ENSG00000136002

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
ENST00000392953 ENSG00000136002 HEK293_OSMI2_2hA HEK293_TMG_2hB ARHGEF4 protein_coding protein_coding 9.771642 13.06186 8.463385 1.069789 0.2331565 -0.6254542 0.9611356 0.9062260 0.8339361 0.2018855 0.04362980 -0.11856967 0.10107917 0.06783333 0.09880000 0.03096667 3.141115e-01 1.319864e-13 FALSE TRUE
ENST00000409359 ENSG00000136002 HEK293_OSMI2_2hA HEK293_TMG_2hB ARHGEF4 protein_coding protein_coding 9.771642 13.06186 8.463385 1.069789 0.2331565 -0.6254542 1.4668515 1.5753762 1.6376407 0.2988291 0.06021718 0.05557642 0.16158333 0.11996667 0.19346667 0.07350000 1.173982e-01 1.319864e-13 FALSE TRUE
ENST00000439368 ENSG00000136002 HEK293_OSMI2_2hA HEK293_TMG_2hB ARHGEF4 protein_coding processed_transcript 9.771642 13.06186 8.463385 1.069789 0.2331565 -0.6254542 0.2574209 0.0000000 0.6410565 0.0000000 0.13035326 6.02471076 0.02802083 0.00000000 0.07660000 0.07660000 4.627150e-10 1.319864e-13 FALSE FALSE
ENST00000490728 ENSG00000136002 HEK293_OSMI2_2hA HEK293_TMG_2hB ARHGEF4 protein_coding retained_intron 9.771642 13.06186 8.463385 1.069789 0.2331565 -0.6254542 0.6008103 0.3735057 0.5415973 0.2183025 0.08296992 0.52436764 0.06294583 0.02646667 0.06356667 0.03710000 4.294934e-01 1.319864e-13 FALSE TRUE
ENST00000527365 ENSG00000136002 HEK293_OSMI2_2hA HEK293_TMG_2hB ARHGEF4 protein_coding retained_intron 9.771642 13.06186 8.463385 1.069789 0.2331565 -0.6254542 1.0864975 0.3739176 1.3854876 0.1871322 0.18426630 1.86190064 0.12082917 0.02846667 0.16276667 0.13430000 7.507531e-02 1.319864e-13 FALSE TRUE
MSTRG.19211.15 ENSG00000136002 HEK293_OSMI2_2hA HEK293_TMG_2hB ARHGEF4 protein_coding   9.771642 13.06186 8.463385 1.069789 0.2331565 -0.6254542 3.9187024 8.7828224 2.4397092 0.3938674 0.13895455 -1.84371582 0.36340417 0.67670000 0.28793333 -0.38876667 1.319864e-13 1.319864e-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_2hB HEK293_OSMI2_2hA log2fold_HEK293_OSMI2_2hA_HEK293_TMG_2hB
ENSG00000136002 E001 8.4193734 0.1139090368 1.968074e-01 3.222494e-01 2 130836914 130836992 79 + 1.107 0.848 -0.962
ENSG00000136002 E002 0.0000000       2 130837455 130837701 247 +      
ENSG00000136002 E003 123.0723275 0.0065628871 8.036084e-07 6.809554e-06 2 130913986 130916650 2665 + 2.196 1.977 -0.736
ENSG00000136002 E004 25.5028726 0.0009033756 9.714634e-03 2.805971e-02 2 130916651 130916964 314 + 1.492 1.322 -0.587
ENSG00000136002 E005 14.5600363 0.0034001197 1.990518e-01 3.250366e-01 2 130916965 130917061 97 + 1.222 1.113 -0.388
ENSG00000136002 E006 24.0946895 0.0008350229 3.336165e-02 7.850480e-02 2 130917062 130917396 335 + 1.453 1.312 -0.491
ENSG00000136002 E007 8.1599658 0.0022749349 9.907183e-01 9.983596e-01 2 130917397 130917430 34 + 0.924 0.932 0.031
ENSG00000136002 E008 10.7743028 0.0018695643 7.206384e-01 8.152318e-01 2 130917431 130917498 68 + 1.058 1.031 -0.100
ENSG00000136002 E009 10.7022967 0.0047268667 5.497955e-01 6.794908e-01 2 130930952 130930979 28 + 1.075 1.021 -0.195
ENSG00000136002 E010 19.4334946 0.0010145346 3.730270e-02 8.604092e-02 2 130930980 130931090 111 + 1.373 1.220 -0.537
ENSG00000136002 E011 25.6614446 0.0007406537 6.071095e-02 1.278272e-01 2 130931091 130931257 167 + 1.466 1.346 -0.416
