ENSG00000060656

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
ENST00000373779 ENSG00000060656 HEK293_OSMI2_2hA HEK293_TMG_2hB PTPRU protein_coding protein_coding 68.83277 112.1532 41.07352 3.292899 1.254211 -1.448967 27.057044 30.00364 22.561562 3.707169 0.8556789 -0.4111119 0.4351875 0.2666333 0.54906667 0.2824333 2.619451e-08 1.633836e-12 FALSE TRUE
ENST00000428026 ENSG00000060656 HEK293_OSMI2_2hA HEK293_TMG_2hB PTPRU protein_coding protein_coding 68.83277 112.1532 41.07352 3.292899 1.254211 -1.448967 12.629601 19.37589 9.055318 2.206718 1.1641409 -1.0965771 0.1976667 0.1719000 0.22250000 0.0506000 5.751979e-01 1.633836e-12 FALSE TRUE
ENST00000492954 ENSG00000060656 HEK293_OSMI2_2hA HEK293_TMG_2hB PTPRU protein_coding retained_intron 68.83277 112.1532 41.07352 3.292899 1.254211 -1.448967 14.788876 39.28445 1.115862 5.089832 0.2780377 -5.1252233 0.1624792 0.3518000 0.02706667 -0.3247333 1.633836e-12 1.633836e-12 FALSE TRUE
ENST00000493601 ENSG00000060656 HEK293_OSMI2_2hA HEK293_TMG_2hB PTPRU protein_coding processed_transcript 68.83277 112.1532 41.07352 3.292899 1.254211 -1.448967 8.519391 17.65069 2.435495 2.333777 1.2331768 -2.8523437 0.1084833 0.1579000 0.05753333 -0.1003667 5.566052e-01 1.633836e-12 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
ENSG00000060656 E001 2.1841081 0.2111624947 1.133921e-02 3.197579e-02 1 29236516 29236521 6 + 0.786 0.228 -2.891
ENSG00000060656 E002 2.4055533 0.0849663367 6.869673e-03 2.088685e-02 1 29236522 29236522 1 + 0.786 0.284 -2.471
ENSG00000060656 E003 16.6040160 0.0180277879 8.114086e-14 2.337575e-12 1 29236523 29236548 26 + 1.592 0.813 -2.789
ENSG00000060656 E004 56.9291948 0.0272629606 1.456155e-07 1.433508e-06 1 29236549 29236638 90 + 1.991 1.529 -1.564
ENSG00000060656 E005 106.3099544 0.0121231914 4.388327e-08 4.785606e-07 1 29236639 29236717 79 + 2.193 1.863 -1.107
ENSG00000060656 E006 1.2846786 0.0126359288 8.262689e-01 8.906740e-01 1 29237984 29238061 78 + 0.285 0.331 0.304
ENSG00000060656 E007 229.6506823 0.0077778719 3.929831e-09 5.219031e-08 1 29255275 29255406 132 + 2.491 2.223 -0.896
ENSG00000060656 E008 393.3014681 0.0067633584 9.142098e-08 9.347202e-07 1 29258505 29258776 272 + 2.691 2.479 -0.706
ENSG00000060656 E009 193.3141182 0.0119588984 4.245617e-04 1.868512e-03 1 29259261 29259342 82 + 2.367 2.182 -0.619
ENSG00000060656 E010 193.7051528 0.0183753810 1.209827e-03 4.673984e-03 1 29259449 29259564 116 + 2.378 2.177 -0.669
ENSG00000060656 E011 202.3048625 0.0108284583 8.173935e-04 3.321922e-03 1 29259870 29260044 175 + 2.375 2.208 -0.555
ENSG00000060656 E012 0.4751703 0.0221230814 1.000000e+00 1.000000e+00 1 29260181 29260267 87 + 0.165 0.163 -0.023
ENSG00000060656 E013 388.8230884 0.0046221168 2.994224e-04 1.377247e-03 1 29260610 29260903 294 + 2.625 2.509 -0.388
ENSG00000060656 E014 587.6822941 0.0026942260 5.259605e-09 6.835069e-08 1 29275448 29275756 309 + 2.827 2.676 -0.503
ENSG00000060656 E015 340.6456591 0.0021146032 1.159040e-07 1.163999e-06 1 29279012 29279121 110 + 2.584 2.442 -0.474
ENSG00000060656 E016 388.3636721 0.0001396513 1.440630e-18 7.782239e-17 1 29279456 29279550 95 + 2.649 2.492 -0.523
ENSG00000060656 E017 394.6432523 0.0019172248 3.727823e-06 2.733386e-05 1 29279551 29279657 107 + 2.630 2.515 -0.384
