ENSG00000159873

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
ENST00000249064 ENSG00000159873 HEK293_OSMI2_2hA HEK293_TMG_2hB CCDC117 protein_coding protein_coding 34.66223 19.96878 50.68543 2.711922 1.947623 1.343387 18.74163 5.068735 41.238139 0.922714 1.881547 3.0217879 0.5054208 0.2722 0.8136333 0.5414333 1.999003e-06 1.999003e-06 FALSE TRUE
ENST00000432510 ENSG00000159873 HEK293_OSMI2_2hA HEK293_TMG_2hB CCDC117 protein_coding protein_coding 34.66223 19.96878 50.68543 2.711922 1.947623 1.343387 15.04211 14.378548 7.935041 3.739144 1.681458 -0.8567944 0.4678958 0.6985 0.1569333 -0.5415667 4.578500e-05 1.999003e-06 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
ENSG00000159873 E001 2.335345 0.3562563513 8.863495e-01 9.313163e-01 22 28772674 28772694 21 + 0.489 0.457 -0.159
ENSG00000159873 E002 2.779282 0.2236460387 5.408867e-01 6.719508e-01 22 28772695 28772703 9 + 0.557 0.455 -0.496
ENSG00000159873 E003 9.895435 0.0227391698 4.989586e-02 1.089840e-01 22 28772704 28772727 24 + 1.018 0.884 -0.502
ENSG00000159873 E004 111.852948 0.0338702419 2.449404e-05 1.489336e-04 22 28772728 28773034 307 + 2.052 1.773 -0.938
ENSG00000159873 E005 2.026351 0.0069502898 5.950014e-01 7.171565e-01 22 28773035 28773223 189 + 0.439 0.450 0.055
ENSG00000159873 E006 0.742699 0.0634884032 7.133945e-02 1.455578e-01 22 28773241 28773386 146 + 0.070 0.451 3.383
ENSG00000159873 E007 114.550719 0.0047157424 3.598879e-09 4.811212e-08 22 28773725 28773778 54 + 2.041 1.891 -0.504
ENSG00000159873 E008 354.632992 0.0005828048 2.825888e-20 1.862108e-18 22 28780948 28781172 225 + 2.509 2.458 -0.173
ENSG00000159873 E009 328.223479 0.0008956647 6.722512e-14 1.956914e-12 22 28783508 28783645 138 + 2.469 2.442 -0.093
ENSG00000159873 E010 2978.840204 0.0057563576 4.154822e-13 1.082545e-11 22 28786089 28789301 3213 + 3.348 3.569 0.735