ENSG00000139842

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
ENST00000375440 ENSG00000139842 HEK293_OSMI2_6hA HEK293_TMG_6hB CUL4A protein_coding protein_coding 22.25677 16.87772 21.46242 2.606838 0.05767667 0.3465103 2.838357 0.6108631 4.190595 0.6108631 1.3875643 2.7582467 0.1146333 0.0308 0.1951000 0.16430000 2.142089e-01 5.958798e-13 FALSE TRUE
ENST00000451881 ENSG00000139842 HEK293_OSMI2_6hA HEK293_TMG_6hB CUL4A protein_coding protein_coding 22.25677 16.87772 21.46242 2.606838 0.05767667 0.3465103 1.960450 1.7789245 2.743921 0.5417622 1.5340810 0.6223945 0.0983500 0.1130 0.1279667 0.01496667 1.000000e+00 5.958798e-13 FALSE TRUE
ENST00000488558 ENSG00000139842 HEK293_OSMI2_6hA HEK293_TMG_6hB CUL4A protein_coding protein_coding 22.25677 16.87772 21.46242 2.606838 0.05767667 0.3465103 10.926560 11.5792904 5.004267 2.2413662 0.1224112 -1.2086816 0.5071875 0.6763 0.2331333 -0.44316667 5.958798e-13 5.958798e-13 FALSE TRUE
MSTRG.9097.7 ENSG00000139842 HEK293_OSMI2_6hA HEK293_TMG_6hB CUL4A protein_coding   22.25677 16.87772 21.46242 2.606838 0.05767667 0.3465103 5.152665 1.9044552 8.287757 0.4124636 0.2693516 2.1157874 0.2161792 0.1123 0.3862000 0.27390000 9.573915e-10 5.958798e-13 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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000139842 E001 3.7226949 0.1011749728 6.295793e-02 2.093650e-01 13 113208193 113208607 415 + 0.495 0.871 1.596
ENSG00000139842 E002 0.1308682 0.0326491905 2.790246e-01   13 113208694 113208752 59 + 0.000 0.157 10.552
ENSG00000139842 E003 4.2898977 0.0064534182 1.781532e-02 8.841339e-02 13 113208772 113208835 64 + 0.560 0.901 1.402
ENSG00000139842 E004 4.9269303 0.0096723303 6.639729e-03 4.290145e-02 13 113208836 113208868 33 + 0.588 0.966 1.524
ENSG00000139842 E005 1.3971835 0.0138608213 7.098842e-02 2.266960e-01 13 113209600 113209612 13 + 0.235 0.557 1.858
ENSG00000139842 E006 1.8922016 0.0110121959 3.725617e-02 1.476225e-01 13 113209613 113209615 3 + 0.292 0.651 1.858
ENSG00000139842 E007 4.8198897 0.0054132902 9.955802e-04 9.880342e-03 13 113209616 113209629 14 + 0.531 0.986 1.861
ENSG00000139842 E008 43.3076142 0.0370511977 2.312076e-04 3.014987e-03 13 113209630 113209775 146 + 1.440 1.843 1.371
ENSG00000139842 E009 0.4458772 0.0217681645 2.898361e-01   13 113209833 113209882 50 + 0.093 0.272 1.862
ENSG00000139842 E010 0.9466924 0.0158769969 8.845543e-01   13 113209883 113209972 90 + 0.292 0.272 -0.139
ENSG00000139842 E011 72.0804126 0.0191645002 8.156571e-04 8.410011e-03 13 113209973 113210063 91 + 1.725 2.010 0.961
ENSG00000139842 E012 52.4761799 0.0008256807 1.424629e-04 2.009759e-03 13 113210064 113210088 25 + 1.632 1.832 0.676
ENSG00000139842 E013 96.1339074 0.0004624801 2.818200e-06 7.037131e-05 13 113218945 113219048 104 + 1.896 2.079 0.614
ENSG00000139842 E014 3.4142790 0.1139705175 1.529987e-01 3.666094e-01 13 113219327 113219812 486 + 0.501 0.793 1.262
ENSG00000139842 E015 76.9946712 0.0004941838 7.924445e-03 4.896853e-02 13 113227976 113228045 70 + 1.829 1.951 0.407
ENSG00000139842 E016 84.3507311 0.0005326850 5.344807e-09 2.665701e-07 13 113229446 113229519 74 + 1.812 2.051 0.801
ENSG00000139842 E017 151.0739096 0.0013197735 1.694743e-94 3.197848e-90 13 113229642 113230212 571 + 1.781 2.480 2.344
ENSG00000139842 E018 0.3040503 0.0274424043 4.114939e-01   13 113233153 113233176 24 + 0.170 0.000 -11.329
ENSG00000139842 E019 62.7602579 0.0006631685 4.006794e-06 9.511403e-05 13 113233177 113233339 163 + 1.849 1.636 -0.723
ENSG00000139842 E020 65.0772648 0.0023365452 4.706971e-04 5.409433e-03 13 113233897 113233986 90 + 1.853 1.685 -0.569
ENSG00000139842 E021 81.8038433 0.0069231373 1.193589e-02 6.618304e-02 13 113235063 113235145 83 + 1.943 1.809 -0.450
ENSG00000139842 E022 70.4836418 0.0050407768 3.101596e-04 3.832938e-03 13 113236823 113236890 68 + 1.896 1.703 -0.651
ENSG00000139842 E023 79.3759565 0.0028831914 2.883949e-04 3.612605e-03 13 113239433 113239551 119 + 1.937 1.770 -0.562
ENSG00000139842 E024 117.2140957 0.0003840935 1.489359e-08 6.725006e-07 13 113242968 113243160 193 + 2.112 1.925 -0.630
ENSG00000139842 E025 0.3337900 0.0317266258 6.748629e-01   13 113244223 113244409 187 + 0.093 0.157 0.863
ENSG00000139842 E026 86.0955840 0.0005441965 6.379548e-05 1.025941e-03 13 113244410 113244514 105 + 1.972 1.821 -0.509
ENSG00000139842 E027 65.8796678 0.0058597342 4.394386e-03 3.134846e-02 13 113244949 113245059 111 + 1.861 1.703 -0.533
ENSG00000139842 E028 72.0779982 0.0010933146 2.457157e-03 2.005198e-02 13 113245152 113245237 86 + 1.887 1.760 -0.427
ENSG00000139842 E029 101.1415481 0.0005865672 2.621956e-06 6.602438e-05 13 113245956 113246063 108 + 2.043 1.875 -0.564
ENSG00000139842 E030 106.4569219 0.0020046981 3.756087e-05 6.538903e-04 13 113253082 113253195 114 + 2.062 1.903 -0.536
ENSG00000139842 E031 96.7840964 0.0077146974 7.657231e-05 1.196076e-03 13 113254693 113254798 106 + 2.037 1.824 -0.718
ENSG00000139842 E032 109.5790004 0.0004622961 1.028573e-03 1.013278e-02 13 113254953 113255125 173 + 2.060 1.955 -0.353
ENSG00000139842 E033 99.9774147 0.0004134767 8.993731e-03 5.379103e-02 13 113260607 113260759 153 + 2.014 1.929 -0.284
ENSG00000139842 E034 385.5903169 0.0001995606 1.541129e-03 1.389610e-02 13 113263487 113267108 3622 + 2.585 2.541 -0.146