ENSG00000116704

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
ENST00000235345 ENSG00000116704 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC35D1 protein_coding protein_coding 8.943689 4.409836 12.40898 0.9157033 0.1680999 1.490482 6.745147 4.1972521 7.925449 0.98800128 0.2572824 0.9154336 0.8182958 0.9430 0.6384 -0.3046 0.013592969 0.004713485 FALSE TRUE
MSTRG.1373.3 ENSG00000116704 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC35D1 protein_coding   8.943689 4.409836 12.40898 0.9157033 0.1680999 1.490482 2.111299 0.1136119 4.414814 0.09804566 0.0942338 5.1617280 0.1698958 0.0288 0.3561 0.3273 0.004713485 0.004713485 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
ENSG00000116704 E001 2.805478 0.1454229855 3.069951e-02 7.332883e-02 1 66970809 66970961 153 - 0.345 0.805 2.150
ENSG00000116704 E002 2.509936 0.2298402581 4.829154e-02 1.061465e-01 1 66975382 66975518 137 - 0.303 0.772 2.283
ENSG00000116704 E003 200.941876 0.0132388793 2.284886e-15 8.240336e-14 1 66999350 67000400 1051 - 2.050 2.553 1.681
ENSG00000116704 E004 847.394064 0.0006511350 1.767562e-03 6.496193e-03 1 67000401 67004018 3618 - 2.897 2.916 0.064
ENSG00000116704 E005 60.256027 0.0008333891 1.341931e-02 3.689015e-02 1 67004019 67004315 297 - 1.780 1.711 -0.231
ENSG00000116704 E006 62.027646 0.0007106982 2.334481e-02 5.846756e-02 1 67004316 67004448 133 - 1.788 1.733 -0.187
ENSG00000116704 E007 39.853148 0.0005865203 2.289304e-01 3.611744e-01 1 67009085 67009167 83 - 1.592 1.577 -0.049
ENSG00000116704 E008 34.964216 0.0008739188 2.668165e-01 4.050778e-01 1 67020369 67020447 79 - 1.534 1.519 -0.051
ENSG00000116704 E009 33.921118 0.0006192141 5.487076e-02 1.177735e-01 1 67021535 67021602 68 - 1.537 1.468 -0.236
ENSG00000116704 E010 48.955663 0.0041758190 1.417505e-01 2.504356e-01 1 67042236 67042328 93 - 1.682 1.639 -0.146
ENSG00000116704 E011 48.616302 0.0005166284 1.676639e-01 2.851549e-01 1 67047265 67047367 103 - 1.673 1.655 -0.062
ENSG00000116704 E012 36.429782 0.0005839535 3.534914e-01 4.977360e-01 1 67049782 67049850 69 - 1.547 1.546 -0.003
ENSG00000116704 E013 48.944707 0.0004851326 7.424957e-02 1.503282e-01 1 67050433 67050504 72 - 1.684 1.644 -0.135
ENSG00000116704 E014 53.193035 0.0005447026 9.268211e-03 2.695561e-02 1 67052012 67052079 68 - 1.730 1.650 -0.274
ENSG00000116704 E015 56.497352 0.0015344750 5.133739e-04 2.209686e-03 1 67052771 67052857 87 - 1.769 1.634 -0.459
ENSG00000116704 E016 40.614718 0.0005595098 2.927150e-04 1.350132e-03 1 67052956 67052989 34 - 1.636 1.468 -0.575
ENSG00000116704 E017 70.367859 0.0005800115 3.097086e-06 2.309702e-05 1 67053811 67054523 713 - 1.872 1.707 -0.558