ENSG00000162704

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
ENST00000294742 ENSG00000162704 HEK293_OSMI2_2hA HEK293_TMG_2hB ARPC5 protein_coding protein_coding 73.28336 60.71682 101.5486 11.87676 3.431511 0.7419062 25.03089 21.36068 32.82415 3.257512 0.5236238 0.6195641 0.3413042 0.3573333 0.3236667 -0.03366667 0.4937045502 0.0009450677 FALSE TRUE
ENST00000462965 ENSG00000162704 HEK293_OSMI2_2hA HEK293_TMG_2hB ARPC5 protein_coding processed_transcript 73.28336 60.71682 101.5486 11.87676 3.431511 0.7419062 18.03361 18.40997 22.01711 4.609646 1.5435441 0.2580097 0.2539208 0.2976333 0.2166333 -0.08100000 0.0271794574 0.0009450677 FALSE FALSE
MSTRG.2715.3 ENSG00000162704 HEK293_OSMI2_2hA HEK293_TMG_2hB ARPC5 protein_coding   73.28336 60.71682 101.5486 11.87676 3.431511 0.7419062 29.45150 20.13251 45.71184 3.935067 2.5268839 1.1826403 0.3927167 0.3316667 0.4499000 0.11823333 0.0009450677 0.0009450677 FALSE 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
ENSG00000162704 E001 23.667379 0.0007969577 7.702820e-01 8.516419e-01 1 183620846 183623265 2420 - 1.396 1.401 0.016
ENSG00000162704 E002 1.918754 0.0073946318 8.309074e-01 8.939852e-01 1 183623266 183623342 77 - 0.476 0.456 -0.099
ENSG00000162704 E003 5.097221 0.0429088061 9.914290e-01 9.987110e-01 1 183623343 183623450 108 - 0.787 0.791 0.016
ENSG00000162704 E004 2.000238 0.0091553537 9.333438e-01 9.619881e-01 1 183623451 183623471 21 - 0.476 0.509 0.162
ENSG00000162704 E005 39.772914 0.0132597904 1.077997e-01 2.022854e-01 1 183623472 183626193 2722 - 1.663 1.543 -0.410
ENSG00000162704 E006 535.352853 0.0020006641 8.741391e-04 3.523619e-03 1 183626194 183626457 264 - 2.682 2.786 0.346
ENSG00000162704 E007 2056.691718 0.0010424018 2.947253e-08 3.321524e-07 1 183626458 183627594 1137 - 3.280 3.352 0.240
ENSG00000162704 E008 1.591865 0.0274344895 1.192137e-01 2.188141e-01 1 183630325 183630460 136 - 0.516 0.242 -1.610
ENSG00000162704 E009 588.626280 0.0016842047 1.408020e-02 3.840493e-02 1 183630461 183630637 177 - 2.794 2.752 -0.141
ENSG00000162704 E010 7.754515 0.0593159631 9.487646e-02 1.827041e-01 1 183630638 183633081 2444 - 1.051 0.791 -0.985
ENSG00000162704 E011 369.750766 0.0026758219 6.693086e-03 2.042831e-02 1 183633082 183633154 73 - 2.604 2.538 -0.220
ENSG00000162704 E012 1.201413 0.3304540325 4.320062e-01 5.744837e-01 1 183633155 183633163 9 - 0.435 0.236 -1.255
ENSG00000162704 E013 8.644530 0.0019332750 4.251670e-06 3.072656e-05 1 183633164 183633958 795 - 1.166 0.638 -2.028
ENSG00000162704 E014 624.554465 0.0013921181 5.795426e-11 1.064294e-09 1 183635517 183635878 362 - 2.854 2.734 -0.399