ENSG00000076716

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
ENST00000370828 ENSG00000076716 HEK293_OSMI2_6hA HEK293_TMG_6hB GPC4 protein_coding protein_coding 11.96148 11.28193 10.93357 1.354542 0.3027486 -0.04520858 7.577912 7.892522 4.131312 0.7985293 0.1901357 -0.9322253 0.6217792 0.7092 0.3787667 -0.3304333 0.02418383 0.02418383 FALSE TRUE
MSTRG.34885.1 ENSG00000076716 HEK293_OSMI2_6hA HEK293_TMG_6hB GPC4 protein_coding   11.96148 11.28193 10.93357 1.354542 0.3027486 -0.04520858 4.383568 3.389405 6.802256 1.1540666 0.4041403 1.0028502 0.3782208 0.2908 0.6212333 0.3304333 0.02418534 0.02418383 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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000076716 E001 748.08273 0.0038481921 8.097140e-02 2.467488e-01 X 133300103 133303069 2967 - 2.840 2.895 0.181
ENSG00000076716 E002 178.83428 0.0030691233 3.506411e-02 1.417472e-01 X 133303166 133303341 176 - 2.284 2.222 -0.209
ENSG00000076716 E003 153.03975 0.0003371848 8.884986e-03 5.330171e-02 X 133304725 133304861 137 - 2.217 2.155 -0.208
ENSG00000076716 E004 132.85440 0.0009287141 3.794682e-01 6.117797e-01 X 133305772 133305918 147 - 2.131 2.114 -0.055
ENSG00000076716 E005 116.37698 0.0013474354 4.038181e-01 6.313708e-01 X 133306024 133306154 131 - 2.045 2.086 0.139
ENSG00000076716 E006 141.48288 0.0014113357 2.939194e-01 5.345743e-01 X 133311258 133311423 166 - 2.164 2.141 -0.078
ENSG00000076716 E007 205.27947 0.0010456091 7.596985e-01 8.723960e-01 X 133324145 133324536 392 - 2.308 2.312 0.012
ENSG00000076716 E008 94.71542 0.0004558021 6.386746e-03 4.162157e-02 X 133339183 133339341 159 - 2.024 1.937 -0.292
ENSG00000076716 E009 102.37063 0.0035226801 6.095311e-01 7.765977e-01 X 133414806 133415068 263 - 2.019 2.009 -0.034
ENSG00000076716 E010 64.96644 0.0020930188 2.138348e-07 7.321385e-06 X 133415069 133415489 421 - 1.652 1.919 0.905
ENSG00000076716 E011 0.00000       X 133415613 133415647 35 -