ENSG00000028528

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
ENST00000559401 ENSG00000028528 HEK293_OSMI2_2hA HEK293_TMG_2hB SNX1 protein_coding retained_intron 32.59288 24.71656 37.02523 3.82162 0.9021041 0.5828364 2.247129 0.6948590 2.8331309 0.42072775 0.86066625 2.0120739 0.07199583 0.02436667 0.07640000 0.05203333 4.218202e-01 5.929713e-17 FALSE  
ENST00000559844 ENSG00000028528 HEK293_OSMI2_2hA HEK293_TMG_2hB SNX1 protein_coding protein_coding 32.59288 24.71656 37.02523 3.82162 0.9021041 0.5828364 1.999665 0.9029398 2.8836388 0.05225941 0.14292543 1.6642932 0.06435417 0.03853333 0.07816667 0.03963333 1.224597e-02 5.929713e-17 FALSE  
ENST00000561026 ENSG00000028528 HEK293_OSMI2_2hA HEK293_TMG_2hB SNX1 protein_coding protein_coding 32.59288 24.71656 37.02523 3.82162 0.9021041 0.5828364 1.291094 2.7547694 0.6793841 0.61314628 0.05470252 -2.0037792 0.04367917 0.10916667 0.01843333 -0.09073333 5.929713e-17 5.929713e-17 FALSE  
MSTRG.10993.10 ENSG00000028528 HEK293_OSMI2_2hA HEK293_TMG_2hB SNX1 protein_coding   32.59288 24.71656 37.02523 3.82162 0.9021041 0.5828364 17.401612 12.7515137 21.8057539 1.35575406 1.02805512 0.7735709 0.51973750 0.52516667 0.58870000 0.06353333 5.926542e-01 5.929713e-17 TRUE  
MSTRG.10993.14 ENSG00000028528 HEK293_OSMI2_2hA HEK293_TMG_2hB SNX1 protein_coding   32.59288 24.71656 37.02523 3.82162 0.9021041 0.5828364 2.556916 2.7790486 1.8221682 1.05545418 1.16000463 -0.6062211 0.07747917 0.11280000 0.05046667 -0.06233333 6.705914e-01 5.929713e-17 FALSE  
MSTRG.10993.3 ENSG00000028528 HEK293_OSMI2_2hA HEK293_TMG_2hB SNX1 protein_coding   32.59288 24.71656 37.02523 3.82162 0.9021041 0.5828364 2.037287 0.4104948 1.4874902 0.20544662 0.59976146 1.8323867 0.05981667 0.01536667 0.03970000 0.02433333 6.348382e-01 5.929713e-17 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
ENSG00000028528 E001 1.8067782 0.0089331970 6.169910e-01 7.349043e-01 15 64094123 64094275 153 + 0.428 0.514 0.435
ENSG00000028528 E002 1.6542186 0.0858381527 9.035853e-01 9.426503e-01 15 64094276 64094335 60 + 0.427 0.457 0.153
ENSG00000028528 E003 1.1070397 0.0139088828 1.306568e-01 2.350736e-01 15 64095941 64095946 6 + 0.193 0.461 1.757
ENSG00000028528 E004 3.8694449 0.0372036294 6.575330e-01 7.668675e-01 15 64095947 64095981 35 + 0.666 0.740 0.306
ENSG00000028528 E005 4.1649871 0.0694076664 6.873104e-01 7.896808e-01 15 64095982 64095990 9 + 0.691 0.765 0.300
ENSG00000028528 E006 5.4537337 0.1354808883 9.557930e-01 9.762563e-01 15 64095991 64095991 1 + 0.818 0.830 0.044
ENSG00000028528 E007 7.4068185 0.1285675675 6.067005e-01 7.267915e-01 15 64095992 64095992 1 + 0.972 0.893 -0.296
ENSG00000028528 E008 14.5683025 0.0495027416 9.668957e-01 9.832550e-01 15 64095993 64096003 11 + 1.198 1.206 0.027
ENSG00000028528 E009 37.0176401 0.0016527125 2.666384e-03 9.271659e-03 15 64096004 64096013 10 + 1.665 1.484 -0.620
ENSG00000028528 E010 61.6941262 0.0073839232 4.488155e-01 5.900579e-01 15 64096014 64096025 12 + 1.826 1.778 -0.161
ENSG00000028528 E011 68.9696726 0.0129842520 7.848997e-01 8.620878e-01 15 64096026 64096030 5 + 1.861 1.837 -0.080
ENSG00000028528 E012 150.8203011 0.0037195389 3.115340e-02 7.419876e-02 15 64096031 64096172 142 + 2.228 2.132 -0.320
ENSG00000028528 E013 212.7727536 0.0001820063 9.991481e-04 3.955068e-03 15 64112573 64112684 112 + 2.372 2.291 -0.270
ENSG00000028528 E014 0.5180316 0.0204426383 4.711275e-02 1.040274e-01 15 64115589 64115706 118 + 0.000 0.329 10.870
ENSG00000028528 E015 171.7038331 0.0002006736 4.336881e-05 2.479880e-04 15 64118117 64118166 50 + 2.293 2.181 -0.374
