ENSG00000175104

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
ENST00000348124 ENSG00000175104 HEK293_DMSO_6hA HEK293_OSMI2_6hA TRAF6 protein_coding protein_coding 5.184951 1.992233 2.910416 0.4888284 0.739963 0.5445637 0.4643969 0.0000000 0.6989209 0.0000000 0.1995981 6.1475529 0.1264708 0.0000000 0.2349667 0.23496667 1.713706e-06 1.713706e-06 FALSE TRUE
ENST00000526995 ENSG00000175104 HEK293_DMSO_6hA HEK293_OSMI2_6hA TRAF6 protein_coding protein_coding 5.184951 1.992233 2.910416 0.4888284 0.739963 0.5445637 2.2545415 1.4612513 0.9561732 0.4411978 0.1637633 -0.6066900 0.4878375 0.7581333 0.3507000 -0.40743333 2.940268e-01 1.713706e-06 FALSE TRUE
ENST00000529150 ENSG00000175104 HEK293_DMSO_6hA HEK293_OSMI2_6hA TRAF6 protein_coding processed_transcript 5.184951 1.992233 2.910416 0.4888284 0.739963 0.5445637 1.4970958 0.4202508 0.6487406 0.2208147 0.3855228 0.6145325 0.2323708 0.1859667 0.1744333 -0.01153333 9.983018e-01 1.713706e-06 FALSE FALSE
MSTRG.5393.2 ENSG00000175104 HEK293_DMSO_6hA HEK293_OSMI2_6hA TRAF6 protein_coding   5.184951 1.992233 2.910416 0.4888284 0.739963 0.5445637 0.9689171 0.1107310 0.6065808 0.1107310 0.1003707 2.3524935 0.1533333 0.0559000 0.2399333 0.18403333 3.300393e-01 1.713706e-06 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_OSMI2_6hA HEK293_DMSO_6hA log2fold_HEK293_DMSO_6hA_HEK293_OSMI2_6hA
ENSG00000175104 E001 145.328753 0.0280726188 1.500552e-05 0.004062989 11 36483769 36488252 4484 - 1.936 2.320 1.287
ENSG00000175104 E002 4.599276 0.0053662920 2.436487e-01 0.648796989 11 36488253 36488298 46 - 0.625 0.856 0.943
ENSG00000175104 E003 41.391956 0.0270393185 8.462143e-01 0.961890223 11 36488299 36489172 874 - 1.585 1.674 0.303
ENSG00000175104 E004 45.010899 0.0018954417 2.127243e-02 0.241790444 11 36489173 36489726 554 - 1.682 1.649 -0.111
ENSG00000175104 E005 72.593471 0.0107673683 1.526260e-01 0.542863647 11 36489727 36490376 650 - 1.873 1.870 -0.007
ENSG00000175104 E006 41.678617 0.0008307022 2.259605e-01 0.630955670 11 36490377 36490650 274 - 1.620 1.646 0.089
ENSG00000175104 E007 20.387187 0.0012904091 1.118809e-01 0.479069264 11 36492551 36492628 78 - 1.349 1.320 -0.101
ENSG00000175104 E008 16.771446 0.0030681816 5.382674e-03 0.131117132 11 36494976 36495047 72 - 1.314 1.168 -0.516
ENSG00000175104 E009 1.313849 0.0127828222 2.924435e-01   11 36496360 36496510 151 - 0.439 0.308 -0.765
ENSG00000175104 E010 20.551998 0.0091216197 2.721078e-03 0.093595400 11 36497108 36497266 159 - 1.405 1.241 -0.571
ENSG00000175104 E011 18.396500 0.0017689793 1.037918e-02 0.176499826 11 36498490 36498640 151 - 1.338 1.225 -0.397
ENSG00000175104 E012 31.632705 0.0120159802 6.058301e-03 0.138200905 11 36501220 36501537 318 - 1.571 1.444 -0.438
ENSG00000175104 E013 0.000000       11 36501719 36501811 93 -      
ENSG00000175104 E014 16.728605 0.0024212130 9.280595e-03 0.167649512 11 36510048 36510983 936 - 1.308 1.178 -0.455