ENSMUSG00000029823

1 Isoform Switch

Summary Plot

Only the isoforms with fraction > 5% are shown below.

  • Note:

    • About the Coding Potential: Please check the spreadsheet in the “Results” tag to confirm the coding potential. The above figure only show the predicted coding potential. The “gene_biotype” in the result spreadsheet is from the database record. Therefore, if you find conflicts between “gene_biotype” and “codingPotential”, please trust the “gene_biotype”.

    • 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
ENSMUST00000057692 ENSMUSG00000029823 Control shVgll3 Luc7l2 protein_coding protein_coding 102.2595 92.01176 112.5073 2.590078 2.148842 0.2900995 17.975514 14.808654 21.142374 0.1173091 2.2210368 0.513405145 0.17493333 0.16113333 0.18873333 0.02760000 0.970665669 0.006844267 FALSE  
ENSMUST00000159936 ENSMUSG00000029823 Control shVgll3 Luc7l2 protein_coding nonsense_mediated_decay 102.2595 92.01176 112.5073 2.590078 2.148842 0.2900995 6.537760 6.917649 6.157870 0.4405652 0.5095293 -0.167593623 0.06500000 0.07533333 0.05466667 -0.02066667 0.571489621 0.006844267 FALSE  
ENSMUST00000161538 ENSMUSG00000029823 Control shVgll3 Luc7l2 protein_coding protein_coding 102.2595 92.01176 112.5073 2.590078 2.148842 0.2900995 10.123769 9.428060 10.819478 0.7202174 1.6879867 0.198401447 0.09910000 0.10230000 0.09590000 -0.00640000 0.979253088 0.006844267 FALSE  
ENSMUST00000163047 ENSMUSG00000029823 Control shVgll3 Luc7l2 protein_coding protein_coding 102.2595 92.01176 112.5073 2.590078 2.148842 0.2900995 5.413499 5.394963 5.432035 0.3388576 1.4252702 0.009861287 0.05368333 0.05873333 0.04863333 -0.01010000 0.970665669 0.006844267 FALSE  
MSTRG.19014.10 ENSMUSG00000029823 Control shVgll3 Luc7l2 protein_coding   102.2595 92.01176 112.5073 2.590078 2.148842 0.2900995 9.812991 3.737811 15.888171 2.0046412 1.1314197 2.084740767 0.09055000 0.04013333 0.14096667 0.10083333 0.941443736 0.006844267 FALSE  
MSTRG.19014.19 ENSMUSG00000029823 Control shVgll3 Luc7l2 protein_coding   102.2595 92.01176 112.5073 2.590078 2.148842 0.2900995 8.894926 8.720093 9.069760 0.1539105 0.3213531 0.056657186 0.08778333 0.09496667 0.08060000 -0.01436667 0.719568435 0.006844267 FALSE  
MSTRG.19014.24 ENSMUSG00000029823 Control shVgll3 Luc7l2 protein_coding   102.2595 92.01176 112.5073 2.590078 2.148842 0.2900995 9.578311 7.965623 11.191000 0.2062983 0.7802865 0.489958342 0.09296667 0.08663333 0.09930000 0.01266667 0.935610699 0.006844267 FALSE  
MSTRG.19014.5 ENSMUSG00000029823 Control shVgll3 Luc7l2 protein_coding   102.2595 92.01176 112.5073 2.590078 2.148842 0.2900995 10.790137 10.629288 10.950985 0.3487609 1.1520287 0.042975734 0.10631667 0.11553333 0.09710000 -0.01843333 0.921527099 0.006844267 FALSE  
MSTRG.19014.7 ENSMUSG00000029823 Control shVgll3 Luc7l2 protein_coding   102.2595 92.01176 112.5073 2.590078 2.148842 0.2900995 10.156011 13.185594 7.126428 1.5494182 0.7124336 -0.886782314 0.10348333 0.14360000 0.06336667 -0.08023333 0.006844267 0.006844267 FALSE  
  • 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.

Help

Please Click HERE to learn more details about the results of IsoformSwitchAnalyzeR.

