ENSMUSG00000040054

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
ENSMUST00000217851 ENSMUSG00000040054 Control shVgll3 Baz2a protein_coding protein_coding 8.43199 10.10376 6.760219 0.3139202 0.2225695 -0.5790449 0.5073064 1.0146127 0.0000000 0.61822243 0.00000000 -6.6789349 0.05133333 0.10266667 0.00000000 -0.10266667 6.740752e-01 1.244525e-14 FALSE TRUE
ENSMUST00000218772 ENSMUSG00000040054 Control shVgll3 Baz2a protein_coding retained_intron 8.43199 10.10376 6.760219 0.3139202 0.2225695 -0.5790449 0.4731640 0.6127395 0.3335884 0.07769320 0.03092158 -0.8579475 0.05471667 0.06030000 0.04913333 -0.01116667 9.706657e-01 1.244525e-14 TRUE TRUE
ENSMUST00000220049 ENSMUSG00000040054 Control shVgll3 Baz2a protein_coding protein_coding 8.43199 10.10376 6.760219 0.3139202 0.2225695 -0.5790449 0.6168338 0.3610159 0.8726518 0.36101587 0.43644227 1.2503635 0.08465000 0.03766667 0.13163333 0.09396667 9.706657e-01 1.244525e-14 FALSE TRUE
MSTRG.2958.11 ENSMUSG00000040054 Control shVgll3 Baz2a protein_coding   8.43199 10.10376 6.760219 0.3139202 0.2225695 -0.5790449 2.6955058 3.7738613 1.6171502 1.89406744 0.96623219 -1.2175117 0.30156667 0.36393333 0.23920000 -0.12473333 9.959354e-01 1.244525e-14 FALSE TRUE
MSTRG.2958.12 ENSMUSG00000040054 Control shVgll3 Baz2a protein_coding   8.43199 10.10376 6.760219 0.3139202 0.2225695 -0.5790449 0.6882127 0.0000000 1.3764253 0.00000000 0.36260283 7.1152261 0.10245000 0.00000000 0.20490000 0.20490000 1.141277e-07 1.244525e-14 FALSE TRUE
MSTRG.2958.13 ENSMUSG00000040054 Control shVgll3 Baz2a protein_coding   8.43199 10.10376 6.760219 0.3139202 0.2225695 -0.5790449 1.1805569 1.5193572 0.8417566 0.31355468 0.40885473 -0.8444123 0.13661667 0.15203333 0.12120000 -0.03083333 9.706657e-01 1.244525e-14 TRUE TRUE
MSTRG.2958.14 ENSMUSG00000040054 Control shVgll3 Baz2a protein_coding   8.43199 10.10376 6.760219 0.3139202 0.2225695 -0.5790449 1.0028709 0.7191994 1.2865424 0.71919941 0.87101020 0.8302840 0.13066667 0.07503333 0.18630000 0.11126667 8.131403e-01 1.244525e-14 FALSE TRUE
MSTRG.2958.6 ENSMUSG00000040054 Control shVgll3 Baz2a protein_coding   8.43199 10.10376 6.760219 0.3139202 0.2225695 -0.5790449 0.8067542 1.6135085 0.0000000 0.04320107 0.00000000 -7.3429711 0.07995000 0.15990000 0.00000000 -0.15990000 1.244525e-14 1.244525e-14 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.

