ENSG00000154359

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
ENST00000398246 ENSG00000154359 HEK293_OSMI2_2hA HEK293_TMG_2hB LONRF1 protein_coding protein_coding 3.96353 1.757988 6.548397 0.1556748 0.3804037 1.891235 1.9993296 0.7512943 3.962713 0.12879922 0.1993867 2.383598 0.4865083 0.4286667 0.6085333 0.1798667 1.760480e-01 2.605864e-12 FALSE TRUE
ENST00000524526 ENSG00000154359 HEK293_OSMI2_2hA HEK293_TMG_2hB LONRF1 protein_coding protein_coding 3.96353 1.757988 6.548397 0.1556748 0.3804037 1.891235 1.0075605 0.1466633 2.189503 0.06852845 0.2586276 3.811438 0.2007292 0.0842000 0.3320000 0.2478000 1.181940e-03 2.605864e-12 FALSE TRUE
ENST00000526680 ENSG00000154359 HEK293_OSMI2_2hA HEK293_TMG_2hB LONRF1 protein_coding nonsense_mediated_decay 3.96353 1.757988 6.548397 0.1556748 0.3804037 1.891235 0.5938754 0.8600304 0.000000 0.21683319 0.0000000 -6.442994 0.2276125 0.4871333 0.0000000 -0.4871333 2.605864e-12 2.605864e-12 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
ENSG00000154359 E001 87.7948578 0.0025503546 1.884347e-12 4.414294e-11 8 12721906 12722757 852 - 1.801 2.096 0.989
ENSG00000154359 E002 34.9572041 0.0006639216 1.724636e-01 2.914058e-01 8 12722758 12722930 173 - 1.488 1.580 0.315
ENSG00000154359 E003 19.0013613 0.0009807864 9.483212e-01 9.715684e-01 8 12722931 12722943 13 - 1.258 1.271 0.045
ENSG00000154359 E004 20.0353267 0.0015569610 6.186609e-01 7.362349e-01 8 12722944 12722970 27 - 1.292 1.257 -0.123
ENSG00000154359 E005 18.3350235 0.0010099941 5.640219e-01 6.914169e-01 8 12722971 12722980 10 - 1.258 1.214 -0.154
ENSG00000154359 E006 41.5208035 0.0005387544 8.709669e-01 9.210403e-01 8 12722981 12723254 274 - 1.582 1.599 0.058
ENSG00000154359 E007 30.0099006 0.0007312920 7.190263e-01 8.139719e-01 8 12725727 12725879 153 - 1.452 1.435 -0.061
ENSG00000154359 E008 0.3686942 0.0315626691 4.185882e-01 5.618395e-01 8 12725880 12725998 119 - 0.074 0.196 1.618
ENSG00000154359 E009 40.9218607 0.0006184033 2.487337e-02 6.161169e-02 8 12728901 12729063 163 - 1.611 1.478 -0.454
ENSG00000154359 E010 40.8016847 0.0005409197 2.975019e-02 7.146858e-02 8 12729174 12729332 159 - 1.613 1.486 -0.434
ENSG00000154359 E011 0.0000000       8 12729333 12729387 55 -      
ENSG00000154359 E012 31.5088653 0.0007029443 7.505937e-02 1.516339e-01 8 12731736 12731857 122 - 1.503 1.386 -0.404
ENSG00000154359 E013 23.3556489 0.0037335014 1.037474e-01 1.962186e-01 8 12735286 12735400 115 - 1.378 1.244 -0.469
ENSG00000154359 E014 0.5848434 0.0220891137 2.873609e-01 4.278637e-01 8 12735401 12735626 226 - 0.241 0.000 -10.137
ENSG00000154359 E015 0.0000000       8 12736699 12736700 2 -      
ENSG00000154359 E016 15.0951704 0.0013435793 1.209644e-01 2.213198e-01 8 12736701 12736764 64 - 1.201 1.051 -0.537
ENSG00000154359 E017 7.1538021 0.0023932377 3.916896e-01 5.356250e-01 8 12736765 12736797 33 - 0.897 0.787 -0.424
ENSG00000154359 E018 37.2808656 0.0006052782 1.281010e-01 2.315218e-01 8 12736900 12737140 241 - 1.560 1.470 -0.311
ENSG00000154359 E019 0.1472490 0.0446718021 1.000000e+00   8 12737272 12737360 89 - 0.074 0.000 -8.137
ENSG00000154359 E020 18.5479370 0.0108317087 9.833160e-01 9.936441e-01 8 12737995 12738028 34 - 1.244 1.245 0.001
ENSG00000154359 E021 24.3195922 0.0023855358 7.445637e-01 8.328533e-01 8 12738029 12738144 116 - 1.364 1.344 -0.070
ENSG00000154359 E022 0.0000000       8 12738634 12738766 133 -      
ENSG00000154359 E023 17.3774680 0.0011844018 3.488660e-01 4.930849e-01 8 12740874 12740996 123 - 1.196 1.284 0.311
ENSG00000154359 E024 10.5214774 0.0027181996 9.867429e-01 9.957716e-01 8 12743164 12743282 119 - 1.021 1.029 0.029
ENSG00000154359 E025 1.6094714 0.0763724207 3.743092e-02 8.627784e-02 8 12753026 12754342 1317 - 0.483 0.000 -11.594
ENSG00000154359 E026 22.5446058 0.0009651855 6.009187e-03 1.863517e-02 8 12754700 12755526 827 - 1.381 1.149 -0.816
ENSG00000154359 E027 0.0000000       8 12755924 12756073 150 -