ENSG00000167004

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
ENST00000300289 ENSG00000167004 HEK293_OSMI2_2hA HEK293_TMG_2hB PDIA3 protein_coding protein_coding 398.205 273.5212 572.5016 16.97443 18.83434 1.0656 112.00321 93.8783629 148.81467 6.7783233 3.091601 0.6645954 0.29304583 0.343166667 0.2602000 -0.08296667 4.690469e-05 4.199027e-36 FALSE TRUE
ENST00000455250 ENSG00000167004 HEK293_OSMI2_2hA HEK293_TMG_2hB PDIA3 protein_coding nonsense_mediated_decay 398.205 273.5212 572.5016 16.97443 18.83434 1.0656 25.60533 0.5628459 67.69485 0.5628459 9.001176 6.8849683 0.04597917 0.002333333 0.1195333 0.11720000 5.035785e-03 4.199027e-36 FALSE FALSE
ENST00000686374 ENSG00000167004 HEK293_OSMI2_2hA HEK293_TMG_2hB PDIA3 protein_coding retained_intron 398.205 273.5212 572.5016 16.97443 18.83434 1.0656 124.74187 114.2323674 142.46279 7.8201190 18.465722 0.3185887 0.34067917 0.417466667 0.2473000 -0.17016667 2.877602e-04 4.199027e-36 FALSE FALSE
ENST00000686929 ENSG00000167004 HEK293_OSMI2_2hA HEK293_TMG_2hB PDIA3 protein_coding protein_coding 398.205 273.5212 572.5016 16.97443 18.83434 1.0656 130.34945 62.6955315 202.77142 6.5701992 7.356127 1.6932609 0.30756250 0.229200000 0.3541333 0.12493333 2.240459e-04 4.199027e-36 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
ENSG00000167004 E001 6.1749692 8.049571e-02 2.415845e-01 3.760525e-01 15 43746394 43746404 11 + 0.941 0.707 -0.916
ENSG00000167004 E002 8.8804448 5.528003e-02 1.986204e-01 3.244608e-01 15 43746405 43746407 3 + 1.073 0.855 -0.811
ENSG00000167004 E003 9.2136646 7.048527e-02 2.588976e-01 3.962272e-01 15 43746408 43746409 2 + 1.082 0.880 -0.753
ENSG00000167004 E004 12.5340484 6.944447e-02 8.704345e-02 1.706610e-01 15 43746410 43746422 13 + 1.230 0.944 -1.034
ENSG00000167004 E005 14.1799377 7.219746e-02 4.735414e-02 1.044597e-01 15 43746423 43746424 2 + 1.291 0.964 -1.174
ENSG00000167004 E006 19.3148804 4.703933e-02 1.769571e-03 6.502281e-03 15 43746425 43746427 3 + 1.443 1.003 -1.560
ENSG00000167004 E007 41.3173788 6.952925e-03 1.312273e-07 1.303514e-06 15 43746428 43746436 9 + 1.753 1.351 -1.375
ENSG00000167004 E008 42.8641910 4.486639e-03 2.301230e-08 2.652154e-07 15 43746437 43746437 1 + 1.766 1.374 -1.340
ENSG00000167004 E009 48.0688611 8.148992e-03 5.733866e-08 6.099521e-07 15 43746438 43746438 1 + 1.818 1.410 -1.391
ENSG00000167004 E010 64.0326186 1.259162e-02 2.221239e-08 2.567306e-07 15 43746439 43746441 3 + 1.948 1.509 -1.489
ENSG00000167004 E011 114.8465117 1.034689e-02 7.237611e-12 1.541834e-10 15 43746442 43746447 6 + 2.202 1.746 -1.531
ENSG00000167004 E012 132.7681680 1.358950e-02 4.590892e-10 7.237502e-09 15 43746448 43746448 1 + 2.262 1.817 -1.493
ENSG00000167004 E013 229.4426455 1.898218e-02 9.180292e-10 1.370511e-08 15 43746449 43746451 3 + 2.504 2.031 -1.583
ENSG00000167004 E014 234.9202582 1.758971e-02 1.705570e-10 2.892963e-09 15 43746452 43746452 1 + 2.515 2.037 -1.597
ENSG00000167004 E015 404.6317326 2.091877e-02 1.402704e-10 2.414704e-09 15 43746453 43746483 31 + 2.755 2.253 -1.674
ENSG00000167004 E016 697.1691599 1.519686e-02 3.642911e-08 4.033580e-07 15 43746484 43746570 87 + 2.961 2.597 -1.212
ENSG00000167004 E017 1448.3477735 5.556071e-03 1.498341e-11 3.032329e-10 15 43746571 43746706 136 + 3.254 2.982 -0.902
ENSG00000167004 E018 0.0000000       15 43750201 43750446 246 +      
ENSG00000167004 E019 0.5891098 1.839330e-02 1.058242e-01 1.993386e-01 15 43751189 43751505 317 + 0.307 0.000 -11.699
