ENSG00000125871

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
ENST00000377710 ENSG00000125871 HEK293_DMSO_6hA HEK293_OSMI2_6hA MGME1 protein_coding protein_coding 27.97237 15.10308 18.37745 4.288616 3.85598 0.2829234 21.9563849 9.4505335 14.0966326 2.7013597 3.3621395 0.5763802 0.76785000 0.62523333 0.75693333 0.131700000 0.08039107 0.03320904 FALSE  
ENST00000467391 ENSG00000125871 HEK293_DMSO_6hA HEK293_OSMI2_6hA MGME1 protein_coding processed_transcript 27.97237 15.10308 18.37745 4.288616 3.85598 0.2829234 1.4832757 2.5607481 1.4408087 0.6705685 0.2048609 -0.8253309 0.06442083 0.17220000 0.08223333 -0.089966667 0.03320904 0.03320904 TRUE  
MSTRG.20410.1 ENSG00000125871 HEK293_DMSO_6hA HEK293_OSMI2_6hA MGME1 protein_coding   27.97237 15.10308 18.37745 4.288616 3.85598 0.2829234 0.3590068 0.8860726 0.1123267 0.4433341 0.1123267 -2.8728765 0.01575000 0.05676667 0.00530000 -0.051466667 0.53940814 0.03320904 FALSE  
MSTRG.20410.11 ENSG00000125871 HEK293_DMSO_6hA HEK293_OSMI2_6hA MGME1 protein_coding   27.97237 15.10308 18.37745 4.288616 3.85598 0.2829234 2.2327433 1.1072771 1.4769719 0.2132060 0.2941459 0.4123904 0.08020833 0.07746667 0.08093333 0.003466667 0.95064770 0.03320904 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
ENSG00000125871 E001 8.655110 0.0029976600 1.953637e-01 0.5982467677 20 17968916 17968940 25 + 1.046 0.911 -0.503
ENSG00000125871 E002 32.888003 0.0114879658 1.050245e-01 0.4668195981 20 17969018 17969060 43 + 1.588 1.460 -0.438
ENSG00000125871 E003 24.567821 0.0092139682 5.732925e-02 0.3646274146 20 17969061 17969062 2 + 1.481 1.322 -0.550
ENSG00000125871 E004 24.397539 0.0016181815 2.434890e-02 0.2557113111 20 17969063 17969063 1 + 1.476 1.322 -0.533
ENSG00000125871 E005 27.088005 0.0046807231 1.889040e-02 0.2303497487 20 17969064 17969072 9 + 1.528 1.358 -0.586
ENSG00000125871 E006 35.586962 0.0054177534 7.097724e-02 0.3976095559 20 17969073 17969080 8 + 1.621 1.501 -0.410
ENSG00000125871 E007 52.433911 0.0006681750 2.854653e-01 0.6878105367 20 17969081 17969114 34 + 1.755 1.710 -0.151
ENSG00000125871 E008 56.011756 0.0006091853 3.177711e-01 0.7148449569 20 17969115 17969141 27 + 1.782 1.742 -0.134
ENSG00000125871 E009 23.979857 0.0014806235 6.305319e-01 0.8882982633 20 17969364 17969504 141 + 1.411 1.384 -0.093
ENSG00000125871 E010 16.119389 0.0026731285 3.641009e-01 0.7497706994 20 17969505 17969614 110 + 1.194 1.275 0.288
ENSG00000125871 E011 134.883078 0.0005064700 1.449830e-01 0.5321917876 20 17969801 17970030 230 + 2.161 2.124 -0.126
ENSG00000125871 E012 56.815018 0.0005947236 5.679278e-02 0.3632606193 20 17970031 17970056 26 + 1.809 1.728 -0.274
ENSG00000125871 E013 87.658519 0.0018249562 4.704417e-02 0.3360638759 20 17970057 17970130 74 + 1.994 1.917 -0.257
ENSG00000125871 E014 167.807652 0.0002870448 5.022376e-01 0.8308157156 20 17970131 17970370 240 + 2.240 2.230 -0.033
ENSG00000125871 E015 4.437293 0.2091070075 9.232818e-01 0.9816635231 20 17972707 17972751 45 + 0.737 0.719 -0.075
ENSG00000125871 E016 140.660943 0.0003229245 3.288864e-01 0.7235807618 20 17975684 17975903 220 + 2.142 2.178 0.120
ENSG00000125871 E017 127.282049 0.0003431989 6.444423e-01 0.8940830544 20 17988166 17988298 133 + 2.116 2.110 -0.021
ENSG00000125871 E018 580.761473 0.0008029181 7.506915e-08 0.0000813048 20 17989939 17991122 1184 + 2.724 2.814 0.300