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
ENSMUSG00000040054 E001 0.0000000       10 127927446 127927450 5 +      
ENSMUSG00000040054 E002 0.0000000       10 127927451 127927478 28 +      
ENSMUSG00000040054 E003 0.0000000       10 127927479 127927481 3 +      
ENSMUSG00000040054 E004 0.4933529 0.0300578374 0.160124900   10 127927482 127927503 22 + 0.000 0.259 10.687
ENSMUSG00000040054 E005 0.6594395 0.0266829369 0.519492741   10 127927504 127927517 14 + 0.146 0.259 1.036
ENSMUSG00000040054 E006 5.7684334 0.0038980743 0.028754936 0.38224460 10 127927518 127927645 128 + 0.622 0.921 1.206
ENSMUSG00000040054 E007 3.1264622 0.0057590953 0.737071631 0.97290014 10 127928329 127928651 323 + 0.578 0.630 0.229
ENSMUSG00000040054 E008 1.6370651 0.0107884185 0.169874141 0.74790655 10 127928652 127928719 68 + 0.254 0.502 1.451
ENSMUSG00000040054 E009 2.7980324 0.0116612357 0.001280406 0.05842267 10 127932249 127932307 59 + 0.146 0.729 3.451
ENSMUSG00000040054 E010 5.2698444 0.0058935211 0.999243046 1.00000000 10 127932308 127932392 85 + 0.791 0.790 -0.002
ENSMUSG00000040054 E011 0.1667494 0.0352239310 0.340019012   10 127932746 127932749 4 + 0.146 0.000 -12.559
ENSMUSG00000040054 E012 0.3324796 0.0294344671 0.782943670   10 127932750 127932755 6 + 0.146 0.105 -0.549
ENSMUSG00000040054 E013 15.2566074 0.0138858331 0.371086502 0.87660943 10 127932756 127932929 174 + 1.258 1.164 -0.331
ENSMUSG00000040054 E014 24.1527463 0.0008223189 0.389024315 0.88612996 10 127944763 127944900 138 + 1.429 1.368 -0.214
ENSMUSG00000040054 E015 96.3775984 0.0003296348 0.850185795 0.98743779 10 127946624 127947217 594 + 1.977 1.983 0.020
ENSMUSG00000040054 E016 2.9516417 0.0065661314 0.880293980 0.99189545 10 127947218 127948018 801 + 0.578 0.601 0.103
ENSMUSG00000040054 E017 20.0058855 0.0258525932 0.985835864 1.00000000 10 127948451 127948636 186 + 1.319 1.313 -0.021
ENSMUSG00000040054 E018 1.3144624 0.0114352493 0.358677262 0.87517695 10 127949329 127949331 3 + 0.254 0.420 1.036
ENSMUSG00000040054 E019 31.4109473 0.0006591891 0.329616124 0.86241242 10 127949332 127949550 219 + 1.466 1.527 0.208
ENSMUSG00000040054 E020 86.7592298 0.0018510580 0.086783782 0.61391526 10 127950203 127950652 450 + 1.891 1.964 0.246
ENSMUSG00000040054 E021 17.4480546 0.0010982815 0.045107524 0.47327837 10 127950894 127950954 61 + 1.150 1.319 0.597
ENSMUSG00000040054 E022 23.5065107 0.0007998966 0.384164247 0.88463649 10 127950955 127951929 975 + 1.344 1.406 0.215
ENSMUSG00000040054 E023 19.1113539 0.0094799863 0.723098576 0.97061080 10 127951930 127952038 109 + 1.277 1.308 0.110
ENSMUSG00000040054 E024 18.5806838 0.0066588539 0.391921560 0.88725021 10 127952175 127952276 102 + 1.238 1.314 0.264
ENSMUSG00000040054 E025 42.4616714 0.0004581609 0.699050657 0.96475394 10 127952416 127952626 211 + 1.643 1.621 -0.075
ENSMUSG00000040054 E026 23.8373637 0.0008229221 0.614781943 0.95421876 10 127954424 127954524 101 + 1.410 1.373 -0.128
ENSMUSG00000040054 E027 20.0516738 0.0009136523 0.509412378 0.93083264 10 127954824 127954889 66 + 1.286 1.336 0.175
ENSMUSG00000040054 E028 35.3528418 0.0005136872 0.374124600 0.87859307 10 127955139 127955369 231 + 1.522 1.574 0.177
ENSMUSG00000040054 E029 5.9070237 0.0154980967 0.178188743 0.75677617 10 127955370 127955492 123 + 0.932 0.750 -0.709
ENSMUSG00000040054 E030 27.9484401 0.0006917926 0.861137450 0.98884244 10 127955493 127955747 255 + 1.448 1.459 0.036
ENSMUSG00000040054 E031 39.4848517 0.0010181787 0.943543677 1.00000000 10 127956980 127957194 215 + 1.598 1.601 0.011
ENSMUSG00000040054 E032 27.4552153 0.0006836345 0.442882972 0.91335964 10 127957460 127957534 75 + 1.416 1.467 0.174
ENSMUSG00000040054 E033 41.0779949 0.0005016027 0.117148583 0.66203098 10 127957669 127957849 181 + 1.666 1.580 -0.294
ENSMUSG00000040054 E034 14.1632115 0.0013797350 0.126262898 0.67814909 10 127957937 127957996 60 + 1.084 1.225 0.502
ENSMUSG00000040054 E035 29.7388037 0.0185006225 0.157968979 0.72708140 10 127958175 127958319 145 + 1.402 1.527 0.429
ENSMUSG00000040054 E036 191.7629220 0.0044685702 0.923093191 0.99818304 10 127958893 127959524 632 + 2.281 2.276 -0.017
ENSMUSG00000040054 E037 71.4261434 0.0043841131 0.869643486 0.98919635 10 127959635 127959857 223 + 1.859 1.849 -0.032
ENSMUSG00000040054 E038 53.1007000 0.0004078251 0.079852986 0.59536025 10 127959976 127960131 156 + 1.775 1.689 -0.289
ENSMUSG00000040054 E039 41.7490819 0.0018574078 0.600918250 0.95258805 10 127960204 127960355 152 + 1.606 1.635 0.098
ENSMUSG00000040054 E040 85.7476917 0.0002601226 0.919107843 0.99768646 10 127960762 127961051 290 + 1.933 1.928 -0.017
ENSMUSG00000040054 E041 25.2336702 0.0141903585 0.264516615 0.81433690 10 127961138 127961270 133 + 1.466 1.368 -0.340
ENSMUSG00000040054 E042 4.4316615 0.0130779926 0.711880923 0.96804990 10 127961271 127961367 97 + 0.761 0.706 -0.226
ENSMUSG00000040054 E043 33.5426161 0.0216661500 0.926961686 0.99930331 10 127961368 127961514 147 + 1.531 1.531 -0.002
ENSMUSG00000040054 E044 4.6175469 0.0591461125 0.175015314 0.75672932 10 127961887 127961889 3 + 0.868 0.630 -0.965
ENSMUSG00000040054 E045 53.6587539 0.0004103574 0.052585012 0.50120656 10 127961890 127962110 221 + 1.783 1.689 -0.318
ENSMUSG00000040054 E046 40.5130584 0.0018447439 0.274087175 0.81981338 10 127962195 127962338 144 + 1.647 1.583 -0.219
ENSMUSG00000040054 E047 736.5299065 0.0018445079 0.713407712 0.96841481 10 127962457 127965271 2815 + 2.864 2.857 -0.025

Help

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