ENSG00000135956

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
ENST00000258439 ENSG00000135956 HEK293_OSMI2_2hA HEK293_TMG_2hB TMEM127 protein_coding protein_coding 20.72272 25.97282 18.3774 1.904843 0.1340663 -0.4988405 6.546689 10.04805 4.931364 0.0988997 0.1351705 -1.0253688 0.3084042 0.3905333 0.2684333 -0.1221 0.009321732 0.009315515 FALSE TRUE
ENST00000432959 ENSG00000135956 HEK293_OSMI2_2hA HEK293_TMG_2hB TMEM127 protein_coding protein_coding 20.72272 25.97282 18.3774 1.904843 0.1340663 -0.4988405 14.164395 15.92478 13.446038 1.8121482 0.2546486 -0.2439251 0.6911083 0.6094667 0.7315667 0.1221 0.009315515 0.009315515 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
ENSG00000135956 E001 665.69460 0.005185532 3.173238e-06 2.360978e-05 2 96248514 96251659 3146 - 2.680 2.845 0.547
ENSG00000135956 E002 1605.07036 0.001888714 9.239318e-01 9.561000e-01 2 96251660 96253799 2140 - 3.166 3.185 0.063
ENSG00000135956 E003 263.26864 0.005666891 3.962431e-03 1.303836e-02 2 96253800 96254115 316 - 2.456 2.359 -0.323
ENSG00000135956 E004 158.90229 0.004592246 5.076489e-03 1.613958e-02 2 96254833 96254997 165 - 2.239 2.138 -0.336
ENSG00000135956 E005 0.00000       2 96260495 96260595 101 -      
ENSG00000135956 E006 164.39182 0.014277843 6.225503e-03 1.920695e-02 2 96265138 96265489 352 - 2.284 2.135 -0.497
ENSG00000135956 E007 33.97566 0.026063172 4.063760e-01 5.500309e-01 2 96265490 96265512 23 - 1.552 1.495 -0.197
ENSG00000135956 E008 70.28240 0.020285942 6.529089e-02 1.355243e-01 2 96265869 96265997 129 - 1.903 1.778 -0.424