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_OSMI2_2hA HEK293_TMG_2hB SRP14 protein_coding protein_coding 216.3133 261.5115 195.6992 36.25905 1.936039 -0.4182183 65.49911 72.89689 70.63344 7.016382 1.229725 -0.04549955 0.3094458 0.2824667 0.3611 0.07863333 0.01638924 0.01638924 FALSE TRUE
ENST00000558720 ENSG00000140319 HEK293_OSMI2_2hA HEK293_TMG_2hB SRP14 protein_coding protein_coding 216.3133 261.5115 195.6992 36.25905 1.936039 -0.4182183 51.62737 72.16644 32.06682 15.814870 3.627717 -1.16999689 0.2330375 0.2694000 0.1636 -0.10580000 0.02378103 0.01638924 FALSE FALSE
MSTRG.10538.3 ENSG00000140319 HEK293_OSMI2_2hA HEK293_TMG_2hB SRP14 protein_coding   216.3133 261.5115 195.6992 36.25905 1.936039 -0.4182183 92.97585 111.17200 88.65944 14.349753 2.402198 -0.32641440 0.4282042 0.4261667 0.4532 0.02703333 0.56048813 0.01638924 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
ENSG00000140319 E001 106.772310 3.446046e-03 3.915071e-01 5.354222e-01 15 40035690 40036040 351 - 2.047 2.000 -0.155
ENSG00000140319 E002 67.082120 3.830446e-04 1.885485e-01 3.119075e-01 15 40036041 40036041 1 - 1.785 1.842 0.193
ENSG00000140319 E003 1318.556026 9.466667e-05 8.008136e-18 3.982981e-16 15 40036042 40036242 201 - 3.052 3.140 0.293
ENSG00000140319 E004 940.619809 2.843535e-04 2.466636e-07 2.322780e-06 15 40036243 40036253 11 - 2.918 2.986 0.228
ENSG00000140319 E005 1082.152745 3.358991e-04 4.298184e-11 8.065354e-10 15 40036254 40036303 50 - 2.966 3.052 0.287
ENSG00000140319 E006 2254.687084 3.565958e-04 2.437236e-03 8.573204e-03 15 40036304 40036500 197 - 3.323 3.348 0.083
ENSG00000140319 E007 7.498062 1.083315e-02 5.103992e-01 6.456182e-01 15 40036688 40036985 298 - 0.973 0.895 -0.293
ENSG00000140319 E008 1370.403044 7.334888e-05 9.963702e-02 1.899274e-01 15 40036986 40037018 33 - 3.139 3.120 -0.063
ENSG00000140319 E009 21.743260 3.399754e-03 2.961197e-01 4.373031e-01 15 40037309 40037348 40 - 1.288 1.366 0.274
ENSG00000140319 E010 17.497625 4.554329e-03 8.184752e-01 8.852648e-01 15 40037349 40037355 7 - 1.240 1.254 0.048
ENSG00000140319 E011 881.513678 1.407966e-04 9.375594e-02 1.809952e-01 15 40038282 40038284 3 - 2.950 2.926 -0.082
ENSG00000140319 E012 2298.666048 9.994277e-05 1.796876e-08 2.112921e-07 15 40038285 40038394 110 - 3.381 3.331 -0.165
ENSG00000140319 E013 3.838565 8.939847e-02 3.113644e-01 4.538128e-01 15 40038395 40038523 129 - 0.793 0.591 -0.846
ENSG00000140319 E014 5.542191 4.576605e-03 7.969754e-03 2.370133e-02 15 40038524 40038875 352 - 0.991 0.648 -1.353
ENSG00000140319 E015 1787.033066 9.487527e-04 1.885843e-03 6.870391e-03 15 40038876 40038948 73 - 3.275 3.212 -0.209
ENSG00000140319 E016 4.815272 3.537393e-03 6.634825e-03 2.027564e-02 15 40038949 40039050 102 - 0.954 0.592 -1.458
ENSG00000140319 E017 1290.343891 6.589315e-04 7.353697e-08 7.664279e-07 15 40039093 40039214 122 - 3.153 3.061 -0.305