ENSG00000111875

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
ENST00000229595 ENSG00000111875 HEK293_OSMI2_2hA HEK293_TMG_2hB ASF1A protein_coding protein_coding 18.42738 12.63109 26.47789 1.023492 0.588128 1.067213 7.100659 3.785314 11.70670 0.5212017 0.5204425 1.6262748 0.3497375 0.2968667 0.4420333 0.1451667 0.0012359954 0.0002039837 FALSE TRUE
MSTRG.28884.1 ENSG00000111875 HEK293_OSMI2_2hA HEK293_TMG_2hB ASF1A protein_coding   18.42738 12.63109 26.47789 1.023492 0.588128 1.067213 11.151470 8.845773 14.54631 0.5049178 0.3420462 0.7169543 0.6376000 0.7031333 0.5495667 -0.1535667 0.0002039837 0.0002039837 TRUE 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
ENSG00000111875 E001 31.9724472 0.0006945291 8.346371e-01 8.964961e-01 6 118894152 118894220 69 + 1.505 1.516 0.038
ENSG00000111875 E002 189.3962114 0.0002170602 2.894382e-01 4.301116e-01 6 118894221 118894522 302 + 2.281 2.252 -0.095
ENSG00000111875 E003 179.7697715 0.0002101852 5.645583e-01 6.918327e-01 6 118900766 118900881 116 + 2.255 2.239 -0.055
ENSG00000111875 E004 1.0351233 0.0119705008 3.048249e-02 7.291251e-02 6 118900882 118901036 155 + 0.424 0.001 -10.430
ENSG00000111875 E005 236.7243808 0.0001804917 2.020491e-04 9.726978e-04 6 118905652 118905828 177 + 2.335 2.413 0.259
ENSG00000111875 E006 269.9608176 0.0001833126 9.851370e-05 5.149159e-04 6 118907402 118907681 280 + 2.393 2.469 0.251
ENSG00000111875 E007 272.9818742 0.0003789497 5.128292e-09 6.679083e-08 6 118907682 118909171 1490 + 2.474 2.348 -0.419
ENSG00000111875 E008 0.5869318 0.2595614051 6.166227e-01 7.346324e-01 6 118912808 118912932 125 + 0.168 0.272 0.888