ENSG00000139517

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
ENST00000316334 ENSG00000139517 HEK293_OSMI2_2hA HEK293_TMG_2hB LNX2 protein_coding protein_coding 4.960324 1.707293 9.975778 0.3303931 0.2105116 2.539738 1.8584028 0.252135785 5.649760 0.209728823 0.90167238 4.4323546 0.2826250 0.114366667 0.5669667 0.4526000 4.009309e-02 7.694291e-08 FALSE TRUE
ENST00000649248 ENSG00000139517 HEK293_OSMI2_2hA HEK293_TMG_2hB LNX2 protein_coding protein_coding 4.960324 1.707293 9.975778 0.3303931 0.2105116 2.539738 2.2550731 1.446110043 2.349922 0.124102343 1.20035800 0.6966201 0.6208875 0.879433333 0.2350000 -0.6444333 1.765870e-01 7.694291e-08 FALSE TRUE
MSTRG.8524.3 ENSG00000139517 HEK293_OSMI2_2hA HEK293_TMG_2hB LNX2 protein_coding   4.960324 1.707293 9.975778 0.3303931 0.2105116 2.539738 0.7077617 0.009047618 1.727205 0.009047618 0.08125615 6.5110135 0.0800125 0.006166667 0.1731667 0.1670000 7.694291e-08 7.694291e-08 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_2hB HEK293_OSMI2_2hA log2fold_HEK293_OSMI2_2hA_HEK293_TMG_2hB
ENSG00000139517 E001 0.7446882 0.1982234242 1.226444e-02 3.416654e-02 13 27545913 27545924 12 - 0.055 0.608 4.509
ENSG00000139517 E002 258.6991952 0.0028580772 8.046374e-34 1.808258e-31 13 27545925 27548068 2144 - 2.207 2.574 1.226
ENSG00000139517 E003 41.9486228 0.0023148892 6.691357e-01 7.760186e-01 13 27548069 27548219 151 - 1.500 1.573 0.248
ENSG00000139517 E004 56.9071377 0.0011129681 3.362566e-01 4.800873e-01 13 27548220 27548470 251 - 1.647 1.633 -0.049
ENSG00000139517 E005 58.7788525 0.0004417158 5.459470e-04 2.331771e-03 13 27550333 27550491 159 - 1.683 1.503 -0.614
ENSG00000139517 E006 67.2101005 0.0004001051 3.788197e-03 1.254918e-02 13 27553208 27553439 232 - 1.733 1.608 -0.425
ENSG00000139517 E007 43.8578215 0.0005513511 2.241127e-01 3.553301e-01 13 27556236 27556413 178 - 1.542 1.503 -0.134
ENSG00000139517 E008 40.6730227 0.0005644148 3.605128e-02 8.368324e-02 13 27559842 27559985 144 - 1.520 1.407 -0.389
ENSG00000139517 E009 83.6361897 0.0055288774 1.167180e-03 4.529449e-03 13 27562413 27562781 369 - 1.830 1.656 -0.588
ENSG00000139517 E010 60.0889798 0.0004589552 1.903206e-05 1.186393e-04 13 27567640 27567839 200 - 1.699 1.458 -0.822
ENSG00000139517 E011 43.1400849 0.0005039922 2.859841e-04 1.322887e-03 13 27569029 27569169 141 - 1.559 1.318 -0.831
ENSG00000139517 E012 35.5545175 0.0006217620 1.212560e-02 3.383647e-02 13 27569170 27569276 107 - 1.466 1.301 -0.572
ENSG00000139517 E013 84.7823673 0.0140837271 1.370386e-03 5.209606e-03 13 27581297 27581803 507 - 1.842 1.616 -0.766
ENSG00000139517 E014 0.4439371 0.0216174712 1.000000e+00 1.000000e+00 13 27606730 27606771 42 - 0.147 0.000 -9.014
ENSG00000139517 E015 0.4375944 0.0247781579 1.000000e+00 1.000000e+00 13 27607991 27608013 23 - 0.147 0.000 -9.014
ENSG00000139517 E016 3.0418940 0.0059953955 4.509194e-01 5.919407e-01 13 27620018 27620374 357 - 0.533 0.412 -0.606
ENSG00000139517 E017 17.9582000 0.0228026301 1.034444e-04 5.379566e-04 13 27620375 27620689 315 - 1.221 0.619 -2.309