ENSG00000139618

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
ENST00000380152 ENSG00000139618 HEK293_OSMI2_6hA HEK293_TMG_6hB BRCA2 protein_coding protein_coding 3.734459 1.961107 6.535356 0.4127393 0.2002882 1.731466 1.3329936 0.00000000 2.9021218 0.00000000 0.2411783 8.1859269 0.23386667 0.00000000 0.44403333 0.44403333 8.860805e-14 8.860805e-14 FALSE TRUE
ENST00000470094 ENSG00000139618 HEK293_OSMI2_6hA HEK293_TMG_6hB BRCA2 protein_coding nonsense_mediated_decay 3.734459 1.961107 6.535356 0.4127393 0.2002882 1.731466 0.2210652 0.00000000 0.5925289 0.00000000 0.2042455 5.9129585 0.05813333 0.00000000 0.08923333 0.08923333 1.119127e-02 8.860805e-14 FALSE TRUE
ENST00000533776 ENSG00000139618 HEK293_OSMI2_6hA HEK293_TMG_6hB BRCA2 protein_coding retained_intron 3.734459 1.961107 6.535356 0.4127393 0.2002882 1.731466 0.5746172 0.86187432 0.2552534 0.23204109 0.2552534 -1.7167487 0.29408750 0.42773333 0.04003333 -0.38770000 6.698286e-02 8.860805e-14 FALSE TRUE
ENST00000544455 ENSG00000139618 HEK293_OSMI2_6hA HEK293_TMG_6hB BRCA2 protein_coding protein_coding 3.734459 1.961107 6.535356 0.4127393 0.2002882 1.731466 0.1436738 0.17625130 0.1256251 0.09254788 0.1256251 -0.4576260 0.05207500 0.08440000 0.01993333 -0.06446667 6.211319e-01 8.860805e-14 FALSE TRUE
ENST00000614259 ENSG00000139618 HEK293_OSMI2_6hA HEK293_TMG_6hB BRCA2 protein_coding nonsense_mediated_decay 3.734459 1.961107 6.535356 0.4127393 0.2002882 1.731466 0.0349713 0.09862297 0.0000000 0.09862297 0.0000000 -3.4412573 0.02142917 0.07333333 0.00000000 -0.07333333 7.479572e-01 8.860805e-14 TRUE TRUE
ENST00000665585 ENSG00000139618 HEK293_OSMI2_6hA HEK293_TMG_6hB BRCA2 protein_coding nonsense_mediated_decay 3.734459 1.961107 6.535356 0.4127393 0.2002882 1.731466 0.4776057 0.54522743 0.3544264 0.13325546 0.1845170 -0.6074514 0.16588333 0.27886667 0.05600000 -0.22286667 2.647881e-01 8.860805e-14 FALSE TRUE
ENST00000666593 ENSG00000139618 HEK293_OSMI2_6hA HEK293_TMG_6hB BRCA2 protein_coding nonsense_mediated_decay 3.734459 1.961107 6.535356 0.4127393 0.2002882 1.731466 0.1243314 0.14692338 0.1082854 0.03060765 0.1082854 -0.4077878 0.03147500 0.08060000 0.01720000 -0.06340000 3.176441e-01 8.860805e-14   FALSE
MSTRG.8566.2 ENSG00000139618 HEK293_OSMI2_6hA HEK293_TMG_6hB BRCA2 protein_coding   3.734459 1.961107 6.535356 0.4127393 0.2002882 1.731466 0.7493862 0.08661459 1.9309866 0.06146098 0.2212571 4.3284052 0.13063750 0.03840000 0.29403333 0.25563333 4.563470e-04 8.860805e-14 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
ENSG00000139618 E001 0.1779838 0.0342620709 1.000000e+00   13 32315086 32315145 60 + 0.055 0.000 -8.509
ENSG00000139618 E002 0.7507353 0.0375863836 5.242242e-01   13 32315504 32315504 1 + 0.224 0.000 -12.521
ENSG00000139618 E003 1.1067030 0.0140901499 3.093312e-01   13 32315505 32315507 3 + 0.289 0.000 -13.154
ENSG00000139618 E004 8.6002531 0.0180145968 1.453656e-04 2.043578e-03 13 32315508 32315667 160 + 0.914 0.000 -15.386
ENSG00000139618 E005 0.2852693 0.2788237421 1.000000e+00   13 32316072 32316157 86 + 0.102 0.000 -10.594
ENSG00000139618 E006 8.0453077 0.0246506529 2.825563e-04 3.552628e-03 13 32316422 32316460 39 + 0.891 0.000 -15.300
ENSG00000139618 E007 9.0694756 0.0194914380 1.538275e-03 1.387378e-02 13 32316461 32316523 63 + 0.928 0.248 -3.277
ENSG00000139618 E008 3.8975919 0.0063936469 9.683630e-02 2.761782e-01 13 32316524 32316527 4 + 0.614 0.248 -2.017
ENSG00000139618 E009 16.5251754 0.0020808423 1.478575e-03 1.346359e-02 13 32319077 32319325 249 + 1.154 0.685 -1.787
