ENSG00000166557

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
ENST00000299705 ENSG00000166557 HEK293_OSMI2_2hA HEK293_TMG_2hB TMED3 protein_coding protein_coding 183.8095 341.9066 87.97818 10.2782 0.6239473 -1.958263 150.2699 256.00355 82.383372 28.81724 2.204816 -1.635620 0.8360917 0.7467000 0.93613333 0.1894333 0.03420005 5.299535e-17 FALSE TRUE
MSTRG.11335.5 ENSG00000166557 HEK293_OSMI2_2hA HEK293_TMG_2hB TMED3 protein_coding   183.8095 341.9066 87.97818 10.2782 0.6239473 -1.958263 29.4960 80.12367 2.479574 23.30415 1.243309 -5.008438 0.1384292 0.2363333 0.02836667 -0.2079667 0.23590812 5.299535e-17   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
ENSG00000166557 E001 111.1945201 0.0352435003 9.036147e-01 9.426725e-01 15 79311112 79311144 33 + 1.889 1.975 0.289
ENSG00000166557 E002 144.2373614 0.0253873601 9.066605e-01 9.447140e-01 15 79311145 79311155 11 + 1.982 2.091 0.367
ENSG00000166557 E003 145.3111022 0.0243237720 8.685026e-01 9.194634e-01 15 79311156 79311158 3 + 1.982 2.095 0.379
ENSG00000166557 E004 1294.7288865 0.0041019728 2.516600e-01 3.879208e-01 15 79311159 79311417 259 + 2.973 3.034 0.202
ENSG00000166557 E005 0.5149111 0.0202527711 5.884648e-01 7.116505e-01 15 79311589 79311645 57 + 0.198 0.136 -0.649
ENSG00000166557 E006 2501.6811316 0.0003197012 2.985440e-02 7.167895e-02 15 79313757 79314005 249 + 3.250 3.320 0.233
ENSG00000166557 E007 26.3822012 0.0099046088 1.871922e-04 9.088881e-04 15 79314541 79314655 115 + 1.515 1.280 -0.814
ENSG00000166557 E008 5.9388021 0.0038702707 2.692807e-01 4.077827e-01 15 79315931 79316023 93 + 0.830 0.748 -0.328
ENSG00000166557 E009 6082.9498885 0.0036546268 4.152398e-08 4.552164e-07 15 79321978 79322840 863 + 3.552 3.725 0.573
ENSG00000166557 E010 3.9773564 0.0042822083 3.729700e-06 2.734656e-05 15 79382968 79384721 1754 + 1.009 0.424 -2.479
ENSG00000166557 E011 249.8312178 0.0015908862 2.823323e-205 1.337175e-200 15 79411400 79427432 16033 + 2.784 1.981 -2.681