ENSG00000109062

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
ENST00000262613 ENSG00000109062 HEK293_OSMI2_6hA HEK293_TMG_6hB SLC9A3R1 protein_coding protein_coding 77.11369 119.1442 30.86367 28.08044 1.687931 -1.948381 42.962673 75.01436 16.268318 17.422499 0.3314814 -2.204408 0.57665417 0.63080000 0.52953333 -0.10126667 1.638708e-01 6.423313e-11 FALSE TRUE
ENST00000413388 ENSG00000109062 HEK293_OSMI2_6hA HEK293_TMG_6hB SLC9A3R1 protein_coding protein_coding 77.11369 119.1442 30.86367 28.08044 1.687931 -1.948381 24.943467 28.71601 13.226202 6.473521 0.6918213 -1.117868 0.32055000 0.24296667 0.42866667 0.18570000 6.423313e-11 6.423313e-11 FALSE TRUE
ENST00000581999 ENSG00000109062 HEK293_OSMI2_6hA HEK293_TMG_6hB SLC9A3R1 protein_coding miRNA 77.11369 119.1442 30.86367 28.08044 1.687931 -1.948381 7.157437 12.71605 1.025254 4.753694 1.0252544 -3.619727 0.08316667 0.09803333 0.03026667 -0.06776667 2.741499e-01 6.423313e-11 FALSE 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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000109062 E001 1.5176405 0.0121989077 0.327827441 0.56689220 17 74748613 74748627 15 + 0.483 0.315 -0.938
ENSG00000109062 E002 125.6771641 0.5065037892 0.197084824 0.42592945 17 74748628 74748651 24 + 1.708 2.032 1.093
ENSG00000109062 E003 884.7156145 0.0253625709 0.009657465 0.05665146 17 74748652 74749287 636 + 2.666 2.862 0.653
ENSG00000109062 E004 0.2617363 0.0470522791 1.000000000   17 74762003 74762011 9 + 0.001 0.115 7.073
ENSG00000109062 E005 497.5788858 0.0002017506 0.122661514 0.31998566 17 74762012 74762173 162 + 2.588 2.589 0.004
ENSG00000109062 E006 3.9620541 0.0903019646 0.847965912 0.92380800 17 74763030 74763366 337 + 0.571 0.621 0.223
ENSG00000109062 E007 413.9161284 0.0004695724 0.005066231 0.03497167 17 74763367 74763427 61 + 2.536 2.503 -0.108
ENSG00000109062 E008 508.6411857 0.0002779438 0.260584690 0.49958539 17 74763428 74763520 93 + 2.591 2.600 0.030
ENSG00000109062 E009 331.9889224 0.0001868959 0.430667982 0.65165017 17 74766936 74766976 41 + 2.404 2.416 0.042
ENSG00000109062 E010 493.2089855 0.0001798656 0.114227760 0.30618737 17 74768147 74768236 90 + 2.584 2.583 -0.001
ENSG00000109062 E011 1658.1024588 0.0031209964 0.035856924 0.14383339 17 74768468 74769353 886 + 3.121 3.102 -0.064