ENSG00000028528 E016 171.8021888 0.0002268206 2.123094e-07 2.025144e-06 15 64118167 64118202 36 + 2.304 2.161 -0.479
ENSG00000028528 E017 199.4375502 0.0004113525 1.442239e-08 1.726013e-07 15 64118203 64118244 42 + 2.371 2.219 -0.508
ENSG00000028528 E018 229.9548320 0.0001655813 2.371765e-13 6.396979e-12 15 64118788 64118854 67 + 2.442 2.267 -0.584
ENSG00000028528 E019 178.2641216 0.0002074736 1.552249e-07 1.519893e-06 15 64123503 64123546 44 + 2.320 2.178 -0.475
ENSG00000028528 E020 260.5296055 0.0002346110 3.793598e-03 1.256378e-02 15 64126079 64126220 142 + 2.452 2.386 -0.221
ENSG00000028528 E021 192.0495444 0.0002506720 3.391075e-01 4.830293e-01 15 64127174 64127252 79 + 2.302 2.276 -0.087
ENSG00000028528 E022 175.9259182 0.0003380459 1.282772e-01 2.317430e-01 15 64127731 64127806 76 + 2.234 2.275 0.137
ENSG00000028528 E023 2.1661109 0.0079836250 2.925658e-01 4.335383e-01 15 64129873 64129915 43 + 0.579 0.401 -0.884
ENSG00000028528 E024 226.1438458 0.0001883831 1.670087e-03 6.186799e-03 15 64129916 64130029 114 + 2.327 2.400 0.245
ENSG00000028528 E025 221.4688265 0.0017573763 2.218319e-03 7.900698e-03 15 64130228 64130321 94 + 2.308 2.397 0.297
ENSG00000028528 E026 6.4778060 0.0442058129 6.952083e-01 7.958398e-01 15 64131623 64131686 64 + 0.855 0.909 0.206
ENSG00000028528 E027 284.2623511 0.0003701431 6.929312e-08 7.257905e-07 15 64131687 64131828 142 + 2.404 2.522 0.393
ENSG00000028528 E028 194.6560102 0.0012132011 1.129983e-05 7.416569e-05 15 64131829 64131892 64 + 2.234 2.362 0.427
ENSG00000028528 E029 2.0337374 0.0084653226 3.939505e-01 5.378588e-01 15 64132340 64132376 37 + 0.546 0.401 -0.732
ENSG00000028528 E030 6.9945033 0.0033430796 9.219663e-01 9.547701e-01 15 64134176 64134663 488 + 0.902 0.913 0.042
ENSG00000028528 E031 263.6450471 0.0003203052 3.057620e-07 2.823853e-06 15 64134664 64134807 144 + 2.374 2.488 0.381
ENSG00000028528 E032 0.6986918 0.0172671820 1.902968e-01 3.141548e-01 15 64134808 64134954 147 + 0.107 0.330 2.024
ENSG00000028528 E033 185.7928801 0.0002206873 5.986357e-07 5.215440e-06 15 64136330 64136410 81 + 2.215 2.344 0.431
ENSG00000028528 E034 103.6214568 0.0014705780 5.662388e-03 1.772070e-02 15 64136861 64136864 4 + 1.974 2.077 0.347
ENSG00000028528 E035 181.0540493 0.0004526976 9.333400e-06 6.246016e-05 15 64136865 64136932 68 + 2.208 2.329 0.403
ENSG00000028528 E036 330.6850629 0.0002711774 3.852554e-18 1.972580e-16 15 64137568 64138041 474 + 2.439 2.613 0.578
ENSG00000028528 E037 11.6426089 0.1278723065 2.468709e-01 3.822742e-01 15 64138042 64138097 56 + 1.192 0.950 -0.878
ENSG00000028528 E038 39.1414987 0.0373152344 1.345198e-05 8.673464e-05 15 64138098 64139002 905 + 1.774 1.254 -1.786
ENSG00000028528 E039 19.5559072 0.0155676870 8.103645e-05 4.329173e-04 15 64139003 64139810 808 + 1.462 1.049 -1.454
ENSG00000028528 E040 11.1265058 0.0809160463 1.581268e-01 2.726157e-01 15 64139811 64139919 109 + 1.192 0.927 -0.963
ENSG00000028528 E041 97.5876064 0.0024305972 1.225356e-07 1.223915e-06 15 64139920 64141696 1777 + 2.091 1.855 -0.794
ENSG00000028528 E042 86.5243342 0.0062042726 3.421377e-02 8.017039e-02 15 64141697 64142667 971 + 1.998 1.872 -0.422
ENSG00000028528 E043 11.9140724 0.0014814461 9.678570e-01 9.839104e-01 15 64142668 64142702 35 + 1.115 1.118 0.011
ENSG00000028528 E044 69.3801123 0.0005039645 7.071717e-01 8.051514e-01 15 64142703 64143254 552 + 1.857 1.840 -0.059
ENSG00000028528 E045 108.3940485 0.0065808733 7.692233e-02 1.545714e-01 15 64143255 64144231 977 + 2.001 2.079 0.261
ENSG00000028528 E046 2.5797653 0.0061808763 1.679643e-02 4.448653e-02 15 64145626 64146090 465 + 0.326 0.713 1.898