ENSG00000176018

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
ENST00000315948 ENSG00000176018 HEK293_OSMI2_6hA HEK293_TMG_6hB LYSMD3 protein_coding protein_coding 12.16827 1.21914 24.22974 0.2132828 0.8636406 4.301653 7.9154832 1.13804721 16.036345 0.17684199 0.1922483 3.804991 0.76298333 0.9421 0.66300000 -0.27910000 4.332454e-05 2.768048e-05 FALSE TRUE
ENST00000453259 ENSG00000176018 HEK293_OSMI2_6hA HEK293_TMG_6hB LYSMD3 protein_coding nonsense_mediated_decay 12.16827 1.21914 24.22974 0.2132828 0.8636406 4.301653 0.9763777 0.04019655 1.840824 0.04019655 0.4479652 5.204435 0.05361667 0.0258 0.07653333 0.05073333 6.451962e-01 2.768048e-05 TRUE FALSE
ENST00000509384 ENSG00000176018 HEK293_OSMI2_6hA HEK293_TMG_6hB LYSMD3 protein_coding protein_coding 12.16827 1.21914 24.22974 0.2132828 0.8636406 4.301653 2.2630523 0.00000000 4.123248 0.00000000 0.5651973 8.691132 0.10056250 0.0000 0.16900000 0.16900000 2.768048e-05 2.768048e-05 FALSE TRUE
MSTRG.26573.4 ENSG00000176018 HEK293_OSMI2_6hA HEK293_TMG_6hB LYSMD3 protein_coding   12.16827 1.21914 24.22974 0.2132828 0.8636406 4.301653 0.8664241 0.00000000 2.009312 0.00000000 0.3858704 7.657720 0.04362917 0.0000 0.08233333 0.08233333 9.108628e-03 2.768048e-05 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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000176018 E001 0.427904 0.383288262 1.00000000   5 90515611 90515625 15 - 0.096 0.000 -8.728
ENSG00000176018 E002 354.483583 0.937035524 0.20397783 0.43460332 5 90515626 90518290 2665 - 2.216 2.561 1.153
ENSG00000176018 E003 139.728006 0.247549473 0.52605016 0.71926939 5 90518291 90519009 719 - 1.838 1.985 0.494
ENSG00000176018 E004 123.163870 0.227029539 0.81198295 0.90344873 5 90519010 90519425 416 - 1.790 1.863 0.243
ENSG00000176018 E005 24.051258 0.001983081 0.01279021 0.06958183 5 90519426 90519432 7 - 1.142 0.981 -0.587
ENSG00000176018 E006 37.381477 0.001469215 0.04020876 0.15522555 5 90519433 90519484 52 - 1.315 1.287 -0.097
ENSG00000176018 E007 6.019376 0.765658333 0.14766461 0.35893289 5 90520364 90520461 98 - 0.618 0.337 -1.426
ENSG00000176018 E008 86.042625 0.523744067 0.16446266 0.38333690 5 90525035 90525300 266 - 1.643 1.631 -0.043
ENSG00000176018 E009 1.448315 0.684968506 0.32322671 0.56251263 5 90526919 90527002 84 - 0.248 0.000 -10.361
ENSG00000176018 E010 3.125557 0.644353113 0.10616146 0.29263651 5 90529015 90529125 111 - 0.427 0.000 -11.480
ENSG00000176018 E011 30.464712 0.001629611 0.39534023 0.62461031 5 90529448 90529584 137 - 1.220 1.313 0.328