ENSMUSG00000033684

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
ENSMUST00000035325 ENSMUSG00000033684 Control shVgll3 Qsox1 protein_coding protein_coding 119.0063 77.0592 160.9534 1.961683 5.996705 1.062507 27.609540 22.573212 32.64587 0.4202603 2.0504642 0.5320915 0.2477667 0.2930333 0.2025 -0.09053333 1.487667e-07 1.487667e-07 FALSE  
ENSMUST00000111764 ENSMUSG00000033684 Control shVgll3 Qsox1 protein_coding protein_coding 119.0063 77.0592 160.9534 1.961683 5.996705 1.062507 7.514394 3.658926 11.36986 0.7039783 2.5335311 1.6330534 0.0598000 0.0480000 0.0716 0.02360000 9.706657e-01 1.487667e-07 FALSE  
ENSMUST00000151368 ENSMUSG00000033684 Control shVgll3 Qsox1 protein_coding retained_intron 119.0063 77.0592 160.9534 1.961683 5.996705 1.062507 8.276207 6.033869 10.51854 0.5042347 0.3072034 0.8007618 0.0720000 0.0786000 0.0654 -0.01320000 9.649553e-01 1.487667e-07 FALSE  
ENSMUST00000194632 ENSMUSG00000033684 Control shVgll3 Qsox1 protein_coding protein_coding 119.0063 77.0592 160.9534 1.961683 5.996705 1.062507 71.767017 42.088471 101.44556 2.1136360 5.0530139 1.2690082 0.5876333 0.5455667 0.6297 0.08413333 3.064550e-02 1.487667e-07 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
ENSMUSG00000033684 E001 1.1480693 0.0127845169 3.818962e-02 4.417240e-01 1 155651775 155653903 2129 - 0.164 0.527 2.368
ENSMUSG00000033684 E002 0.0000000       1 155653904 155653904 1 -      
ENSMUSG00000033684 E003 0.3326527 0.0284760258 5.959058e-01   1 155653905 155653907 3 - 0.090 0.168 1.046
ENSMUSG00000033684 E004 1045.4089349 0.0017000334 2.698486e-01 8.182921e-01 1 155653908 155654597 690 - 2.999 2.975 -0.080
ENSMUSG00000033684 E005 440.8070124 0.0001587817 1.515154e-17 1.042604e-14 1 155654598 155655184 587 - 2.562 2.713 0.502
ENSMUSG00000033684 E006 371.1388413 0.0012113799 6.083329e-05 5.156724e-03 1 155655185 155655463 279 - 2.508 2.607 0.329
ENSMUSG00000033684 E007 1223.8914284 0.0002022933 3.174801e-01 8.533738e-01 1 155655464 155655664 201 - 3.064 3.052 -0.042
ENSMUSG00000033684 E008 321.1659245 0.0001185132 9.186258e-01 9.976865e-01 1 155655665 155655684 20 - 2.480 2.481 0.003
ENSMUSG00000033684 E009 875.6758944 0.0006242521 8.178996e-01 9.841109e-01 1 155657021 155657200 180 - 2.916 2.912 -0.016
ENSMUSG00000033684 E010 1.9752970 0.0115118429 1.831993e-02 3.061523e-01 1 155657577 155657742 166 - 0.282 0.680 2.045
ENSMUSG00000033684 E011 459.0297535 0.0002605913 7.929029e-01 9.805859e-01 1 155658271 155658418 148 - 2.637 2.631 -0.021
ENSMUSG00000033684 E012 466.3840858 0.0001121094 8.708171e-03 2.029247e-01 1 155659149 155659271 123 - 2.627 2.671 0.148
ENSMUSG00000033684 E013 325.8507235 0.0013450036 9.652567e-02 6.317038e-01 1 155662540 155662669 130 - 2.472 2.516 0.148
ENSMUSG00000033684 E014 7.6989403 0.0349259445 7.081451e-01 9.661215e-01 1 155663228 155663538 311 - 0.896 0.956 0.225
ENSMUSG00000033684 E015 384.8489186 0.0001225817 7.223080e-02 5.796801e-01 1 155665044 155665178 135 - 2.570 2.534 -0.121
ENSMUSG00000033684 E016 534.0707906 0.0002772266 2.278153e-02 3.386256e-01 1 155666727 155666872 146 - 2.714 2.672 -0.139
ENSMUSG00000033684 E017 348.1532202 0.0001054032 2.253085e-01 7.984698e-01 1 155667940 155668030 91 - 2.523 2.498 -0.086
ENSMUSG00000033684 E018 32.1386920 0.0106908360 2.194177e-01 7.931853e-01 1 155669915 155670088 174 - 1.458 1.556 0.337
ENSMUSG00000033684 E019 44.5848462 0.0007486918 3.783676e-02 4.399746e-01 1 155670089 155670291 203 - 1.591 1.705 0.385
ENSMUSG00000033684 E020 503.3709728 0.0001193634 1.560211e-01 7.250398e-01 1 155670292 155670394 103 - 2.683 2.657 -0.085
ENSMUSG00000033684 E021 256.9044563 0.0001312194 1.256515e-02 2.454215e-01 1 155671097 155671142 46 - 2.403 2.341 -0.205
ENSMUSG00000033684 E022 2.6343322 0.0287294126 7.930815e-02 5.927898e-01 1 155671143 155671163 21 - 0.624 0.289 -1.761
ENSMUSG00000033684 E023 49.1468808 0.0004250297 7.692181e-01 9.779907e-01 1 155677193 155679442 2250 - 1.679 1.662 -0.057
ENSMUSG00000033684 E024 402.9021842 0.0007125472 1.786111e-01 7.571012e-01 1 155679443 155679543 101 - 2.588 2.557 -0.105
ENSMUSG00000033684 E025 786.6128922 0.0003230376 1.063755e-02 2.227813e-01 1 155688272 155688635 364 - 2.881 2.841 -0.135

Help

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