ENSMUSG00000027207

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
ENSMUST00000094604 ENSMUSG00000027207 Control shVgll3 Galk2 protein_coding protein_coding 24.54629 25.15571 23.93688 0.7788723 1.182302 -0.07162188 14.532128 15.5835274 13.480728 0.06114448 0.7908007 -0.20897910 0.59181667 0.62056667 0.56306667 -0.05750000 0.7341614438 0.0004138068 FALSE TRUE
ENSMUST00000110454 ENSMUSG00000027207 Control shVgll3 Galk2 protein_coding retained_intron 24.54629 25.15571 23.93688 0.7788723 1.182302 -0.07162188 2.962844 4.2030859 1.722603 0.81788415 0.8881147 -1.28193616 0.12063333 0.16550000 0.07576667 -0.08973333 0.9706656688 0.0004138068 FALSE TRUE
ENSMUST00000131643 ENSMUSG00000027207 Control shVgll3 Galk2 protein_coding nonsense_mediated_decay 24.54629 25.15571 23.93688 0.7788723 1.182302 -0.07162188 2.335672 0.8649414 3.806403 0.08938432 0.8594237 2.12495540 0.09608333 0.03453333 0.15763333 0.12310000 0.0004138068 0.0004138068 FALSE FALSE
MSTRG.13490.4 ENSMUSG00000027207 Control shVgll3 Galk2 protein_coding   24.54629 25.15571 23.93688 0.7788723 1.182302 -0.07162188 3.022081 3.0710135 2.973149 0.20700691 0.2461167 -0.04656893 0.12416667 0.12246667 0.12586667 0.00340000 1.0000000000 0.0004138068 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
ENSMUSG00000027207 E001 0.0000000       2 125701029 125701053 25 +      
ENSMUSG00000027207 E002 0.0000000       2 125701054 125701067 14 +      
ENSMUSG00000027207 E003 0.8224946 0.1093142618 7.636409e-01 0.977990679 2 125701068 125701297 230 + 0.232 0.284 0.386
ENSMUSG00000027207 E004 0.6602759 0.0178799258 2.773050e-02   2 125701858 125702207 350 + 0.382 0.000 -13.851
ENSMUSG00000027207 E005 0.1613534 0.0343959451 4.346632e-01   2 125708027 125708162 136 + 0.131 0.000 -11.557
ENSMUSG00000027207 E006 0.1613534 0.0343959451 4.346632e-01   2 125708163 125708169 7 + 0.131 0.000 -11.557
ENSMUSG00000027207 E007 0.1613534 0.0343959451 4.346632e-01   2 125708170 125708173 4 + 0.131 0.000 -11.557
ENSMUSG00000027207 E008 1.7950115 0.1589998898 7.177540e-01 0.969269541 2 125708174 125708183 10 + 0.493 0.404 -0.459
ENSMUSG00000027207 E009 3.7796760 0.0046600218 6.221427e-01 0.955141978 2 125708184 125708187 4 + 0.718 0.642 -0.322
ENSMUSG00000027207 E010 65.3432121 0.0007334249 7.214389e-03 0.184669422 2 125708188 125708288 101 + 1.883 1.758 -0.423
ENSMUSG00000027207 E011 31.2725968 0.0167338796 3.239647e-02 0.406170579 2 125708289 125708305 17 + 1.600 1.408 -0.659
ENSMUSG00000027207 E012 2.4628688 0.0076256801 3.189809e-01 0.855077221 2 125712246 125712381 136 + 0.620 0.454 -0.782
ENSMUSG00000027207 E013 90.5959656 0.0002618415 7.016216e-04 0.036725611 2 125720198 125720286 89 + 2.025 1.895 -0.439
ENSMUSG00000027207 E014 0.1667494 0.0341293375 4.350554e-01   2 125729763 125729783 21 + 0.131 0.000 -11.561
ENSMUSG00000027207 E015 99.2183593 0.0036739303 7.068895e-06 0.000818732 2 125729784 125729907 124 + 2.098 1.890 -0.701
ENSMUSG00000027207 E016 86.9848286 0.0003205645 1.904628e-01 0.765891268 2 125735273 125735363 91 + 1.972 1.916 -0.186
ENSMUSG00000027207 E017 133.6815519 0.0001912461 1.049814e-03 0.049719531 2 125738565 125738711 147 + 2.076 2.169 0.313
ENSMUSG00000027207 E018 3.1385999 0.0151937042 9.700799e-01 1.000000000 2 125751049 125753364 2316 + 0.620 0.610 -0.045
ENSMUSG00000027207 E019 101.6524035 0.0004359896 5.327675e-03 0.149098432 2 125771481 125771579 99 + 1.958 2.051 0.313
ENSMUSG00000027207 E020 156.9745881 0.0005108447 2.534807e-05 0.002512896 2 125773173 125773325 153 + 2.131 2.248 0.392
ENSMUSG00000027207 E021 3.8030987 0.0627644398 3.075619e-01 0.847059008 2 125773528 125773644 117 + 0.582 0.749 0.708
ENSMUSG00000027207 E022 2.2955996 0.0095298768 4.054944e-01 0.893478066 2 125780111 125780182 72 + 0.441 0.576 0.651
ENSMUSG00000027207 E023 244.3844158 0.0011695790 3.900105e-01 0.886236081 2 125788704 125788914 211 + 2.379 2.396 0.057
ENSMUSG00000027207 E024 0.3270836 0.0277287532 9.291994e-01   2 125788915 125789270 356 + 0.131 0.116 -0.196
ENSMUSG00000027207 E025 248.0050307 0.0001403746 2.330217e-01 0.803782806 2 125817180 125817381 202 + 2.384 2.404 0.066
ENSMUSG00000027207 E026 782.7062445 0.0014737237 4.269924e-01 0.905450382 2 125817382 125824974 7593 + 2.903 2.884 -0.062
ENSMUSG00000027207 E027 274.5888782 0.0001436901 2.644971e-01 0.814336897 2 125824975 125826219 1245 + 2.430 2.447 0.056

Help

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