ENSG00000154429

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
ENST00000366686 ENSG00000154429 HEK293_OSMI2_6hA HEK293_TMG_6hB CCSAP protein_coding protein_coding 8.533218 3.197676 14.20447 0.5378476 0.1809539 2.14776 0.7265499 0.000000 3.123456 0.0000000 0.3770048 8.291611 0.05565417 0.0000 0.2202333 0.2202333 2.773158e-10 2.773158e-10 FALSE FALSE
ENST00000366687 ENSG00000154429 HEK293_OSMI2_6hA HEK293_TMG_6hB CCSAP protein_coding protein_coding 8.533218 3.197676 14.20447 0.5378476 0.1809539 2.14776 7.5754582 2.989858 10.897300 0.5098456 0.5517162 1.862328 0.91525417 0.9344 0.7668000 -0.1676000 1.121556e-01 2.773158e-10 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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000154429 E001 0.1779838 0.0355446722 1.000000e+00   1 229321011 229321014 4 - 0.068 0.001 -7.089
ENSG00000154429 E002 94.4588254 0.0004846923 3.339133e-05 0.0005916135 1 229321015 229321514 500 - 1.851 2.029 0.598
ENSG00000154429 E003 430.5809327 0.0066428050 4.869987e-02 0.1765849805 1 229321515 229323538 2024 - 2.536 2.610 0.249
ENSG00000154429 E004 359.5561917 0.0003047379 2.379804e-02 0.1084856458 1 229323539 229325106 1568 - 2.481 2.451 -0.103
ENSG00000154429 E005 119.1678927 0.0040907783 4.454271e-03 0.0316811587 1 229325107 229325411 305 - 2.022 1.897 -0.419
ENSG00000154429 E006 96.0510999 0.0059795201 1.293604e-02 0.0701954570 1 229326738 229326997 260 - 1.932 1.803 -0.433
ENSG00000154429 E007 14.0405485 0.0049455285 4.575269e-02 0.1693923855 1 229326998 229327006 9 - 1.146 0.923 -0.818
ENSG00000154429 E008 2.2006888 0.6202321935 7.831173e-01 0.8864890395 1 229327007 229327558 552 - 0.379 0.622 1.193
ENSG00000154429 E009 0.0000000       1 229340401 229340633 233 -      
ENSG00000154429 E010 31.9414268 0.0011517883 7.320303e-01 0.8554229191 1 229342099 229342513 415 - 1.440 1.429 -0.039
ENSG00000154429 E011 10.8075155 0.0069415035 1.010340e-01 0.2836624991 1 229342514 229342517 4 - 0.944 1.143 0.729
ENSG00000154429 E012 1.0045791 0.0172671820 1.398919e-01   1 229342912 229343294 383 - 0.178 0.454 1.864