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_2hA HEK293_TMG_2hB LRRC28 protein_coding protein_coding 12.911 17.69532 9.348331 2.125947 0.6046358 -0.9198594 1.1732661 0.9942715 1.3993302 0.1864665 0.09725117 0.48886028 0.10091667 0.05686667 0.14966667 0.09280000 0.0001334865 0.0001334865 FALSE TRUE
ENST00000447360 ENSG00000168904 HEK293_OSMI2_2hA HEK293_TMG_2hB LRRC28 protein_coding protein_coding 12.911 17.69532 9.348331 2.125947 0.6046358 -0.9198594 1.8276981 3.0621169 0.2462667 0.6856026 0.24626671 -3.58351514 0.13739583 0.17706667 0.02926667 -0.14780000 0.0917031564 0.0001334865 FALSE TRUE
ENST00000559433 ENSG00000168904 HEK293_OSMI2_2hA HEK293_TMG_2hB LRRC28 protein_coding nonsense_mediated_decay 12.911 17.69532 9.348331 2.125947 0.6046358 -0.9198594 0.1494997 0.0000000 0.6182996 0.0000000 0.61829965 5.97338087 0.01506667 0.00000000 0.05900000 0.05900000 0.7481842622 0.0001334865 FALSE FALSE
ENST00000561276 ENSG00000168904 HEK293_OSMI2_2hA HEK293_TMG_2hB LRRC28 protein_coding protein_coding 12.911 17.69532 9.348331 2.125947 0.6046358 -0.9198594 1.9145426 4.4183329 0.7966987 1.0770805 0.46826938 -2.45666185 0.12281250 0.25093333 0.08350000 -0.16743333 0.3873567520 0.0001334865 FALSE TRUE
MSTRG.11640.12 ENSG00000168904 HEK293_OSMI2_2hA HEK293_TMG_2hB LRRC28 protein_coding   12.911 17.69532 9.348331 2.125947 0.6046358 -0.9198594 0.7146828 0.1589879 1.0394368 0.1589879 0.11078893 2.63462307 0.06879167 0.00790000 0.11080000 0.10290000 0.0161538334 0.0001334865 FALSE TRUE
MSTRG.11640.3 ENSG00000168904 HEK293_OSMI2_2hA HEK293_TMG_2hB LRRC28 protein_coding   12.911 17.69532 9.348331 2.125947 0.6046358 -0.9198594 0.8871135 0.9601895 0.9715403 0.1234732 0.41796924 0.01678089 0.07049583 0.05516667 0.09983333 0.04466667 0.5039142349 0.0001334865 FALSE TRUE
MSTRG.11640.5 ENSG00000168904 HEK293_OSMI2_2hA HEK293_TMG_2hB LRRC28 protein_coding   12.911 17.69532 9.348331 2.125947 0.6046358 -0.9198594 4.5641052 6.3391346 2.9049919 1.3482696 0.48492306 -1.12306808 0.35771667 0.35786667 0.31833333 -0.03953333 0.8632295354 0.0001334865 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
ENSG00000168904 E001 0.0000000       15 99251362 99251385 24 +      
ENSG00000168904 E002 0.0000000       15 99251386 99251448 63 +      
ENSG00000168904 E003 0.0000000       15 99251449 99251459 11 +      
ENSG00000168904 E004 0.0000000       15 99251460 99251462 3 +      
ENSG00000168904 E005 1.6481004 0.2467714724 5.732641e-01 6.992220e-01 15 99251463 99251478 16 + 0.287 0.421 0.803
ENSG00000168904 E006 1.9436426 0.0656455272 6.634815e-01 7.715347e-01 15 99251479 99251480 2 + 0.381 0.451 0.377
ENSG00000168904 E007 5.0200025 0.1271084370 1.792878e-01 3.002258e-01 15 99251481 99251485 5 + 0.930 0.627 -1.216
ENSG00000168904 E008 7.8732112 0.1856058937 6.977441e-01 7.978027e-01 15 99251486 99251492 7 + 0.976 0.875 -0.381
ENSG00000168904 E009 13.7401882 0.1146374432 2.126382e-01 3.416592e-01 15 99251493 99251504 12 + 1.286 1.039 -0.881
ENSG00000168904 E010 17.6002916 0.0586591852 2.979262e-01 4.393100e-01 15 99251505 99251514 10 + 1.344 1.168 -0.621
ENSG00000168904 E011 19.3329702 0.0391976377 4.333647e-01 5.757661e-01 15 99251515 99251519 5 + 1.353 1.223 -0.455
ENSG00000168904 E012 23.7082144 0.0593162385 4.654314e-01 6.051458e-01 15 99251520 99251540 21 + 1.443 1.305 -0.477
ENSG00000168904 E013 23.5566990 0.0567360649 4.877310e-01 6.253756e-01 15 99251541 99251541 1 + 1.435 1.305 -0.451