ENSG00000167004 E020 0.0000000       15 43751506 43751583 78 +      
ENSG00000167004 E021 0.6633060 2.328007e-02 5.994059e-01 7.208052e-01 15 43751584 43751758 175 + 0.248 0.150 -0.902
ENSG00000167004 E022 0.1515154 4.280317e-02 7.843080e-01   15 43752802 43752946 145 + 0.099 0.000 -9.700
ENSG00000167004 E023 1380.8760437 1.843389e-03 1.538991e-10 2.630693e-09 15 43753824 43753902 79 + 3.200 3.036 -0.543
ENSG00000167004 E024 1.5102936 8.909008e-03 2.267262e-01 3.584850e-01 15 43756628 43756648 21 + 0.485 0.261 -1.320
ENSG00000167004 E025 1794.9289893 1.087454e-03 5.948644e-08 6.311864e-07 15 43756649 43756766 118 + 3.295 3.183 -0.374
ENSG00000167004 E026 10.6184485 6.345791e-03 6.661148e-01 7.736329e-01 15 43756767 43759996 3230 + 1.090 1.036 -0.198
ENSG00000167004 E027 2102.9650644 3.843183e-04 4.324513e-12 9.551894e-11 15 43761424 43761531 108 + 3.359 3.262 -0.321
ENSG00000167004 E028 2.0754554 7.167821e-03 1.892513e-01 3.127942e-01 15 43761532 43762181 650 + 0.583 0.349 -1.196
ENSG00000167004 E029 2071.6570127 2.150277e-04 1.220801e-09 1.779328e-08 15 43763077 43763151 75 + 3.345 3.270 -0.249
ENSG00000167004 E030 2169.7729681 1.019591e-03 2.552429e-05 1.544149e-04 15 43763152 43763206 55 + 3.368 3.282 -0.287
ENSG00000167004 E031 0.0000000       15 43765435 43765449 15 +      
ENSG00000167004 E032 2869.2888196 7.788825e-04 2.244247e-05 1.375452e-04 15 43765450 43765566 117 + 3.486 3.410 -0.252
ENSG00000167004 E033 0.8136886 1.719874e-01 9.278375e-01 9.585776e-01 15 43765567 43765886 320 + 0.249 0.262 0.098
ENSG00000167004 E034 2892.4257239 3.948828e-04 7.490920e-01 8.361340e-01 15 43765887 43766012 126 + 3.466 3.449 -0.054
ENSG00000167004 E035 3101.1493734 1.397903e-04 3.542572e-02 8.247267e-02 15 43766728 43766910 183 + 3.487 3.493 0.019
ENSG00000167004 E036 3.9575862 4.048661e-03 3.151661e-01 4.579235e-01 15 43766911 43767522 612 + 0.638 0.774 0.564
ENSG00000167004 E037 2281.3608505 2.497963e-04 2.783943e-06 2.099226e-05 15 43768489 43768597 109 + 3.340 3.376 0.121
ENSG00000167004 E038 2.5863287 1.195376e-02 7.700196e-02 1.546890e-01 15 43768598 43769496 899 + 0.663 0.349 -1.542
ENSG00000167004 E039 2.4701078 9.126958e-03 2.773483e-02 6.748804e-02 15 43769497 43769517 21 + 0.359 0.709 1.679
ENSG00000167004 E040 1036.9157448 8.816689e-05 3.718708e-07 3.375164e-06 15 43769518 43769521 4 + 2.992 3.042 0.166
ENSG00000167004 E041 2438.6607549 3.598775e-04 1.887411e-18 1.005524e-16 15 43769522 43769646 125 + 3.345 3.432 0.287
ENSG00000167004 E042 2.6391162 4.444524e-02 5.067671e-01 6.424287e-01 15 43769647 43770249 603 + 0.520 0.631 0.502
ENSG00000167004 E043 1360.7045390 8.320938e-05 5.094208e-41 1.866697e-38 15 43770250 43770254 5 + 3.073 3.202 0.429
ENSG00000167004 E044 2485.8256952 5.022808e-04 3.574527e-20 2.322303e-18 15 43770255 43770329 75 + 3.345 3.449 0.346
ENSG00000167004 E045 8.9491458 2.242376e-03 2.920397e-02 7.039655e-02 15 43770330 43770522 193 + 0.886 1.112 0.837
ENSG00000167004 E046 2246.5788550 9.425443e-04 7.274526e-15 2.448715e-13 15 43770523 43770571 49 + 3.296 3.410 0.379
ENSG00000167004 E047 1526.1229380 8.232211e-04 4.587226e-16 1.810492e-14 15 43770572 43770580 9 + 3.125 3.246 0.404
ENSG00000167004 E048 7.8755333 4.505855e-03 4.020018e-01 5.457089e-01 15 43770581 43771085 505 + 0.914 1.002 0.330
ENSG00000167004 E049 1.2230687 2.579608e-02 9.751194e-01 9.885084e-01 15 43771086 43771104 19 + 0.359 0.349 -0.061
ENSG00000167004 E050 4400.8890546 2.033132e-03 1.107069e-11 2.289889e-10 15 43771105 43773279 2175 + 3.580 3.708 0.427