ENSG00000135378

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
ENST00000257836 ENSG00000135378 HEK293_OSMI2_2hA HEK293_TMG_2hB PRRG4 protein_coding protein_coding 1.592548 0.5176337 3.390391 0.05023397 0.3977196 2.688092 0.4142600 0.48748707 0.5216037 0.05326640 0.1706013 0.09569203 0.4220750 0.9439 0.1688 -0.7751 1.603967e-04 3.120205e-05 FALSE TRUE
MSTRG.5333.1 ENSG00000135378 HEK293_OSMI2_2hA HEK293_TMG_2hB PRRG4 protein_coding   1.592548 0.5176337 3.390391 0.05023397 0.3977196 2.688092 0.6481519 0.00000000 1.4445087 0.00000000 0.3586874 7.18438808 0.2921750 0.0000 0.4127 0.4127 3.120205e-05 3.120205e-05 FALSE TRUE
MSTRG.5333.2 ENSG00000135378 HEK293_OSMI2_2hA HEK293_TMG_2hB PRRG4 protein_coding   1.592548 0.5176337 3.390391 0.05023397 0.3977196 2.688092 0.5301364 0.03014663 1.4242790 0.03014663 0.1909066 5.15890301 0.2857458 0.0561 0.4185 0.3624 7.201771e-05 3.120205e-05 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
ENSG00000135378 E001 0.7406253 0.0154006170 0.3270380332 0.470478512 11 32829762 32829798 37 + 0.257 0.000 -9.775
ENSG00000135378 E002 3.6945935 0.0044104243 0.0021634809 0.007730967 11 32829799 32829862 64 + 0.702 0.000 -13.166
ENSG00000135378 E003 3.2527327 0.0048642235 0.0043391277 0.014093593 11 32829863 32829926 64 + 0.658 0.000 -13.040
ENSG00000135378 E004 11.5121847 0.0015865150 0.0015994257 0.005959648 11 32829927 32830173 247 + 1.096 0.631 -1.805
ENSG00000135378 E005 12.9416006 0.0015202639 0.0014239545 0.005386445 11 32830508 32830632 125 + 1.139 0.693 -1.696
ENSG00000135378 E006 16.6508777 0.0048388607 0.0118719180 0.033224990 11 32836658 32836821 164 + 1.226 0.915 -1.132
ENSG00000135378 E007 12.1670069 0.0015460107 0.3325479510 0.476220873 11 32838882 32838930 49 + 1.078 0.948 -0.480
ENSG00000135378 E008 18.2429982 0.0010041690 0.5530943413 0.682303714 11 32840107 32840239 133 + 1.205 1.240 0.127
ENSG00000135378 E009 22.2336533 0.0011016843 0.0136823072 0.037498330 11 32853296 32853575 280 + 1.250 1.424 0.607
ENSG00000135378 E010 104.3430840 0.0005789120 0.1727555356 0.291781160 11 32853576 32857109 3534 + 1.944 1.967 0.079
ENSG00000135378 E011 25.3522061 0.0009006728 0.0004223932 0.001860048 11 32857110 32858120 1011 + 1.288 1.520 0.803