ENSG00000139508

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
ENST00000266943 ENSG00000139508 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC46A3 protein_coding protein_coding 1.777895 1.262177 1.574044 0.3050382 0.008850481 0.3163135 1.4898719 1.147154 1.2521366 0.1904264 0.08001030 0.1252876 0.85797917 0.9385333 0.7950333 -0.1435000 3.714090e-01 6.037173e-05 FALSE TRUE
ENST00000380814 ENSG00000139508 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC46A3 protein_coding protein_coding 1.777895 1.262177 1.574044 0.3050382 0.008850481 0.3163135 0.1964999 0.000000 0.3219079 0.0000000 0.07157593 5.0527109 0.08640417 0.0000000 0.2049667 0.2049667 6.037173e-05 6.037173e-05 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
ENSG00000139508 E001 0.2965864 0.032136912 0.20696558   13 28700064 28700079 16 - 0.000 0.217 11.224
ENSG00000139508 E002 30.1576914 0.022260324 0.10701495 0.20112758 13 28700080 28700716 637 - 1.415 1.561 0.501
ENSG00000139508 E003 15.5747738 0.001234128 0.10914822 0.20429179 13 28700717 28700956 240 - 1.146 1.284 0.487
ENSG00000139508 E004 24.5399283 0.001129823 0.15475226 0.26809583 13 28700957 28701500 544 - 1.358 1.457 0.345
ENSG00000139508 E005 10.0318507 0.001925207 0.40505306 0.54873812 13 28701501 28701581 81 - 1.093 1.019 -0.270
ENSG00000139508 E006 15.6733159 0.001357794 0.26780084 0.40614220 13 28703943 28704099 157 - 1.268 1.185 -0.293
ENSG00000139508 E007 0.2214452 0.059250494 0.47396319   13 28704100 28704557 458 - 0.000 0.123 10.236
ENSG00000139508 E008 14.1171409 0.017995199 0.48961224 0.62701067 13 28710760 28710843 84 - 1.220 1.137 -0.294
ENSG00000139508 E009 21.8136446 0.033967431 0.61254442 0.73145563 13 28712680 28713075 396 - 1.392 1.325 -0.234
ENSG00000139508 E010 21.5097807 0.008723385 0.11747823 0.21634764 13 28713076 28713550 475 - 1.421 1.308 -0.392
ENSG00000139508 E011 11.0494018 0.001737454 0.43477127 0.57707401 13 28717810 28718022 213 - 1.044 1.126 0.295
ENSG00000139508 E012 9.4276059 0.001923173 0.03052782 0.07300617 13 28718496 28718970 475 - 1.126 0.912 -0.786