ENSG00000139133

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
ENST00000266483 ENSG00000139133 HEK293_OSMI2_2hA HEK293_TMG_2hB ALG10 protein_coding protein_coding 8.9288 3.091847 13.69495 0.2707684 1.06873 2.143497 3.314421 1.355462 4.511091 0.13557089 0.333706 1.7272819 0.4196833 0.4375000 0.3373667 -0.1001333 4.321553e-01 1.021756e-09 FALSE TRUE
ENST00000538927 ENSG00000139133 HEK293_OSMI2_2hA HEK293_TMG_2hB ALG10 protein_coding protein_coding 8.9288 3.091847 13.69495 0.2707684 1.06873 2.143497 2.118026 1.381046 2.745819 0.08630063 0.334270 0.9863114 0.2881958 0.4533667 0.2054000 -0.2479667 9.714373e-03 1.021756e-09 FALSE TRUE
MSTRG.7099.7 ENSG00000139133 HEK293_OSMI2_2hA HEK293_TMG_2hB ALG10 protein_coding   8.9288 3.091847 13.69495 0.2707684 1.06873 2.143497 2.755911 0.000000 5.010164 0.00000000 1.391996 8.9715908 0.2163500 0.0000000 0.3544000 0.3544000 1.021756e-09 1.021756e-09   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
ENSG00000139133 E001 0.1482932 0.0411597534 0.1608257561   12 34022409 34022467 59 + 0.000 0.190 10.958
ENSG00000139133 E002 0.0000000       12 34022468 34022472 5 +      
ENSG00000139133 E003 0.5953508 0.0197169706 0.3137988976 0.456427094 12 34022473 34022475 3 + 0.141 0.322 1.515
ENSG00000139133 E004 3.3557935 0.0047171050 0.1338881636 0.239554139 12 34022476 34022495 20 + 0.544 0.775 0.986
ENSG00000139133 E005 11.4564994 0.0065590033 0.3409004594 0.484821366 12 34022496 34022528 33 + 1.033 1.135 0.367
ENSG00000139133 E006 46.6413235 0.0027427206 0.1216388110 0.222274706 12 34022529 34022744 216 + 1.615 1.699 0.286
ENSG00000139133 E007 25.5168224 0.0008391827 0.6973252244 0.797465846 12 34022745 34022770 26 + 1.381 1.411 0.103
ENSG00000139133 E008 6.6016292 0.0101473175 0.9422574516 0.967737884 12 34022771 34022898 128 + 0.855 0.848 -0.026
ENSG00000139133 E009 4.9430305 0.0314285944 0.3977131345 0.541470070 12 34022899 34023961 1063 + 0.779 0.634 -0.600
ENSG00000139133 E010 50.2596504 0.0005495861 0.9010967211 0.940924612 12 34023962 34024159 198 + 1.679 1.674 -0.015
ENSG00000139133 E011 215.9674093 0.0013939827 0.9270537264 0.958104246 12 34025863 34028302 2440 + 2.302 2.301 -0.005
ENSG00000139133 E012 11.6717027 0.0024817576 0.0005449217 0.002327864 12 34028790 34028918 129 + 1.160 0.733 -1.612
ENSG00000139133 E013 5.9884859 0.0033154228 0.0151690032 0.040869843 12 34029625 34029722 98 + 0.888 0.506 -1.610