG00000172115 E004 2418.521396 0.0019128833 2.238283e-06 1.722674e-05 7 25121497 25123306 1810 - 3.421 3.334 -0.289
ENSG00000172115 E005 1582.519359 0.0017179466 3.290313e-04 1.496938e-03 7 25123307 25123443 137 - 3.230 3.162 -0.226
ENSG00000172115 E006 2703.564890 0.0006481094 1.232414e-04 6.287085e-04 7 25123444 25123715 272 - 3.450 3.411 -0.132
ENSG00000172115 E007 2990.346754 0.0001350197 3.474123e-08 3.864268e-07 7 25123716 25123849 134 - 3.455 3.505 0.168
ENSG00000172115 E008 3616.744143 0.0014784087 1.815637e-07 1.754218e-06 7 25123951 25124127 177 - 3.519 3.600 0.270
ENSG00000172115 E009 2.189301 0.0158418607 5.374991e-02 1.158145e-01 7 25124690 25124815 126 - 0.319 0.654 1.692
ENSG00000172115 E010 1.524021 0.0672512420 1.643518e-01 2.808407e-01 7 25124816 25124844 29 - 0.259 0.524 1.520
ENSG00000172115 E011 3.550271 0.0145581059 9.558643e-01 9.763186e-01 7 25124996 25125199 204 - 0.656 0.655 -0.006
ENSG00000172115 E012 1545.142695 0.0037696210 3.213479e-04 1.466313e-03 7 25125200 25125260 61 - 3.139 3.240 0.334