ENSG00000168904

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
ENST00000301981 ENSG00000168904 HEK293_OSMI2_6hA HEK293_TMG_6hB LRRC28 protein_coding protein_coding 12.911 12.55104 9.626873 1.781467 0.1254125 -0.3823193 1.1732661 0.8469433 1.4798359 0.17354074 0.11239838 0.7978817 0.10091667 0.06726667 0.15350000 0.08623333 0.03186796 0.03186796 FALSE TRUE
ENST00000447360 ENSG00000168904 HEK293_OSMI2_6hA HEK293_TMG_6hB LRRC28 protein_coding protein_coding 12.911 12.55104 9.626873 1.781467 0.1254125 -0.3823193 1.8276981 2.4051540 1.2909600 0.03587642 0.66797347 -0.8925386 0.13739583 0.19900000 0.13510000 -0.06390000 0.84728878 0.03186796 FALSE TRUE
ENST00000558500 ENSG00000168904 HEK293_OSMI2_6hA HEK293_TMG_6hB LRRC28 protein_coding processed_transcript 12.911 12.55104 9.626873 1.781467 0.1254125 -0.3823193 0.5648699 0.8146292 0.0000000 0.81462915 0.00000000 -6.3656736 0.03413333 0.05056667 0.00000000 -0.05056667 0.95228611 0.03186796 FALSE TRUE
ENST00000559433 ENSG00000168904 HEK293_OSMI2_6hA HEK293_TMG_6hB LRRC28 protein_coding nonsense_mediated_decay 12.911 12.55104 9.626873 1.781467 0.1254125 -0.3823193 0.1494997 0.0000000 0.5776979 0.00000000 0.57769789 5.8770028 0.01506667 0.00000000 0.06153333 0.06153333 0.86753780 0.03186796 FALSE FALSE
ENST00000561276 ENSG00000168904 HEK293_OSMI2_6hA HEK293_TMG_6hB LRRC28 protein_coding protein_coding 12.911 12.55104 9.626873 1.781467 0.1254125 -0.3823193 1.9145426 2.3652310 0.3954752 0.83922787 0.39547519 -2.5503823 0.12281250 0.17913333 0.04030000 -0.13883333 0.24816173 0.03186796 FALSE TRUE
MSTRG.11640.12 ENSG00000168904 HEK293_OSMI2_6hA HEK293_TMG_6hB LRRC28 protein_coding   12.911 12.55104 9.626873 1.781467 0.1254125 -0.3823193 0.7146828 0.2639869 1.1261110 0.08414905 0.33028953 2.0519250 0.06879167 0.02090000 0.11730000 0.09640000 0.06691244 0.03186796 FALSE TRUE
MSTRG.11640.3 ENSG00000168904 HEK293_OSMI2_6hA HEK293_TMG_6hB LRRC28 protein_coding   12.911 12.55104 9.626873 1.781467 0.1254125 -0.3823193 0.8871135 0.6038929 0.9070440 0.10259471 0.09397562 0.5790041 0.07049583 0.05190000 0.09440000 0.04250000 0.49096660 0.03186796 FALSE TRUE
MSTRG.11640.5 ENSG00000168904 HEK293_OSMI2_6hA HEK293_TMG_6hB LRRC28 protein_coding   12.911 12.55104 9.626873 1.781467 0.1254125 -0.3823193 4.5641052 4.3408634 3.1118732 0.37074212 1.02976501 -0.4788898 0.35771667 0.35096667 0.32106667 -0.02990000 0.94278923 0.03186796 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
ENSG00000168904 E001 0.0000000       15 99251362 99251385 24 +      
ENSG00000168904 E002 0.1723744 0.0331541405 6.483219e-01   15 99251386 99251448 63 + 0.000 0.106 9.989
ENSG00000168904 E003 0.3751086 0.0244411696 2.999525e-01   15 99251449 99251459 11 + 0.000 0.191 11.533
ENSG00000168904 E004 0.3751086 0.0244411696 2.999525e-01   15 99251460 99251462 3 + 0.000 0.191 11.533
ENSG00000168904 E005 1.8810504 0.0503367549 8.388635e-01 9.187732e-01 15 99251463 99251478 16 + 0.460 0.427 -0.171
ENSG00000168904 E006 2.2036941 0.0108647759 7.771017e-01 8.829835e-01 15 99251479 99251480 2 + 0.514 0.468 -0.226
ENSG00000168904 E007 3.9532114 0.0066976528 4.524975e-01 6.675153e-01 15 99251481 99251485 5 + 0.742 0.635 -0.449
ENSG00000168904 E008 5.4590854 0.0050835679 9.084398e-01 9.563760e-01 15 99251486 99251492 7 + 0.798 0.814 0.063
ENSG00000168904 E009 10.5536113 0.0047098756 3.275023e-01 5.665697e-01 15 99251493 99251504 12 + 1.116 1.016 -0.362
ENSG00000168904 E010 12.8434744 0.0026972202 2.485790e-01 4.863415e-01 15 99251505 99251514 10 + 1.196 1.090 -0.379
ENSG00000168904 E011 13.5521854 0.0024928281 4.424862e-01 6.603853e-01 15 99251515 99251519 5 + 1.196 1.128 -0.245
ENSG00000168904 E012 16.4395504 0.0021734764 2.445486e-01 4.817081e-01 15 99251520 99251540 21 + 1.290 1.194 -0.338
