ENSG00000138231

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
ENST00000260803 ENSG00000138231 HEK293_OSMI2_6hA HEK293_TMG_6hB DBR1 protein_coding protein_coding 12.3935 6.115862 20.47348 1.057104 0.5201335 1.741476 9.9694144 3.127448 16.567385 0.47349139 0.3720751 2.4015531 0.7485167 0.51726667 0.80936667 0.2921000 2.467873e-09 2.467873e-09 FALSE TRUE
ENST00000460271 ENSG00000138231 HEK293_OSMI2_6hA HEK293_TMG_6hB DBR1 protein_coding retained_intron 12.3935 6.115862 20.47348 1.057104 0.5201335 1.741476 0.8490338 0.215669 2.395501 0.07142603 0.4887048 3.4140574 0.0641000 0.04286667 0.11626667 0.0734000 3.026029e-01 2.467873e-09   FALSE
ENST00000463982 ENSG00000138231 HEK293_OSMI2_6hA HEK293_TMG_6hB DBR1 protein_coding processed_transcript 12.3935 6.115862 20.47348 1.057104 0.5201335 1.741476 1.5750519 2.772745 1.510592 0.66755468 0.4941892 -0.8718757 0.1873667 0.43986667 0.07433333 -0.3655333 2.401244e-05 2.467873e-09 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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000138231 E001 284.15753 1.760541541 5.976450e-01 7.687357e-01 3 138160988 138162582 1595 - 2.346 2.463 0.390
ENSG00000138231 E002 71.88713 0.049242548 5.827237e-01 7.588366e-01 3 138163349 138163494 146 - 1.796 1.756 -0.135
ENSG00000138231 E003 67.32964 0.019984917 6.795100e-03 4.367603e-02 3 138163778 138163858 81 - 1.790 1.636 -0.519
ENSG00000138231 E004 12.50254 0.002938631 1.420153e-02 7.513695e-02 3 138163859 138164203 345 - 1.105 0.852 -0.941
ENSG00000138231 E005 100.01912 0.033183107 2.629582e-02 1.161897e-01 3 138167081 138167305 225 - 1.952 1.823 -0.435
ENSG00000138231 E006 59.43227 0.033805448 3.812808e-02 1.499508e-01 3 138170107 138170192 86 - 1.731 1.581 -0.510
ENSG00000138231 E007 15.38157 0.036370314 6.433901e-12 5.743524e-10 3 138171320 138171468 149 - 0.735 1.637 3.256
ENSG00000138231 E008 78.06234 0.062006291 8.864083e-01 9.447964e-01 3 138171633 138171713 81 - 1.800 1.878 0.262
ENSG00000138231 E009 75.50132 0.080661979 9.946328e-01 9.989090e-01 3 138173502 138173626 125 - 1.789 1.852 0.214
ENSG00000138231 E010 73.18736 0.077839410 5.059017e-01 7.048755e-01 3 138174599 138174921 323 - 1.752 1.908 0.526