ENSG00000140319

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
ENST00000267884 ENSG00000140319 HEK293_DMSO_6hA HEK293_OSMI2_6hA SRP14 protein_coding protein_coding 216.3133 202.2445 131.1154 16.18829 14.58819 -0.625225 65.49911 45.27053 43.63888 3.714649 6.566541 -0.05294607 0.3094458 0.2239667 0.3294667 0.10550000 3.999491e-05 3.999491e-05 FALSE TRUE
ENST00000558720 ENSG00000140319 HEK293_DMSO_6hA HEK293_OSMI2_6hA SRP14 protein_coding protein_coding 216.3133 202.2445 131.1154 16.18829 14.58819 -0.625225 51.62737 66.78794 32.22237 6.748289 5.010106 -1.05129306 0.2330375 0.3302000 0.2459667 -0.08423333 2.089771e-01 3.999491e-05 FALSE FALSE
MSTRG.10538.3 ENSG00000140319 HEK293_DMSO_6hA HEK293_OSMI2_6hA SRP14 protein_coding   216.3133 202.2445 131.1154 16.18829 14.58819 -0.625225 92.97585 84.05130 51.24014 7.052318 4.846249 -0.71388566 0.4282042 0.4155667 0.3941333 -0.02143333 7.587523e-01 3.999491e-05 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_OSMI2_6hA HEK293_DMSO_6hA log2fold_HEK293_DMSO_6hA_HEK293_OSMI2_6hA
ENSG00000140319 E001 61.810616 0.0564427446 0.0084416320 0.16028699 15 40035690 40036040 351 - 1.982 1.613 -1.247
ENSG00000140319 E002 39.102985 0.0433495037 0.0293331268 0.27695369 15 40036041 40036041 1 - 1.748 1.464 -0.969
ENSG00000140319 E003 987.672504 0.0013169232 0.8607617631 0.96591028 15 40036042 40036242 201 - 2.976 2.973 -0.009
ENSG00000140319 E004 724.898953 0.0003132411 0.3263428205 0.72183549 15 40036243 40036253 11 - 2.833 2.842 0.030
ENSG00000140319 E005 799.266589 0.0001152056 0.4600519588 0.80863369 15 40036254 40036303 50 - 2.879 2.882 0.012
ENSG00000140319 E006 1718.372815 0.0002076562 0.5273554932 0.84363706 15 40036304 40036500 197 - 3.213 3.213 0.002
ENSG00000140319 E007 7.864699 0.0896105866 0.8706565418 0.96827856 15 40036688 40036985 298 - 0.915 0.923 0.030
ENSG00000140319 E008 1112.062093 0.0001049960 0.0004778932 0.03507139 15 40036986 40037018 33 - 3.001 3.034 0.111
ENSG00000140319 E009 22.918566 0.0367720920 0.8678014636 0.96744199 15 40037309 40037348 40 - 1.378 1.352 -0.090
ENSG00000140319 E010 17.029547 0.0666224487 0.6751972688 0.90620380 15 40037349 40037355 7 - 1.281 1.218 -0.220
ENSG00000140319 E011 719.971422 0.0001038910 0.9097681675 0.97847626 15 40038282 40038284 3 - 2.837 2.832 -0.015
ENSG00000140319 E012 1799.503795 0.0005889455 0.8575842529 0.96498731 15 40038285 40038394 110 - 3.236 3.232 -0.012
ENSG00000140319 E013 4.410997 0.0049348214 0.4994230253 0.82934712 15 40038395 40038523 129 - 0.771 0.671 -0.409
ENSG00000140319 E014 7.638750 0.0035752147 0.3006619349 0.70048393 15 40038524 40038875 352 - 0.827 0.948 0.462
ENSG00000140319 E015 1351.820392 0.0006733248 0.3051180939 0.70399849 15 40038876 40038948 73 - 3.123 3.102 -0.071
ENSG00000140319 E016 6.485438 0.0630622743 0.9473964659 0.98769512 15 40038949 40039050 102 - 0.864 0.838 -0.099
ENSG00000140319 E017 933.393862 0.0023414713 0.3971364812 0.77127110 15 40039093 40039214 122 - 2.968 2.940 -0.094