ENSG00000104154

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
ENST00000261867 ENSG00000104154 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC30A4 protein_coding protein_coding 1.595511 1.096508 1.929228 0.2495843 0.09765979 0.8094685 0.9835163 0.2376059 1.5414217 0.08271353 0.07588390 2.647473 0.5274083 0.2125 0.8009333 0.5884333 4.440823e-07 4.440823e-07 FALSE TRUE
ENST00000559667 ENSG00000104154 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC30A4 protein_coding processed_transcript 1.595511 1.096508 1.929228 0.2495843 0.09765979 0.8094685 0.5512680 0.8589019 0.3878059 0.18137839 0.08874612 -1.127129 0.4440542 0.7875 0.1990667 -0.5884333 4.509231e-07 4.440823e-07 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
ENSG00000104154 E001 121.814378 0.0051176390 7.200871e-16 2.772167e-14 15 45479606 45485317 5712 - 2.119 1.854 -0.887
ENSG00000104154 E002 7.266622 0.0025778813 2.455989e-01 3.807651e-01 15 45486611 45486745 135 - 0.930 0.774 -0.603
ENSG00000104154 E003 5.687530 0.0032853525 1.635387e-01 2.797376e-01 15 45487527 45487632 106 - 0.843 0.633 -0.856
ENSG00000104154 E004 6.507551 0.0025838183 2.097080e-02 5.352953e-02 15 45488841 45489042 202 - 0.920 0.574 -1.413
ENSG00000104154 E005 6.132628 0.0195408165 1.614766e-02 4.305368e-02 15 45490728 45490881 154 - 0.910 0.504 -1.699
ENSG00000104154 E006 15.031891 0.0514790955 3.509755e-11 6.681867e-10 15 45502051 45502966 916 - 0.734 1.572 3.037
ENSG00000104154 E007 13.550070 0.0015167634 7.593924e-04 3.112740e-03 15 45511138 45511284 147 - 1.019 1.318 1.068
ENSG00000104154 E008 13.417177 0.0087550610 2.977633e-04 1.370548e-03 15 45521964 45522027 64 - 0.994 1.339 1.234
ENSG00000104154 E009 26.293602 0.0008715093 2.340164e-05 1.428184e-04 15 45522028 45522468 441 - 1.307 1.578 0.934
ENSG00000104154 E010 3.700830 0.0190441762 9.398758e-01 9.662498e-01 15 45522607 45522755 149 - 0.631 0.635 0.015