ENSG00000178904

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
ENST00000342179 ENSG00000178904 HEK293_OSMI2_2hA HEK293_TMG_2hB DPY19L3 protein_coding protein_coding 7.588568 3.285445 13.59908 0.3881815 0.5721156 2.046025 0.9217696 0.12363135 2.23977582 0.12363135 0.07897815 4.073451 0.10119583 0.03206667 0.165833333 0.13376667 1.117217e-01 2.895765e-07 FALSE TRUE
ENST00000392250 ENSG00000178904 HEK293_OSMI2_2hA HEK293_TMG_2hB DPY19L3 protein_coding protein_coding 7.588568 3.285445 13.59908 0.3881815 0.5721156 2.046025 2.6520289 0.43598854 5.59293080 0.21842929 0.07261702 3.651103 0.25424583 0.14793333 0.413000000 0.26506667 3.583459e-01 2.895765e-07 FALSE TRUE
ENST00000592142 ENSG00000178904 HEK293_OSMI2_2hA HEK293_TMG_2hB DPY19L3 protein_coding retained_intron 7.588568 3.285445 13.59908 0.3881815 0.5721156 2.046025 0.8098798 0.20710314 1.57771279 0.03224855 0.12464712 2.870497 0.09754167 0.06270000 0.115900000 0.05320000 9.819899e-02 2.895765e-07 FALSE TRUE
ENST00000592503 ENSG00000178904 HEK293_OSMI2_2hA HEK293_TMG_2hB DPY19L3 protein_coding processed_transcript 7.588568 3.285445 13.59908 0.3881815 0.5721156 2.046025 0.6445624 0.08396113 1.61106150 0.08396113 0.80617318 4.108731 0.08005417 0.02176667 0.113700000 0.09193333 6.514846e-01 2.895765e-07 FALSE FALSE
ENST00000592832 ENSG00000178904 HEK293_OSMI2_2hA HEK293_TMG_2hB DPY19L3 protein_coding nonsense_mediated_decay 7.588568 3.285445 13.59908 0.3881815 0.5721156 2.046025 0.3915773 0.00000000 0.83748874 0.00000000 0.44089518 6.405122 0.03432083 0.00000000 0.063800000 0.06380000 4.045636e-01 2.895765e-07 TRUE FALSE
ENST00000608291 ENSG00000178904 HEK293_OSMI2_2hA HEK293_TMG_2hB DPY19L3 protein_coding retained_intron 7.588568 3.285445 13.59908 0.3881815 0.5721156 2.046025 0.8629467 1.84487227 0.06185112 0.30428846 0.06185112 -4.690165 0.24150417 0.55446667 0.004966667 -0.54950000 2.895765e-07 2.895765e-07 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_TMG_2hB HEK293_OSMI2_2hA log2fold_HEK293_OSMI2_2hA_HEK293_TMG_2hB
ENSG00000178904 E001 0.0000000       19 32405543 32405748 206 +      
ENSG00000178904 E002 1.0265905 0.2861514323 3.660909e-01 5.104273e-01 19 32405749 32405769 21 + 0.292 0.000 -10.165
ENSG00000178904 E003 2.8272295 0.0405023632 4.859043e-01 6.237294e-01 19 32405770 32405781 12 + 0.523 0.405 -0.598
ENSG00000178904 E004 16.9875672 0.0109485621 1.372378e-02 3.759459e-02 19 32405782 32405859 78 + 1.184 0.900 -1.038
ENSG00000178904 E005 16.3650567 0.0071452498 1.301540e-01 2.343825e-01 19 32405860 32405879 20 + 1.151 1.011 -0.508
ENSG00000178904 E006 16.1310397 0.0095226922 8.651814e-02 1.698314e-01 19 32405880 32405909 30 + 1.151 0.977 -0.633
ENSG00000178904 E007 3.8386203 0.0040796349 4.186844e-02 9.447966e-02 19 32406125 32406188 64 + 0.647 0.248 -2.154
ENSG00000178904 E008 6.3644573 0.0025211868 1.560465e-02 4.185610e-02 19 32406189 32406302 114 + 0.821 0.405 -1.868
ENSG00000178904 E009 39.6228872 0.0005486299 6.349712e-03 1.953227e-02 19 32408217 32408356 140 + 1.520 1.354 -0.573
ENSG00000178904 E010 28.9167807 0.0007177178 7.721740e-02 1.550297e-01 19 32411239 32411372 134 + 1.381 1.273 -0.378
ENSG00000178904 E011 7.1740626 0.0024254915 2.155797e-14 6.752799e-13 19 32411373 32413187 1815 + 0.445 1.383 3.696
ENSG00000178904 E012 1.0245262 0.2508660782 5.128700e-01 6.477576e-01 19 32427997 32428061 65 + 0.226 0.399 1.139