ENSG00000136002 E012 20.8917779 0.0083970917 7.876409e-01 8.639597e-01 2 130946509 130946635 127 + 1.304 1.294 -0.036
ENSG00000136002 E013 0.0000000       2 130946636 130947230 595 +      
ENSG00000136002 E014 2.5787066 0.1013681528 3.277362e-01 4.712111e-01 2 130963642 130964249 608 + 0.363 0.573 1.069
ENSG00000136002 E015 0.0000000       2 131011683 131011908 226 +      
ENSG00000136002 E016 24.7330156 0.0145020109 7.483472e-01 8.356201e-01 2 131027945 131028084 140 + 1.373 1.364 -0.033
ENSG00000136002 E017 0.1451727 0.0438627509 2.706724e-01   2 131034928 131034971 44 + 0.157 0.000 -11.172
ENSG00000136002 E018 2.3971237 0.0062173981 9.980607e-07 8.282068e-06 2 131034972 131035091 120 + 0.876 0.095 -4.744
ENSG00000136002 E019 3.1012278 0.0047636047 5.903675e-06 4.134842e-05 2 131035092 131035149 58 + 0.924 0.238 -3.339
ENSG00000136002 E020 20.2114132 0.0095705726 2.277056e-01 3.596674e-01 2 131035150 131035288 139 + 1.349 1.254 -0.330
ENSG00000136002 E021 0.1451727 0.0438627509 2.706724e-01   2 131035485 131035641 157 + 0.157 0.000 -11.172
ENSG00000136002 E022 71.5232610 0.0005908553 5.446742e-01 6.751024e-01 2 131038853 131039032 180 + 1.830 1.814 -0.053
ENSG00000136002 E023 6.0589471 0.0030021431 1.906612e-01 3.145837e-01 2 131039372 131039528 157 + 0.924 0.768 -0.603
ENSG00000136002 E024 9.1663736 0.0314127196 5.905198e-02 1.250122e-01 2 131039529 131040015 487 + 1.120 0.882 -0.880
ENSG00000136002 E025 83.0854707 0.0065149848 8.985841e-01 9.393261e-01 2 131040016 131040192 177 + 1.880 1.889 0.033
ENSG00000136002 E026 76.7158880 0.0009032339 4.964646e-01 6.331031e-01 2 131040261 131040440 180 + 1.862 1.844 -0.060
ENSG00000136002 E027 55.2244298 0.0013872965 8.267004e-01 8.909515e-01 2 131041230 131041276 47 + 1.711 1.712 0.002
ENSG00000136002 E028 46.1504904 0.0045790121 8.634882e-01 9.159463e-01 2 131041277 131041312 36 + 1.631 1.635 0.015
ENSG00000136002 E029 77.4840874 0.0003942138 3.069614e-01 4.491336e-01 2 131041313 131041462 150 + 1.818 1.873 0.184
ENSG00000136002 E030 4.9539732 0.0038085563 3.897679e-03 1.285722e-02 2 131041463 131041510 48 + 0.967 0.593 -1.500
ENSG00000136002 E031 10.7181452 0.0028399211 1.904139e-03 6.927723e-03 2 131041511 131041814 304 + 1.222 0.919 -1.100
ENSG00000136002 E032 80.4985550 0.0003513398 2.676981e-01 4.060351e-01 2 131041815 131041944 130 + 1.897 1.863 -0.115
ENSG00000136002 E033 95.5613858 0.0003259869 7.806063e-01 8.590209e-01 2 131043452 131043583 132 + 1.931 1.953 0.072
ENSG00000136002 E034 4.8036288 0.0034769950 1.907907e-02 4.951197e-02 2 131043584 131043670 87 + 0.924 0.620 -1.225
ENSG00000136002 E035 59.6464827 0.0004223245 2.176745e-01 3.475933e-01 2 131044299 131044331 33 + 1.696 1.767 0.239
ENSG00000136002 E036 112.3956104 0.0003179630 4.147641e-03 1.355667e-02 2 131044332 131044542 211 + 1.938 2.051 0.381
ENSG00000136002 E037 64.5189833 0.0059447355 4.181497e-03 1.365414e-02 2 131045369 131045446 78 + 1.653 1.836 0.622
ENSG00000136002 E038 19.9900855 0.0009555937 6.793645e-03 2.068624e-02 2 131045447 131046037 591 + 1.411 1.213 -0.692
ENSG00000136002 E039 347.2271594 0.0038497900 1.172782e-09 1.715588e-08 2 131046038 131047263 1226 + 2.359 2.564 0.684