ENSG00000154079

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
ENST00000370474 ENSG00000154079 HEK293_DMSO_6hA HEK293_OSMI2_6hA SDHAF4 protein_coding protein_coding 15.13563 14.23055 11.51961 0.809366 1.305007 -0.304661 4.741223 5.2661114 4.461688 0.3300124 0.3576868 -0.2386555 0.3151833 0.3715333 0.3923667 0.02083333 0.89991767 0.03176891 FALSE FALSE
MSTRG.28483.2 ENSG00000154079 HEK293_DMSO_6hA HEK293_OSMI2_6hA SDHAF4 protein_coding   15.13563 14.23055 11.51961 0.809366 1.305007 -0.304661 1.484154 0.5327685 1.768153 0.2161974 0.2292877 1.7119708 0.1047250 0.0362000 0.1538000 0.11760000 0.03176891 0.03176891 FALSE FALSE
MSTRG.28483.6 ENSG00000154079 HEK293_DMSO_6hA HEK293_OSMI2_6hA SDHAF4 protein_coding   15.13563 14.23055 11.51961 0.809366 1.305007 -0.304661 6.185649 6.1020135 4.027501 0.4053748 0.9660520 -0.5981852 0.3949333 0.4331333 0.3399000 -0.09323333 0.64965238 0.03176891 FALSE FALSE
  • 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
ENSG00000154079 E001 0.5152436 0.0224665746 0.705338716   6 70566910 70566911 2 + 0.131 0.196 0.690
ENSG00000154079 E002 1.3652346 0.0143248771 0.189225325   6 70566912 70566913 2 + 0.493 0.268 -1.307
ENSG00000154079 E003 1.3652346 0.0143248771 0.189225325   6 70566914 70566915 2 + 0.493 0.268 -1.307
ENSG00000154079 E004 1.7215781 0.0109465761 0.211467843 0.61603862 6 70566916 70566916 1 + 0.540 0.330 -1.115
ENSG00000154079 E005 2.5492592 0.0741609044 0.150100993 0.53949914 6 70566917 70566918 2 + 0.685 0.432 -1.173
ENSG00000154079 E006 10.7143324 0.0031581193 0.531165416 0.84559558 6 70566919 70566929 11 + 1.101 1.040 -0.223
ENSG00000154079 E007 10.7143324 0.0031581193 0.531165416 0.84559558 6 70566930 70566931 2 + 1.101 1.040 -0.223
ENSG00000154079 E008 55.0326231 0.0007144416 0.419707874 0.78584127 6 70566932 70567004 73 + 1.752 1.716 -0.121
ENSG00000154079 E009 7.3390041 0.0146347535 0.580873363 0.86730350 6 70567416 70567868 453 + 0.868 0.938 0.265
ENSG00000154079 E010 5.1672735 0.0054215875 0.930803891 0.98343516 6 70567869 70568025 157 + 0.798 0.787 -0.042
ENSG00000154079 E011 2.9269715 0.0154943185 0.002859972 0.09581947 6 70576820 70576862 43 + 0.232 0.744 2.691
ENSG00000154079 E012 95.4328239 0.0016633618 0.631089568 0.88848121 6 70579414 70579566 153 + 1.961 1.976 0.048
ENSG00000154079 E013 4.8676642 0.0048903810 0.003632856 0.10857483 6 70585588 70585800 213 + 0.943 0.552 -1.599
ENSG00000154079 E014 56.4220142 0.0006438877 0.123136196 0.49907829 6 70588615 70588710 96 + 1.703 1.772 0.233
ENSG00000154079 E015 82.0414157 0.0005363490 0.339128554 0.73126572 6 70588711 70589209 499 + 1.886 1.921 0.118
ENSG00000154079 E016 44.3188553 0.0006785398 0.469552116 0.81368877 6 70589210 70589569 360 + 1.664 1.629 -0.119
ENSG00000154079 E017 1.3166509 0.0966932290 0.580354907   6 70598082 70598146 65 + 0.435 0.331 -0.592