ENSG00000116478

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
ENST00000373548 ENSG00000116478 HEK293_OSMI2_2hA HEK293_TMG_2hB HDAC1 protein_coding protein_coding 214.0984 233.5092 194.2609 27.60669 0.8959458 -0.2654712 170.70365 207.517233 150.50369 26.4142008 2.2788225 -0.4634060 0.79255833 0.886433333 0.77466667 -0.11176667 2.144314e-06 1.073736e-07 FALSE TRUE
ENST00000463172 ENSG00000116478 HEK293_OSMI2_2hA HEK293_TMG_2hB HDAC1 protein_coding processed_transcript 214.0984 233.5092 194.2609 27.60669 0.8959458 -0.2654712 11.10907 2.089421 12.50301 1.0637250 0.3886996 2.5753654 0.05382083 0.009866667 0.06436667 0.05450000 2.959042e-01 1.073736e-07 FALSE TRUE
ENST00000476391 ENSG00000116478 HEK293_OSMI2_2hA HEK293_TMG_2hB HDAC1 protein_coding retained_intron 214.0984 233.5092 194.2609 27.60669 0.8959458 -0.2654712 15.21660 9.896172 14.11269 0.7907698 0.4136625 0.5116156 0.07276667 0.043833333 0.07270000 0.02886667 5.043715e-02 1.073736e-07 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
ENSG00000116478 E001 1.252313 1.312543e-01 9.642076e-01 9.814381e-01 1 32292012 32292069 58 + 0.336 0.324 -0.075
ENSG00000116478 E002 1.427674 1.745165e-01 8.342138e-01 8.961865e-01 1 32292070 32292078 9 + 0.336 0.379 0.257
ENSG00000116478 E003 3.156290 1.322412e-01 8.895380e-01 9.333801e-01 1 32292079 32292082 4 + 0.614 0.581 -0.145
ENSG00000116478 E004 3.486288 7.432680e-02 8.874595e-01 9.320627e-01 1 32292083 32292084 2 + 0.614 0.636 0.095
ENSG00000116478 E005 6.017896 4.132000e-02 7.764546e-01 8.560490e-01 1 32292085 32292091 7 + 0.859 0.811 -0.185
ENSG00000116478 E006 131.540710 3.496136e-03 4.278238e-07 3.835412e-06 1 32292092 32292134 43 + 2.228 2.019 -0.702
ENSG00000116478 E007 157.954924 5.173615e-03 2.242354e-06 1.725456e-05 1 32292135 32292136 2 + 2.308 2.096 -0.710
ENSG00000116478 E008 179.693712 4.196073e-03 1.778056e-06 1.398519e-05 1 32292137 32292139 3 + 2.356 2.160 -0.653
ENSG00000116478 E009 405.431127 1.255424e-03 2.326702e-06 1.784417e-05 1 32292140 32292160 21 + 2.663 2.552 -0.367
ENSG00000116478 E010 710.299323 6.171078e-04 1.331278e-06 1.076671e-05 1 32292161 32292218 58 + 2.888 2.809 -0.264
ENSG00000116478 E011 1422.627340 2.390350e-04 9.765436e-09 1.206490e-07 1 32302621 32302733 113 + 3.178 3.119 -0.195
ENSG00000116478 E012 1695.171777 1.216541e-03 4.446645e-05 2.536596e-04 1 32316665 32316782 118 + 3.259 3.188 -0.237
ENSG00000116478 E013 1370.870625 5.517818e-04 1.048079e-03 4.125741e-03 1 32324479 32324553 75 + 3.151 3.110 -0.136
ENSG00000116478 E014 1668.123744 3.270425e-04 2.131117e-05 1.312912e-04 1 32326939 32327077 139 + 3.238 3.194 -0.144
ENSG00000116478 E015 53.782236 4.421224e-04 5.362649e-23 4.756263e-21 1 32327078 32327188 111 + 1.959 1.494 -1.575
ENSG00000116478 E016 41.187350 5.298623e-04 9.884095e-21 6.924971e-19 1 32327189 32327273 85 + 1.859 1.357 -1.712
ENSG00000116478 E017 45.208730 4.995678e-04 1.418616e-23 1.337077e-21 1 32327274 32327405 132 + 1.903 1.387 -1.757
ENSG00000116478 E018 27.914291 6.751423e-03 2.456584e-10 4.050061e-09 1 32327406 32327458 53 + 1.682 1.204 -1.653
ENSG00000116478 E019 26.033789 9.005375e-03 6.314615e-08 6.666768e-07 1 32327459 32327535 77 + 1.638 1.203 -1.504
ENSG00000116478 E020 1667.454359 8.647133e-05 6.522689e-05 3.570469e-04 1 32327536 32327677 142 + 3.229 3.203 -0.089
ENSG00000116478 E021 1466.535005 8.313333e-04 1.340762e-03 5.112480e-03 1 32329068 32329160 93 + 3.183 3.135 -0.158
ENSG00000116478 E022 254.776750 1.277566e-02 8.078640e-08 8.355941e-07 1 32329480 32330148 669 + 2.568 2.244 -1.080
ENSG00000116478 E023 196.837715 1.654300e-02 9.781212e-05 5.117995e-04 1 32330149 32330577 429 + 2.430 2.161 -0.900
ENSG00000116478 E024 1446.182845 5.998060e-05 2.233438e-01 3.543806e-01 1 32330578 32330662 85 + 3.151 3.151 -0.001
ENSG00000116478 E025 936.025830 7.696302e-05 7.783250e-01 8.573487e-01 1 32330663 32330686 24 + 2.953 2.969 0.052
ENSG00000116478 E026 1995.890733 1.926950e-04 2.095871e-02 5.350445e-02 1 32330768 32330908 141 + 3.269 3.301 0.109
ENSG00000116478 E027 1487.495757 6.828837e-04 3.282660e-01 4.717543e-01 1 32331474 32331535 62 + 3.146 3.168 0.073
ENSG00000116478 E028 1420.173353 6.351404e-04 5.675579e-02 1.210412e-01 1 32331536 32331582 47 + 3.117 3.154 0.126
ENSG00000116478 E029 2066.626750 2.467049e-04 1.740215e-05 1.094296e-04 1 32331676 32331806 131 + 3.269 3.324 0.182
ENSG00000116478 E030 28.844552 2.291088e-02 1.249344e-01 2.270332e-01 1 32331807 32332089 283 + 1.548 1.394 -0.529
ENSG00000116478 E031 2072.522509 7.794058e-05 1.025313e-13 2.911308e-12 1 32332090 32332242 153 + 3.258 3.334 0.254
ENSG00000116478 E032 908.211137 1.345457e-03 3.223328e-02 7.630302e-02 1 32332701 32332703 3 + 2.913 2.964 0.170
ENSG00000116478 E033 1070.806886 9.683293e-04 4.080506e-05 2.347382e-04 1 32332704 32332749 46 + 2.963 3.047 0.278
ENSG00000116478 E034 2934.805698 1.219521e-03 7.177090e-31 1.282715e-28 1 32333017 32333635 619 + 3.312 3.518 0.683