ENSG00000168904 E013 16.2368162 0.0022715933 2.114133e-01 4.434490e-01 15 99251541 99251541 1 + 1.290 1.186 -0.366
ENSG00000168904 E014 0.2922838 0.0273719359 8.162482e-01   15 99251542 99251756 215 + 0.139 0.106 -0.456
ENSG00000168904 E015 0.1614157 0.0324559533 3.601078e-01   15 99251811 99251984 174 + 0.139 0.000 -11.479
ENSG00000168904 E016 36.2115017 0.0010303430 4.203967e-01 6.439429e-01 15 99255898 99255973 76 + 1.588 1.543 -0.153
ENSG00000168904 E017 73.4545404 0.0011771663 7.932568e-01 8.923093e-01 15 99255974 99256125 152 + 1.864 1.856 -0.028
ENSG00000168904 E018 0.1723744 0.0331541405 6.483219e-01   15 99256126 99256356 231 + 0.000 0.106 10.532
ENSG00000168904 E019 42.6753449 0.0009161518 7.016964e-01 8.366686e-01 15 99276576 99276616 41 + 1.613 1.636 0.078
ENSG00000168904 E020 0.3032425 0.0274424043 3.009917e-01   15 99285768 99285784 17 + 0.000 0.191 11.528
ENSG00000168904 E021 0.0000000       15 99286702 99286910 209 +      
ENSG00000168904 E022 50.8418816 0.0047712536 7.796211e-01 8.844727e-01 15 99287257 99287294 38 + 1.687 1.709 0.075
ENSG00000168904 E023 81.1598922 0.0018404047 8.819463e-01 9.423353e-01 15 99287814 99287951 138 + 1.901 1.899 -0.007
ENSG00000168904 E024 0.3503582 0.0290512814 8.162734e-01   15 99297272 99297338 67 + 0.139 0.106 -0.453
ENSG00000168904 E025 1.1542283 0.0146116276 9.658408e-01   15 99317464 99317546 83 + 0.329 0.323 -0.040
ENSG00000168904 E026 0.0000000       15 99320603 99320735 133 +      
ENSG00000168904 E027 0.0000000       15 99326513 99326588 76 +      
ENSG00000168904 E028 0.0000000       15 99331897 99332024 128 +      
ENSG00000168904 E029 0.5233527 0.0208896071 3.985026e-01   15 99333615 99333922 308 + 0.244 0.106 -1.451
ENSG00000168904 E030 68.2288687 0.0005488220 6.392512e-01 7.963875e-01 15 99333923 99334017 95 + 1.838 1.821 -0.060
ENSG00000168904 E031 60.7526110 0.0006110601 1.437393e-01 3.529980e-01 15 99334018 99334082 65 + 1.737 1.806 0.232
ENSG00000168904 E032 58.4656500 0.0007234334 7.271143e-03 4.593606e-02 15 99334083 99334129 47 + 1.683 1.811 0.435
ENSG00000168904 E033 0.0000000       15 99334130 99334130 1 +      
ENSG00000168904 E034 81.6926549 0.0006904812 2.645764e-02 1.166547e-01 15 99352369 99352471 103 + 1.850 1.941 0.305
ENSG00000168904 E035 0.0000000       15 99352472 99352527 56 +      
ENSG00000168904 E036 0.1614157 0.0324559533 3.601078e-01   15 99353661 99354000 340 + 0.139 0.000 -11.479
ENSG00000168904 E037 3.3375641 0.0080093370 1.389680e-02 7.393243e-02 15 99355406 99355719 314 + 0.799 0.424 -1.674
ENSG00000168904 E038 1.8454612 0.0650199181 9.921558e-01 9.977845e-01 15 99360996 99361335 340 + 0.461 0.464 0.015
ENSG00000168904 E039 88.2626773 0.0005239917 8.422625e-04 8.629595e-03 15 99361336 99361511 176 + 1.859 1.988 0.435
ENSG00000168904 E040 62.1907179 0.0087910543 4.067533e-02 1.564869e-01 15 99363106 99363224 119 + 1.708 1.842 0.452
ENSG00000168904 E041 39.6353010 0.0122260378 2.234467e-02 1.037273e-01 15 99363225 99363265 41 + 1.492 1.667 0.599
ENSG00000168904 E042 1.7918810 0.0111719107 8.241854e-01 9.103882e-01 15 99363266 99363393 128 + 0.461 0.424 -0.191
ENSG00000168904 E043 6.4071144 0.4290810713 7.203256e-01 8.484032e-01 15 99384294 99384781 488 + 0.754 0.927 0.671
ENSG00000168904 E044 70.3168166 0.0079855243 5.788069e-02 1.980483e-01 15 99386030 99386327 298 + 1.772 1.888 0.392
ENSG00000168904 E045 32.6057405 0.0111045405 9.322969e-05 1.410346e-03 15 99386328 99387075 748 + 1.665 1.370 -1.014
ENSG00000168904 E046 31.6832913 0.0094229967 2.806694e-03 2.222866e-02 15 99387076 99387905 830 + 1.622 1.402 -0.752
ENSG00000168904 E047 61.2645376 0.0012305573 5.699397e-13 6.106553e-11 15 99387906 99390015 2110 + 1.947 1.619 -1.110
ENSG00000168904 E048 3.3518509 0.0510703675 5.002785e-02 1.797412e-01 15 99390016 99390729 714 + 0.800 0.466 -1.465