ENSG00000164104

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
ENST00000438704 ENSG00000164104 HEK293_OSMI2_2hA HEK293_TMG_2hB HMGB2 protein_coding protein_coding 300.9581 210.0622 450.2435 24.00593 8.241018 1.099853 142.04208 112.27133 191.37940 12.688602 15.718260 0.769393 0.4857292 0.5352000 0.4241333 -0.11106667 0.04852763 0.04852763 FALSE TRUE
ENST00000446922 ENSG00000164104 HEK293_OSMI2_2hA HEK293_TMG_2hB HMGB2 protein_coding protein_coding 300.9581 210.0622 450.2435 24.00593 8.241018 1.099853 32.84164 23.22995 57.55422 3.447035 4.445771 1.308565 0.1066250 0.1097000 0.1283000 0.01860000 0.61011907 0.04852763 FALSE TRUE
MSTRG.25732.5 ENSG00000164104 HEK293_OSMI2_2hA HEK293_TMG_2hB HMGB2 protein_coding   300.9581 210.0622 450.2435 24.00593 8.241018 1.099853 108.46447 64.34831 170.13121 7.627845 4.218062 1.402534 0.3508083 0.3062667 0.3783000 0.07203333 0.05650100 0.04852763 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
ENSG00000164104 E001 23.31371 8.320389e-04 1.853735e-01 3.079621e-01 4 173331376 173331700 325 - 1.412 1.326 -0.298
ENSG00000164104 E002 13.79039 1.509729e-03 7.124637e-10 1.087361e-08 4 173331701 173331704 4 - 0.854 1.431 2.081
ENSG00000164104 E003 651.01432 3.307260e-03 2.671962e-18 1.396401e-16 4 173331705 173331846 142 - 2.677 2.951 0.911
ENSG00000164104 E004 3805.52381 6.007438e-04 2.322560e-15 8.369831e-14 4 173331847 173332238 392 - 3.533 3.625 0.308
ENSG00000164104 E005 30.78562 1.282313e-02 5.612170e-03 1.758445e-02 4 173332239 173332820 582 - 1.573 1.355 -0.749
ENSG00000164104 E006 2073.72998 5.670392e-05 8.927775e-01 9.354761e-01 4 173332821 173332888 68 - 3.304 3.318 0.046
ENSG00000164104 E007 2351.08852 8.839141e-05 4.028141e-02 9.155490e-02 4 173332889 173332995 107 - 3.365 3.360 -0.015
ENSG00000164104 E008 92.26738 1.158454e-02 8.080786e-01 8.780412e-01 4 173332996 173333068 73 - 1.950 1.967 0.059
ENSG00000164104 E009 1535.48981 4.230326e-04 2.604507e-03 9.077992e-03 4 173333069 173333117 49 - 3.188 3.160 -0.094
ENSG00000164104 E010 1986.02372 9.714965e-05 4.271297e-09 5.631851e-08 4 173333118 173333214 97 - 3.305 3.265 -0.133
ENSG00000164104 E011 2569.18505 7.171007e-04 2.528536e-08 2.889862e-07 4 173333500 173333669 170 - 3.424 3.359 -0.217
ENSG00000164104 E012 15.98356 1.485881e-02 4.244466e-02 9.552507e-02 4 173333670 173333672 3 - 1.293 1.085 -0.741
ENSG00000164104 E013 21.91646 8.474455e-04 4.572104e-01 5.975739e-01 4 173334044 173334245 202 - 1.370 1.326 -0.153
ENSG00000164104 E014 149.37892 3.516980e-03 7.520776e-01 8.383785e-01 4 173334246 173334271 26 - 2.170 2.169 -0.001
ENSG00000164104 E015 1326.78210 2.090564e-03 6.245730e-05 3.435242e-04 4 173334272 173334432 161 - 3.144 3.058 -0.287