ENSG00000108960

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
ENST00000262065 ENSG00000108960 HEK293_OSMI2_2hA HEK293_TMG_2hB MMD protein_coding protein_coding 9.194764 7.962847 12.00426 1.464989 0.6274212 0.5915809 4.044665 2.243711 6.689275 0.7557379 0.2490457 1.5717026 0.3996083 0.2670667 0.5589333 0.2918667 4.675788e-04 2.039563e-05 FALSE TRUE
ENST00000577038 ENSG00000108960 HEK293_OSMI2_2hA HEK293_TMG_2hB MMD protein_coding processed_transcript 9.194764 7.962847 12.00426 1.464989 0.6274212 0.5915809 5.019928 5.627383 5.029239 0.7139515 0.4344715 -0.1618197 0.5884833 0.7203333 0.4177000 -0.3026333 2.039563e-05 2.039563e-05   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_TMG_2hB HEK293_OSMI2_2hA log2fold_HEK293_OSMI2_2hA_HEK293_TMG_2hB
ENSG00000108960 E001 0.9598924 0.0138476570 3.925417e-01 5.365037e-01 17 55392622 55392642 21 - 0.214 0.397 1.224
ENSG00000108960 E002 230.5392112 0.0213439843 4.392656e-01 5.810227e-01 17 55392643 55394534 1892 - 2.333 2.364 0.104
ENSG00000108960 E003 26.7584874 0.0007248419 1.499906e-04 7.469056e-04 17 55401469 55401538 70 - 1.489 1.265 -0.775
ENSG00000108960 E004 34.1295726 0.0006272420 4.785489e-07 4.248542e-06 17 55403767 55403868 102 - 1.601 1.320 -0.969
ENSG00000108960 E005 2.1295923 0.0083409194 3.587344e-01 5.031166e-01 17 55404455 55404547 93 - 0.524 0.397 -0.649
ENSG00000108960 E006 24.9332338 0.0015978744 1.043235e-05 6.907271e-05 17 55407746 55407820 75 - 1.473 1.174 -1.044
ENSG00000108960 E007 43.2858910 0.0005459124 8.892521e-08 9.114160e-07 17 55411257 55411417 161 - 1.697 1.437 -0.886
ENSG00000108960 E008 27.7818066 0.0015787606 1.932438e-05 1.203032e-04 17 55414151 55414232 82 - 1.509 1.241 -0.930
ENSG00000108960 E009 84.6299933 0.0067590383 2.433008e-21 1.815384e-19 17 55420092 55420533 442 - 1.674 2.175 1.686
ENSG00000108960 E010 49.1941475 0.0044586207 5.132803e-02 1.115144e-01 17 55421670 55421924 255 - 1.619 1.781 0.549