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 shVgll3 Control log2fold_Control_shVgll3
ENSMUSG00000029823 E001 0.9776160 1.614250e-02 7.825950e-01 9.790322e-01 6 38528269 38528399 131 + 0.275 0.323 0.321
ENSMUSG00000029823 E002 1.4802227 1.341691e-01 9.870783e-01 1.000000e+00 6 38528400 38528408 9 + 0.393 0.393 0.000
ENSMUSG00000029823 E003 13.1613937 2.807798e-03 4.428832e-01 9.133596e-01 6 38528409 38528448 40 + 1.116 1.186 0.249
ENSMUSG00000029823 E004 40.6272264 8.810751e-03 5.231361e-01 9.337798e-01 6 38528449 38528465 17 + 1.597 1.640 0.147
ENSMUSG00000029823 E005 721.8176354 7.617777e-03 8.710579e-01 9.894866e-01 6 38528466 38528737 272 + 2.861 2.850 -0.035
ENSMUSG00000029823 E006 195.8221602 6.481652e-04 5.875922e-01 9.512445e-01 6 38528738 38528777 40 + 2.299 2.281 -0.060
ENSMUSG00000029823 E007 167.8525046 1.519533e-04 1.570004e-01 7.259887e-01 6 38528778 38528843 66 + 2.243 2.201 -0.141
ENSMUSG00000029823 E008 0.1613534 3.432683e-02 5.970822e-01   6 38528844 38528879 36 + 0.112 0.000 -9.035
ENSMUSG00000029823 E009 9.3824636 2.021573e-03 2.249566e-02 3.364534e-01 6 38529066 38530942 1877 + 0.891 1.130 0.885
ENSMUSG00000029823 E010 35.5431720 5.228680e-04 7.367696e-02 5.803859e-01 6 38531915 38531998 84 + 1.512 1.614 0.348
ENSMUSG00000029823 E011 136.5133618 2.247885e-04 6.059056e-03 1.618238e-01 6 38531999 38532657 659 + 2.098 2.179 0.272
ENSMUSG00000029823 E012 544.4147788 9.063961e-04 3.483395e-07 6.081904e-05 6 38532658 38534315 1658 + 2.686 2.787 0.338
ENSMUSG00000029823 E013 76.4737391 4.083357e-04 4.586259e-02 4.763264e-01 6 38534316 38534575 260 + 1.850 1.929 0.265
ENSMUSG00000029823 E014 95.2844206 2.910999e-03 5.126604e-05 4.489233e-03 6 38534576 38534786 211 + 1.893 2.070 0.596
ENSMUSG00000029823 E015 119.1241507 3.700728e-03 3.340245e-02 4.126102e-01 6 38534787 38535010 224 + 2.034 2.125 0.304
ENSMUSG00000029823 E016 132.5902396 4.856440e-04 1.809460e-01 7.603324e-01 6 38535507 38536138 632 + 2.105 2.145 0.135
ENSMUSG00000029823 E017 19.7024994 6.558053e-03 2.362329e-02 3.445701e-01 6 38536139 38536149 11 + 1.220 1.409 0.659
ENSMUSG00000029823 E018 31.3840702 5.166631e-03 2.990464e-03 1.013984e-01 6 38536150 38536239 90 + 1.405 1.610 0.701
ENSMUSG00000029823 E019 69.3423482 5.014382e-04 3.133037e-02 3.986951e-01 6 38538332 38539168 837 + 1.885 1.788 -0.327
ENSMUSG00000029823 E020 532.1882578 1.032962e-04 1.856310e-05 1.921692e-03 6 38539169 38542589 3421 + 2.754 2.683 -0.237
ENSMUSG00000029823 E021 22.5633051 1.543514e-03 1.054695e-01 6.429296e-01 6 38542590 38542657 68 + 1.420 1.296 -0.433
ENSMUSG00000029823 E022 1269.2943547 1.875925e-03 8.562627e-03 2.019468e-01 6 38542658 38545781 3124 + 3.127 3.066 -0.204
ENSMUSG00000029823 E023 167.2474375 2.421110e-04 9.484755e-01 1.000000e+00 6 38545782 38545852 71 + 2.224 2.222 -0.004
ENSMUSG00000029823 E024 1262.4149446 1.421554e-04 8.849997e-01 9.933531e-01 6 38545853 38546866 1014 + 3.101 3.096 -0.016
ENSMUSG00000029823 E025 158.2303793 3.053291e-04 1.694313e-02 2.945226e-01 6 38546867 38546940 74 + 2.168 2.235 0.222
ENSMUSG00000029823 E026 34.3781647 5.536448e-04 1.189739e-01 6.647823e-01 6 38546941 38546944 4 + 1.504 1.594 0.307
ENSMUSG00000029823 E027 84.9670223 2.790283e-04 5.108136e-01 9.308326e-01 6 38546945 38547036 92 + 1.944 1.915 -0.096
ENSMUSG00000029823 E028 424.4830402 9.802027e-05 4.897569e-03 1.407351e-01 6 38547037 38547444 408 + 2.649 2.596 -0.175
ENSMUSG00000029823 E029 305.8309806 2.925698e-03 1.046428e-01 6.415676e-01 6 38547445 38547539 95 + 2.508 2.453 -0.185
ENSMUSG00000029823 E030 3.6178132 7.642968e-03 9.169135e-01 9.976865e-01 6 38547977 38548023 47 + 0.656 0.670 0.058
ENSMUSG00000029823 E031 89.5272110 6.531729e-03 5.827864e-01 9.485549e-01 6 38561976 38562074 99 + 1.941 1.969 0.092
ENSMUSG00000029823 E032 233.1371251 1.134267e-03 1.600520e-01 7.302218e-01 6 38566111 38566221 111 + 2.349 2.387 0.125
ENSMUSG00000029823 E033 380.1879536 6.607491e-04 4.486149e-01 9.134999e-01 6 38568223 38568366 144 + 2.572 2.586 0.046
ENSMUSG00000029823 E034 663.0394753 7.438997e-04 7.604003e-01 9.777250e-01 6 38569554 38569730 177 + 2.818 2.820 0.007
ENSMUSG00000029823 E035 260.5056475 1.402725e-04 1.713260e-01 7.503449e-01 6 38570313 38570404 92 + 2.429 2.395 -0.113
ENSMUSG00000029823 E036 192.9657866 1.497329e-04 8.138038e-01 9.839934e-01 6 38575720 38575749 30 + 2.289 2.280 -0.030
ENSMUSG00000029823 E037 680.3847433 1.491834e-03 5.597759e-01 9.411047e-01 6 38580212 38580403 192 + 2.826 2.836 0.033
ENSMUSG00000029823 E038 1992.3208887 5.830502e-05 1.210164e-01 6.687057e-01 6 38580404 38584059 3656 + 3.292 3.302 0.031
ENSMUSG00000029823 E039 990.3706053 7.169110e-05 1.576237e-01 7.268299e-01 6 38585088 38586405 1318 + 3.002 2.983 -0.064

Help

Please Click HERE to learn more details about the results from DEXseq.