ENSG00000128011

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
ENST00000248668 ENSG00000128011 HEK293_OSMI2_2hA HEK293_TMG_2hB LRFN1 protein_coding protein_coding 12.47955 15.98876 12.20453 1.472862 0.2421378 -0.3893617 11.417726 15.731469 10.12840 1.44247037 0.4814646 -0.6347398 0.90487083 0.984 0.8299333 -0.1540667 5.153305e-06 5.153305e-06 FALSE TRUE
MSTRG.17113.2 ENSG00000128011 HEK293_OSMI2_2hA HEK293_TMG_2hB LRFN1 protein_coding   12.47955 15.98876 12.20453 1.472862 0.2421378 -0.3893617 1.061819 0.257294 2.07613 0.09089393 0.4451130 2.9643299 0.09512917 0.016 0.1700667 0.1540667 5.240851e-06 5.153305e-06 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
ENSG00000128011 E001 540.354510 0.0033038012 1.405042e-06 1.129705e-05 19 39306566 39308142 1577 - 2.627 2.754 0.422
ENSG00000128011 E002 244.606316 0.0002744555 2.684029e-01 4.068566e-01 19 39308143 39308542 400 - 2.374 2.360 -0.047
ENSG00000128011 E003 655.607079 0.0028649063 6.789565e-03 2.067548e-02 19 39313931 39315373 1443 - 2.818 2.784 -0.111
ENSG00000128011 E004 53.090114 0.0004969241 1.527913e-03 5.727315e-03 19 39316082 39316136 55 - 1.795 1.652 -0.484
ENSG00000128011 E005 35.032120 0.0128851629 7.148945e-02 1.458152e-01 19 39318326 39318358 33 - 1.612 1.481 -0.445
ENSG00000128011 E006 3.830702 0.1559392851 5.866151e-02 1.243371e-01 19 39320490 39320792 303 - 0.892 0.458 -1.861
ENSG00000128011 E007 26.691823 0.0117843910 3.668002e-01 5.111341e-01 19 39320793 39320863 71 - 1.455 1.392 -0.218