ENSG00000139618 E010 13.9904766 0.0090078542 1.312551e-02 7.097187e-02 13 32325076 32325184 109 + 1.079 0.686 -1.516
ENSG00000139618 E011 12.0832369 0.0026066542 2.344467e-03 1.934430e-02 13 32326101 32326150 50 + 1.037 0.519 -2.099
ENSG00000139618 E012 10.5023221 0.0031598115 1.660242e-03 1.474466e-02 13 32326242 32326282 41 + 0.985 0.404 -2.494
ENSG00000139618 E013 12.8614991 0.0025819125 5.290175e-03 3.613665e-02 13 32326499 32326613 115 + 1.058 0.610 -1.760
ENSG00000139618 E014 10.4601255 0.0039937259 9.563345e-03 5.624311e-02 13 32329443 32329492 50 + 0.973 0.519 -1.865
ENSG00000139618 E015 10.5389092 0.0044393118 1.558491e-03 1.402881e-02 13 32330919 32331030 112 + 0.991 0.404 -2.515
ENSG00000139618 E016 54.8844859 0.0063794570 1.808963e-07 6.308080e-06 13 32332272 32333387 1116 + 1.656 1.148 -1.761
ENSG00000139618 E017 296.7587758 0.0005217259 8.597101e-20 2.455416e-17 13 32336265 32341196 4932 + 2.365 2.071 -0.983
ENSG00000139618 E018 11.6976298 0.0099102276 8.070396e-01 9.003435e-01 13 32344558 32344653 96 + 0.984 0.939 -0.168
ENSG00000139618 E019 18.5375795 0.0205778462 3.589551e-01 5.949758e-01 13 32346827 32346896 70 + 1.143 1.235 0.325
ENSG00000139618 E020 52.9289785 0.0053387501 6.123527e-01 7.784383e-01 13 32354861 32355288 428 + 1.602 1.551 -0.174
ENSG00000139618 E021 26.5291943 0.0027779751 1.456760e-01 3.559025e-01 13 32356428 32356609 182 + 1.291 1.408 0.407
ENSG00000139618 E022 28.5906028 0.0012911254 1.989774e-01 4.284474e-01 13 32357742 32357929 188 + 1.323 1.421 0.340
ENSG00000139618 E023 0.0000000       13 32362515 32362522 8 +      
ENSG00000139618 E024 26.9897580 0.0017571210 5.288422e-01 7.211941e-01 13 32362523 32362693 171 + 1.306 1.352 0.163
ENSG00000139618 E025 47.2355868 0.0025074850 2.413943e-01 4.781625e-01 13 32363179 32363533 355 + 1.532 1.604 0.244
ENSG00000139618 E026 36.9511989 0.0238075353 4.451470e-01 6.621971e-01 13 32370402 32370557 156 + 1.429 1.485 0.194
ENSG00000139618 E027 19.1476243 0.0204314738 9.889979e-01 9.962961e-01 13 32370956 32370970 15 + 1.169 1.149 -0.072
ENSG00000139618 E028 39.4937945 0.0070796214 9.742536e-01 9.890293e-01 13 32370971 32371100 130 + 1.471 1.458 -0.044
ENSG00000139618 E029 0.7063259 0.6429804801 5.248331e-01   13 32374962 32375210 249 + 0.154 0.250 0.877
ENSG00000139618 E030 1.0290398 0.0165171920 3.546892e-01   13 32375343 32375406 64 + 0.224 0.404 1.182
ENSG00000139618 E031 34.1956781 0.0013480901 9.857578e-01 9.947314e-01 13 32376670 32376791 122 + 1.415 1.408 -0.026
ENSG00000139618 E032 36.2790014 0.0012204726 5.633740e-01 7.456462e-01 13 32379317 32379515 199 + 1.433 1.469 0.122
ENSG00000139618 E033 17.9522709 0.0053554943 3.190371e-01 5.587393e-01 13 32379750 32379839 90 + 1.137 1.233 0.343
ENSG00000139618 E034 17.3580116 0.0023994945 5.655078e-02 1.949578e-01 13 32379840 32379913 74 + 1.106 1.288 0.646
ENSG00000139618 E035 31.1373143 0.0011568583 1.228012e-02 6.756431e-02 13 32380007 32380145 139 + 1.339 1.522 0.631
ENSG00000139618 E036 0.8619444 0.0241702105 2.155687e-02   13 32383893 32384031 139 + 0.104 0.520 3.090
ENSG00000139618 E037 46.0529240 0.0007583119 6.383606e-02 2.113264e-01 13 32394689 32394933 245 + 1.516 1.628 0.384
ENSG00000139618 E038 1.2868997 0.0142589684 2.465611e-01   13 32395991 32396116 126 + 0.319 0.000 -13.320
ENSG00000139618 E039 0.3206185 0.0268115532 1.000000e+00   13 32396809 32396897 89 + 0.104 0.000 -11.367
ENSG00000139618 E040 30.9427765 0.0012947427 1.361805e-03 1.262574e-02 13 32396898 32397044 147 + 1.328 1.560 0.799
ENSG00000139618 E041 206.6092849 0.0005728346 1.978547e-30 1.631081e-27 13 32398162 32400268 2107 + 2.116 2.420 1.017