ENSG00000178904 E013 20.3340809 0.0044479194 3.127922e-04 1.431757e-03 19 32432716 32432806 91 + 1.266 0.856 -1.496
ENSG00000178904 E014 22.2985915 0.0008415111 2.498076e-03 8.757458e-03 19 32436446 32436567 122 + 1.294 1.011 -1.012
ENSG00000178904 E015 36.1466145 0.0007002425 2.448332e-05 1.488844e-04 19 32437194 32437339 146 + 1.502 1.173 -1.147
ENSG00000178904 E016 3.1896947 0.0501726034 8.241979e-01 8.892561e-01 19 32438979 32439111 133 + 0.540 0.521 -0.090
ENSG00000178904 E017 17.2424916 0.0010529020 1.371641e-02 3.757656e-02 19 32439112 32439116 5 + 1.188 0.940 -0.902
ENSG00000178904 E018 41.0621061 0.0005658482 1.755966e-02 4.617491e-02 19 32439117 32439216 100 + 1.529 1.397 -0.456
ENSG00000178904 E019 26.1616839 0.0025138184 1.285652e-01 2.321624e-01 19 32439217 32439235 19 + 1.334 1.236 -0.345
ENSG00000178904 E020 27.6521690 0.0007242075 2.131418e-01 3.422494e-01 19 32439776 32439819 44 + 1.353 1.290 -0.219
ENSG00000178904 E021 35.9520207 0.0005719828 2.044383e-03 7.363579e-03 19 32439820 32439910 91 + 1.485 1.273 -0.734
ENSG00000178904 E022 37.9697367 0.0005512831 1.437621e-02 3.908009e-02 19 32453145 32453276 132 + 1.500 1.354 -0.503
ENSG00000178904 E023 29.9034456 0.0007087300 8.788358e-03 2.575414e-02 19 32454939 32455040 102 + 1.405 1.216 -0.664
ENSG00000178904 E024 0.1515154 0.0432593892 1.000000e+00   19 32458098 32458099 2 + 0.056 0.000 -9.958
ENSG00000178904 E025 27.2114450 0.0006966912 2.083585e-02 5.324246e-02 19 32458100 32458173 74 + 1.364 1.195 -0.593
ENSG00000178904 E026 22.3949509 0.0008051844 5.202208e-03 1.648092e-02 19 32458351 32458403 53 + 1.294 1.042 -0.897
ENSG00000178904 E027 32.5272410 0.0006022211 7.938179e-06 5.395609e-05 19 32458404 32458468 65 + 1.458 1.072 -1.360
ENSG00000178904 E028 30.6408888 0.0006955966 1.033783e-04 5.376915e-04 19 32458469 32458509 41 + 1.428 1.099 -1.157
ENSG00000178904 E029 53.0044997 0.0004793074 2.001183e-04 9.642355e-04 19 32463366 32463488 123 + 1.647 1.435 -0.726
ENSG00000178904 E030 49.5992727 0.0004980645 3.477075e-04 1.571040e-03 19 32463869 32463980 112 + 1.619 1.410 -0.719
ENSG00000178904 E031 34.0325261 0.0006282030 3.162501e-04 1.445698e-03 19 32464728 32464784 57 + 1.469 1.195 -0.955
ENSG00000178904 E032 10.3561096 0.0088112914 8.787887e-01 9.261504e-01 19 32467474 32467626 153 + 0.946 1.010 0.239
ENSG00000178904 E033 28.2836491 0.0006859761 1.605432e-01 2.758553e-01 19 32467627 32468730 1104 + 1.366 1.290 -0.264
ENSG00000178904 E034 37.3160979 0.0006068291 2.904689e-02 7.009637e-02 19 32468731 32468813 83 + 1.492 1.369 -0.427
ENSG00000178904 E035 0.7425998 0.0558718220 2.374990e-01 3.712566e-01 19 32468990 32469119 130 + 0.150 0.404 1.896
ENSG00000178904 E036 1.1845729 0.1846863538 1.380167e-01 2.453122e-01 19 32477483 32477521 39 + 0.190 0.525 2.094
ENSG00000178904 E037 40.9598173 0.0005417969 6.526767e-02 1.354850e-01 19 32477522 32477654 133 + 1.524 1.435 -0.305
ENSG00000178904 E038 43.1543687 0.0227091805 1.723621e-01 2.912785e-01 19 32480399 32480557 159 + 1.548 1.447 -0.345
ENSG00000178904 E039 0.6060617 0.9206331055 1.000000e+00 1.000000e+00 19 32480705 32480756 52 + 0.192 0.000 -10.846
ENSG00000178904 E040 2.2228182 0.0135339845 7.441724e-01 8.325914e-01 19 32481041 32481138 98 + 0.423 0.520 0.487
ENSG00000178904 E041 3.1398253 0.0047569547 9.598270e-02 1.843518e-01 19 32481139 32481940 802 + 0.574 0.248 -1.831
ENSG00000178904 E042 631.2764850 0.0010772882 3.245249e-50 2.009159e-47 19 32482079 32485895 3817 + 2.624 2.891 0.889