ENSG00000058729

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
ENST00000283109 ENSG00000058729 HEK293_OSMI2_6hA HEK293_TMG_6hB RIOK2 protein_coding protein_coding 22.99047 8.914771 36.89319 1.726268 1.745849 2.047859 4.064854 0.6848562 5.914191 0.1858105 0.1999508 3.091832 0.15797083 0.07493333 0.1615 0.08656667 0.02952486 0.002511104 FALSE  
ENST00000508447 ENSG00000058729 HEK293_OSMI2_6hA HEK293_TMG_6hB RIOK2 protein_coding protein_coding 22.99047 8.914771 36.89319 1.726268 1.745849 2.047859 1.787592 1.4371595 3.106322 0.3966662 0.6127395 1.106621 0.08438333 0.15430000 0.0830 -0.07130000 0.23843981 0.002511104 FALSE  
MSTRG.26636.3 ENSG00000058729 HEK293_OSMI2_6hA HEK293_TMG_6hB RIOK2 protein_coding   22.99047 8.914771 36.89319 1.726268 1.745849 2.047859 15.644089 6.4492748 24.126710 0.9784676 1.7077731 1.901785 0.70026667 0.73923333 0.6538 -0.08543333 0.68285366 0.002511104 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_TMG_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000058729 E001 101.3185229 0.0118046667 2.144517e-07 7.339546e-06 5 97160867 97162935 2069 - 1.994 1.639 -1.200
ENSG00000058729 E002 7.3208840 0.0041973553 2.097451e-01 4.415791e-01 5 97162936 97162947 12 - 0.882 0.714 -0.664
ENSG00000058729 E003 169.6672003 0.0052009469 5.218683e-02 1.848396e-01 5 97162948 97163225 278 - 2.133 2.238 0.352
ENSG00000058729 E004 4.0900509 0.1188501330 3.574624e-01 5.936546e-01 5 97164959 97165050 92 - 0.687 0.521 -0.737
ENSG00000058729 E005 164.2603268 0.0027174111 2.583321e-02 1.147668e-01 5 97165051 97165147 97 - 2.119 2.222 0.346
ENSG00000058729 E006 2.6556447 0.2525265485 8.125943e-01 9.037709e-01 5 97166267 97166371 105 - 0.523 0.442 -0.402
ENSG00000058729 E007 2.6027159 0.0085539085 7.739334e-02 2.396288e-01 5 97166746 97167466 721 - 0.410 0.714 1.412
ENSG00000058729 E008 386.4197595 0.0027719862 2.619649e-01 5.010661e-01 5 97167467 97167991 525 - 2.503 2.555 0.174
ENSG00000058729 E009 118.6990705 0.0048309144 9.665543e-01 9.851643e-01 5 97168760 97168852 93 - 2.000 2.021 0.070
ENSG00000058729 E010 169.5870551 0.0003821392 1.064406e-01 2.930682e-01 5 97171206 97171397 192 - 2.166 2.131 -0.115
ENSG00000058729 E011 121.1847336 0.0004818879 1.753463e-02 8.740704e-02 5 97173175 97173263 89 - 2.029 1.954 -0.253
ENSG00000058729 E012 2.3185283 0.0339276220 7.424633e-01 8.619360e-01 5 97177004 97177115 112 - 0.491 0.444 -0.237
ENSG00000058729 E013 178.6893004 0.0004008163 4.804132e-02 1.750906e-01 5 97177116 97177291 176 - 2.191 2.146 -0.151
ENSG00000058729 E014 148.3878891 0.0005165076 4.218537e-01 6.450605e-01 5 97177732 97177848 117 - 2.105 2.093 -0.039
ENSG00000058729 E015 1.9341061 0.0102977900 1.795591e-01 4.033820e-01 5 97178830 97179054 225 - 0.465 0.204 -1.681
ENSG00000058729 E016 98.6373809 0.0066666433 5.351943e-01 7.257131e-01 5 97179055 97179142 88 - 1.916 1.959 0.144
ENSG00000058729 E017 79.8731597 0.1498908858 4.228254e-01 6.457385e-01 5 97179143 97179193 51 - 1.811 1.906 0.320
ENSG00000058729 E018 0.7990684 0.0170434888 4.114938e-01   5 97182801 97183125 325 - 0.183 0.341 1.190
ENSG00000058729 E019 72.2883537 1.3218312099 5.274081e-01 7.201635e-01 5 97183126 97183247 122 - 1.757 1.892 0.457