ENSG00000143162

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
ENST00000370509 ENSG00000143162 HEK293_DMSO_6hA HEK293_OSMI2_6hA CREG1 protein_coding protein_coding 39.62095 13.00882 15.15054 3.472037 2.87385 0.2197222 34.399293 10.749546 15.06327 3.0104755 2.83936 0.4863751 0.89715000 0.8215000 0.9948333 0.1733333 2.147726e-30 2.147726e-30 FALSE TRUE
MSTRG.2527.4 ENSG00000143162 HEK293_DMSO_6hA HEK293_OSMI2_6hA CREG1 protein_coding   39.62095 13.00882 15.15054 3.472037 2.87385 0.2197222 4.977676 2.079236 0.00000 0.4564285 0.00000 -7.7068317 0.09552083 0.1643333 0.0000000 -0.1643333 4.721177e-20 2.147726e-30   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_OSMI2_6hA HEK293_DMSO_6hA log2fold_HEK293_DMSO_6hA_HEK293_OSMI2_6hA
ENSG00000143162 E001 4.970191 0.0047177900 0.017633177 0.22416384 1 167529117 167530125 1009 - 0.595 0.912 1.288
ENSG00000143162 E002 2.590965 0.0229349721 0.437779927 0.79633231 1 167530126 167530255 130 - 0.486 0.610 0.580
ENSG00000143162 E003 0.000000       1 167533263 167533397 135 -      
ENSG00000143162 E004 292.358805 0.0002214915 0.809722528 0.95140942 1 167541013 167541709 697 - 2.475 2.470 -0.017
ENSG00000143162 E005 358.272253 0.0001559369 0.017149959 0.22148328 1 167541710 167542301 592 - 2.542 2.577 0.116
ENSG00000143162 E006 156.935717 0.0002925310 0.606272591 0.87822272 1 167546101 167546285 185 - 2.197 2.209 0.041
ENSG00000143162 E007 103.409562 0.0003296254 0.102087253 0.46118635 1 167548002 167548121 120 - 2.049 1.994 -0.185
ENSG00000143162 E008 0.351341 0.0310097522 0.163710258   1 167553252 167553387 136 - 0.000 0.226 9.812
ENSG00000143162 E009 68.770533 0.0028209672 0.001386411 0.06524871 1 167553388 167553805 418 - 1.920 1.764 -0.526