ENSG00000127554

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
ENST00000248114 ENSG00000127554 HEK293_OSMI2_6hA HEK293_TMG_6hB GFER protein_coding protein_coding 33.5234 48.15144 17.04023 8.126769 0.3631397 -1.498088 25.926691 38.71746 8.465885 9.24078019 0.7413418 -2.191921 0.7393583 0.7814667 0.4968667 -0.284600000 8.068111e-02 3.980643e-28 FALSE FALSE
ENST00000565658 ENSG00000127554 HEK293_OSMI2_6hA HEK293_TMG_6hB GFER protein_coding retained_intron 33.5234 48.15144 17.04023 8.126769 0.3631397 -1.498088 3.934030 7.17704 2.574471 0.03048903 0.1924909 -1.475529 0.1273792 0.1588333 0.1513000 -0.007533333 1.000000e+00 3.980643e-28 FALSE FALSE
ENST00000567719 ENSG00000127554 HEK293_OSMI2_6hA HEK293_TMG_6hB GFER protein_coding protein_coding 33.5234 48.15144 17.04023 8.126769 0.3631397 -1.498088 2.330892 0.00000 5.735564 0.00000000 0.8405884 9.166305 0.0910875 0.0000000 0.3363000 0.336300000 3.980643e-28 3.980643e-28 FALSE FALSE
  • 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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000127554 E001 26.26257 0.0017007428 7.191801e-04 7.606178e-03 16 1984193 1984206 14 + 1.050 1.327 0.985
ENSG00000127554 E002 60.39706 0.0057643319 1.385252e-06 3.773622e-05 16 1984207 1984257 51 + 1.347 1.675 1.128
ENSG00000127554 E003 97.34277 0.0804544959 1.624544e-02 8.269686e-02 16 1984258 1984331 74 + 1.539 1.873 1.131
ENSG00000127554 E004 193.94385 0.0438954120 3.166996e-01 5.566779e-01 16 1984332 1984476 145 + 2.082 2.143 0.206
ENSG00000127554 E005 40.11700 0.0886246012 2.497864e-01 4.876363e-01 16 1984477 1984657 181 + 1.652 1.420 -0.793
ENSG00000127554 E006 43.60819 0.0515469417 1.166391e-01 3.102321e-01 16 1984658 1984746 89 + 1.708 1.450 -0.880
ENSG00000127554 E007 405.27251 0.0002426309 2.184582e-03 1.830253e-02 16 1984747 1984943 197 + 2.479 2.459 -0.066
ENSG00000127554 E008 11.94302 0.3318025290 4.592937e-01 6.726804e-01 16 1984944 1985009 66 + 0.948 0.972 0.088
ENSG00000127554 E009 1471.31696 0.0198014076 5.902109e-02 2.005690e-01 16 1985866 1987749 1884 + 3.133 2.988 -0.482