ENSG00000118689

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
ENST00000343882 ENSG00000118689 HEK293_OSMI2_2hA HEK293_TMG_2hB FOXO3 protein_coding protein_coding 10.11688 7.133276 10.27653 0.5420968 0.1771974 0.5260979 2.119005 0.7188163 3.567605 0.5556887 0.5023210 2.2953672 0.2062042 0.1123333 0.3483333 0.2360000 2.954812e-01 3.570568e-07 FALSE TRUE
ENST00000406360 ENSG00000118689 HEK293_OSMI2_2hA HEK293_TMG_2hB FOXO3 protein_coding protein_coding 10.11688 7.133276 10.27653 0.5420968 0.1771974 0.5260979 2.544696 0.8687932 3.494965 0.4349542 0.5555722 1.9958045 0.2402667 0.1156000 0.3405667 0.2249667 3.803037e-01 3.570568e-07 FALSE TRUE
ENST00000540898 ENSG00000118689 HEK293_OSMI2_2hA HEK293_TMG_2hB FOXO3 protein_coding protein_coding 10.11688 7.133276 10.27653 0.5420968 0.1771974 0.5260979 5.453176 5.5456670 3.213955 0.6779454 0.5660773 -0.7851285 0.5535375 0.7721000 0.3111333 -0.4609667 3.570568e-07 3.570568e-07 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
ENSG00000118689 E001 4.956496 0.075160542 1.023890e-02 2.935290e-02 6 108559835 108560015 181 + 0.871 0.512 -1.515
ENSG00000118689 E002 3.580639 0.004207434 1.701876e-03 6.289189e-03 6 108560917 108561085 169 + 0.760 0.369 -1.827
ENSG00000118689 E003 60.151595 0.002904994 8.345775e-18 4.144383e-16 6 108561086 108561829 744 + 1.873 1.559 -1.063
ENSG00000118689 E004 0.000000       6 108656346 108656538 193 +      
ENSG00000118689 E005 148.822927 0.001635362 1.155675e-19 7.078534e-18 6 108663455 108664889 1435 + 2.216 2.070 -0.489
ENSG00000118689 E006 988.270177 0.005899247 3.521157e-19 2.047491e-17 6 108679827 108684774 4948 + 2.880 3.111 0.769