ENSG00000163159

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
ENST00000354473 ENSG00000163159 HEK293_OSMI2_2hA HEK293_TMG_2hB VPS72 protein_coding protein_coding 111.5526 171.1947 83.3458 11.153 2.319751 -1.038368 15.29894 16.21548 17.09017 3.590287 0.7862988 0.0757493 0.1504792 0.09473333 0.2053000 0.1105667 7.164199e-03 9.666998e-05 FALSE TRUE
ENST00000368892 ENSG00000163159 HEK293_OSMI2_2hA HEK293_TMG_2hB VPS72 protein_coding protein_coding 111.5526 171.1947 83.3458 11.153 2.319751 -1.038368 91.61771 150.99263 62.16470 10.616168 2.3856682 -1.2801741 0.8018250 0.88173333 0.7454333 -0.1363000 9.666998e-05 9.666998e-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
ENSG00000163159 E001 20.6800741 2.395242e-02 6.983317e-01 7.983107e-01 1 151176304 151176461 158 - 1.246 1.305 0.208
ENSG00000163159 E002 1036.8559514 1.602360e-03 2.595567e-06 1.970673e-05 1 151176462 151176730 269 - 2.875 2.986 0.368
ENSG00000163159 E003 1630.7208043 1.203687e-03 2.881972e-06 2.164616e-05 1 151176731 151177031 301 - 3.089 3.177 0.293
ENSG00000163159 E004 12.6070283 2.131918e-02 2.922422e-01 4.331944e-01 1 151177032 151177064 33 - 1.164 1.046 -0.424
ENSG00000163159 E005 1174.6577638 8.963144e-05 1.101919e-02 3.120641e-02 1 151178001 151178145 145 - 2.988 3.026 0.127
ENSG00000163159 E006 1388.0669677 1.570437e-04 4.325460e-01 5.749768e-01 1 151184317 151184493 177 - 3.089 3.088 -0.004
ENSG00000163159 E007 585.7635650 1.288578e-03 7.406177e-02 1.500265e-01 1 151185506 151185521 16 - 2.738 2.703 -0.117
ENSG00000163159 E008 618.6278668 1.459933e-04 6.361838e-03 1.956163e-02 1 151185522 151185539 18 - 2.764 2.729 -0.117
ENSG00000163159 E009 993.1480787 4.332475e-04 2.256347e-01 3.571497e-01 1 151185540 151185620 81 - 2.951 2.940 -0.036
ENSG00000163159 E010 9.2990299 1.834615e-03 1.427925e-05 9.151117e-05 1 151185621 151185797 177 - 1.246 0.797 -1.658
ENSG00000163159 E011 1573.7094879 3.083959e-04 1.876061e-03 6.841202e-03 1 151185798 151185950 153 - 3.163 3.133 -0.101
ENSG00000163159 E012 1116.7734492 9.230468e-04 3.471932e-04 1.569016e-03 1 151190005 151190123 119 - 3.033 2.975 -0.194
ENSG00000163159 E013 510.0322293 2.274342e-03 2.474366e-03 8.686715e-03 1 151190124 151190197 74 - 2.710 2.628 -0.272
ENSG00000163159 E014 0.5117019 2.317760e-02 3.328275e-01 4.765046e-01 1 151195279 151195321 43 - 0.000 0.212 9.238