ENSG00000005513

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
ENST00000293894 ENSG00000005513 HEK293_OSMI2_2hA HEK293_TMG_2hB SOX8 protein_coding protein_coding 5.041334 7.71854 4.075932 0.4105091 0.1265729 -0.9195305 1.2788396 0.7560587 1.6796707 0.3353561 0.45130153 1.141215 0.2535958 0.09786667 0.4121667 0.3143000 0.03793154 0.02157009 FALSE TRUE
ENST00000566034 ENSG00000005513 HEK293_OSMI2_2hA HEK293_TMG_2hB SOX8 protein_coding retained_intron 5.041334 7.71854 4.075932 0.4105091 0.1265729 -0.9195305 0.4388065 0.6085059 0.4155703 0.1523827 0.07763829 -0.539390 0.0963375 0.07710000 0.1012000 0.0241000 0.75295903 0.02157009 FALSE TRUE
MSTRG.11760.2 ENSG00000005513 HEK293_OSMI2_2hA HEK293_TMG_2hB SOX8 protein_coding   5.041334 7.71854 4.075932 0.4105091 0.1265729 -0.9195305 3.3236884 6.3539749 1.9806913 0.3980308 0.40215025 -1.676659 0.6500792 0.82496667 0.4867000 -0.3382667 0.02157009 0.02157009 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
ENSG00000005513 E001 5.437299 0.0043011904 3.083409e-04 1.413396e-03 16 981770 981895 126 + 1.017 0.600 -1.658
ENSG00000005513 E002 5.942660 0.0924092128 2.751589e-03 9.526322e-03 16 981896 981971 76 + 1.082 0.599 -1.897
ENSG00000005513 E003 7.154189 0.0998052688 1.555334e-03 5.814684e-03 16 981972 982085 114 + 1.165 0.649 -1.979
ENSG00000005513 E004 6.260435 0.0026644475 1.836618e-02 4.793512e-02 16 982086 982167 82 + 0.980 0.738 -0.936
ENSG00000005513 E005 24.672216 0.0016918065 2.308834e-01 3.635350e-01 16 982168 982344 177 + 1.397 1.364 -0.115
ENSG00000005513 E006 22.161623 0.0187391527 3.459006e-01 4.900366e-01 16 982345 983727 1383 + 1.350 1.316 -0.118
ENSG00000005513 E007 46.460114 0.0006394384 2.030239e-02 5.211479e-02 16 983728 983960 233 + 1.685 1.620 -0.220
ENSG00000005513 E008 416.107086 0.0067914134 2.237478e-06 1.722203e-05 16 984701 986979 2279 + 2.504 2.627 0.411