ENSG00000168904 E014 1.0955132 0.1400013657 6.972775e-01 7.974376e-01 15 99251542 99251756 215 + 0.380 0.278 -0.647
ENSG00000168904 E015 0.0000000       15 99251811 99251984 174 +      
ENSG00000168904 E016 44.7647995 0.0146903220 4.805247e-01 6.188062e-01 15 99255898 99255973 76 + 1.680 1.591 -0.302
ENSG00000168904 E017 84.7562253 0.0005558065 3.508061e-01 4.949776e-01 15 99255974 99256125 152 + 1.938 1.879 -0.197
ENSG00000168904 E018 0.0000000       15 99256126 99256356 231 +      
ENSG00000168904 E019 51.5484193 0.0005388844 9.467830e-01 9.705909e-01 15 99276576 99276616 41 + 1.704 1.681 -0.079
ENSG00000168904 E020 0.0000000       15 99285768 99285784 17 +      
ENSG00000168904 E021 0.0000000       15 99286702 99286910 209 +      
ENSG00000168904 E022 63.4350567 0.0004624161 8.255070e-01 8.901211e-01 15 99287257 99287294 38 + 1.781 1.771 -0.034
ENSG00000168904 E023 103.3678059 0.0003370557 6.376049e-01 7.514578e-01 15 99287814 99287951 138 + 1.985 1.981 -0.013
ENSG00000168904 E024 0.1472490 0.0446329194 2.538373e-01   15 99297272 99297338 67 + 0.167 0.000 -11.704
ENSG00000168904 E025 2.9703469 0.0390333849 9.452150e-02 1.821631e-01 15 99317464 99317546 83 + 0.754 0.450 -1.363
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 0.1482932 0.0405930563 9.138232e-01   15 99333615 99333922 308 + 0.000 0.088 9.321
ENSG00000168904 E030 87.4204632 0.0003839011 3.652046e-01 5.095429e-01 15 99333923 99334017 95 + 1.896 1.911 0.050
ENSG00000168904 E031 86.7846438 0.0003900779 3.571053e-01 5.015236e-01 15 99334018 99334082 65 + 1.894 1.910 0.054
ENSG00000168904 E032 82.4317754 0.0003652094 2.214331e-01 3.521302e-01 15 99334083 99334129 47 + 1.864 1.894 0.100
ENSG00000168904 E033 0.0000000       15 99334130 99334130 1 +      
ENSG00000168904 E034 116.0821390 0.0003479757 2.607718e-01 3.983649e-01 15 99352369 99352471 103 + 2.021 2.039 0.061
ENSG00000168904 E035 0.0000000       15 99352472 99352527 56 +      
ENSG00000168904 E036 0.5891098 0.0180873272 6.575730e-03 2.012361e-02 15 99353661 99354000 340 + 0.458 0.000 -13.935
ENSG00000168904 E037 4.1445681 0.0636126382 5.539937e-05 3.086564e-04 15 99355406 99355719 314 + 1.053 0.367 -2.953
ENSG00000168904 E038 1.6316175 0.0099442017 9.429581e-02 1.818262e-01 15 99360996 99361335 340 + 0.581 0.280 -1.634
ENSG00000168904 E039 136.1051686 0.0017991194 1.743375e-05 1.096028e-04 15 99361336 99361511 176 + 1.997 2.139 0.474
ENSG00000168904 E040 93.5040877 0.0004890229 7.292657e-09 9.214780e-08 15 99363106 99363224 119 + 1.775 1.995 0.743
ENSG00000168904 E041 59.0965305 0.0004483028 5.089883e-04 2.193202e-03 15 99363225 99363265 41 + 1.625 1.781 0.529
ENSG00000168904 E042 1.2084061 0.1551274702 7.673708e-01 8.496198e-01 15 99363266 99363393 128 + 0.380 0.283 -0.612
ENSG00000168904 E043 4.3993162 0.0452601465 6.715846e-01 7.777778e-01 15 99384294 99384781 488 + 0.755 0.665 -0.369
ENSG00000168904 E044 94.2708757 0.0018550058 5.247843e-06 3.716313e-05 15 99386030 99386327 298 + 1.804 1.988 0.617
ENSG00000168904 E045 33.5348465 0.0007727367 1.294178e-15 4.828243e-14 15 99386328 99387075 748 + 1.788 1.296 -1.687
ENSG00000168904 E046 31.4276672 0.0174520086 8.376539e-04 3.393662e-03 15 99387076 99387905 830 + 1.674 1.359 -1.082
ENSG00000168904 E047 70.4283410 0.0234687461 2.527954e-04 1.186986e-03 15 99387906 99390015 2110 + 2.011 1.702 -1.042
ENSG00000168904 E048 4.4692525 0.0083245765 6.916065e-04 2.868651e-03 15 99390016 99390729 714 + 0.995 0.513 -1.979