ENSG00000060656 E018 351.1264121 0.0023848161 5.062278e-05 2.849347e-04 1 29280039 29280141 103 + 2.576 2.466 -0.364
ENSG00000060656 E019 540.0520343 0.0024736011 1.294909e-02 3.579280e-02 1 29282676 29282949 274 + 2.726 2.672 -0.180
ENSG00000060656 E020 9.7921831 0.0126074786 1.743159e-03 6.418337e-03 1 29283723 29283939 217 + 1.212 0.868 -1.263
ENSG00000060656 E021 253.4017554 0.0018754135 1.042566e-02 2.980668e-02 1 29283940 29283976 37 + 2.403 2.338 -0.218
ENSG00000060656 E022 439.1753401 0.0001600548 4.582497e-05 2.606323e-04 1 29284731 29284869 139 + 2.641 2.577 -0.214
ENSG00000060656 E023 1.5669862 0.0467781214 4.015112e-03 1.318423e-02 1 29289683 29289712 30 + 0.673 0.163 -3.022
ENSG00000060656 E024 486.8010529 0.0001528953 3.667330e-04 1.645465e-03 1 29291869 29292026 158 + 2.677 2.625 -0.171
ENSG00000060656 E025 491.2966627 0.0027934005 1.348765e-01 2.409310e-01 1 29303855 29304045 191 + 2.667 2.639 -0.093
ENSG00000060656 E026 318.9995800 0.0020034221 4.021680e-01 5.458891e-01 1 29304774 29304849 76 + 2.465 2.455 -0.031
ENSG00000060656 E027 336.3681172 0.0003104902 5.703628e-01 6.968543e-01 1 29305352 29305428 77 + 2.479 2.479 -0.001
ENSG00000060656 E028 0.1817044 0.0390637926 1.000000e+00   1 29307129 29307146 18 + 0.000 0.089 9.056
ENSG00000060656 E029 290.5188605 0.0001649836 1.067511e-01 2.007551e-01 1 29310744 29310780 37 + 2.435 2.410 -0.084
ENSG00000060656 E030 4.3116215 0.0036016113 3.426614e-04 1.550793e-03 1 29311346 29311455 110 + 0.971 0.485 -2.021
ENSG00000060656 E031 411.4164833 0.0001286676 2.248467e-03 7.993944e-03 1 29311456 29311544 89 + 2.600 2.554 -0.156
ENSG00000060656 E032 169.6709502 0.0002393620 1.048264e-05 6.937415e-05 1 29311545 29311553 9 + 2.263 2.146 -0.390
ENSG00000060656 E033 512.3127007 0.0003547912 4.434684e-02 9.901795e-02 1 29311643 29311759 117 + 2.681 2.656 -0.083
ENSG00000060656 E034 517.8434209 0.0003101667 6.289365e-01 7.443999e-01 1 29312552 29312706 155 + 2.652 2.673 0.072
ENSG00000060656 E035 501.1508279 0.0001386930 2.166736e-03 7.740703e-03 1 29315372 29315507 136 + 2.603 2.671 0.224
ENSG00000060656 E036 503.3898910 0.0008691028 4.400986e-04 1.928423e-03 1 29316002 29316151 150 + 2.588 2.682 0.310
ENSG00000060656 E037 206.3780611 0.0006072671 8.326109e-04 3.375468e-03 1 29317748 29317759 12 + 2.188 2.300 0.375
ENSG00000060656 E038 546.3153974 0.0001165544 1.212486e-12 2.936238e-11 1 29317760 29317921 162 + 2.589 2.726 0.457
ENSG00000060656 E039 11.7217603 0.0015320388 5.114981e-01 6.465204e-01 1 29320210 29320684 475 + 1.100 1.044 -0.205
ENSG00000060656 E040 579.3014375 0.0001586922 7.063569e-08 7.383425e-07 1 29320685 29320825 141 + 2.639 2.744 0.350
ENSG00000060656 E041 16.4011801 0.0010781492 2.430613e-01 3.777894e-01 1 29323218 29323370 153 + 1.259 1.168 -0.323
ENSG00000060656 E042 566.8629694 0.0001319638 2.878844e-11 5.561782e-10 1 29323371 29323496 126 + 2.613 2.741 0.424
ENSG00000060656 E043 285.1094108 0.0001795128 3.132757e-10 5.084309e-09 1 29323631 29323636 6 + 2.285 2.452 0.556
ENSG00000060656 E044 664.8908508 0.0010276676 8.306135e-12 1.751723e-10 1 29323637 29323788 152 + 2.656 2.820 0.546
ENSG00000060656 E045 770.7203873 0.0024218169 1.266107e-08 1.531380e-07 1 29325191 29325326 136 + 2.713 2.888 0.579
ENSG00000060656 E046 2574.5099929 0.0055654615 2.094989e-12 4.876989e-11 1 29325599 29326813 1215 + 3.177 3.427 0.831