ENSMUSG00000022544

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
ENSMUST00000064635 ENSMUSG00000022544 Control shVgll3 Eef2kmt protein_coding protein_coding 20.16142 20.30769 20.01515 0.78546 0.370476 -0.02092348 8.846716 7.685454 10.007978 0.2160402 0.62842199 0.3805129 0.44015000 0.37950000 0.5008000 0.12130000 4.491119e-01 2.927241e-07 FALSE  
ENSMUST00000139584 ENSMUSG00000022544 Control shVgll3 Eef2kmt protein_coding protein_coding 20.16142 20.30769 20.01515 0.78546 0.370476 -0.02092348 6.018421 5.794725 6.242118 0.3679263 0.86794961 0.1071173 0.29875000 0.28643333 0.3110667 0.02463333 9.757509e-01 2.927241e-07 FALSE  
ENSMUST00000140718 ENSMUSG00000022544 Control shVgll3 Eef2kmt protein_coding retained_intron 20.16142 20.30769 20.01515 0.78546 0.370476 -0.02092348 1.285551 1.415269 1.155832 0.3139155 0.05378254 -0.2898742 0.06360000 0.06940000 0.0578000 -0.01160000 9.706657e-01 2.927241e-07 FALSE  
ENSMUST00000230238 ENSMUSG00000022544 Control shVgll3 Eef2kmt protein_coding protein_coding_CDS_not_defined 20.16142 20.30769 20.01515 0.78546 0.370476 -0.02092348 1.015741 2.031482 0.000000 0.6038965 0.00000000 -7.6734728 0.04898333 0.09796667 0.0000000 -0.09796667 2.927241e-07 2.927241e-07 FALSE  
MSTRG.8715.6 ENSMUSG00000022544 Control shVgll3 Eef2kmt protein_coding   20.16142 20.30769 20.01515 0.78546 0.370476 -0.02092348 2.018734 1.765904 2.271565 0.3339419 0.24034600 0.3614697 0.10006667 0.08686667 0.1132667 0.02640000 9.706657e-01 2.927241e-07    
  • 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
ENSMUSG00000022544 E001 54.215848 0.0004149418 2.037029e-06 0.000270786 16 5062016 5062742 727 - 1.830 1.607 -0.756
ENSMUSG00000022544 E002 50.833592 0.0004654239 2.988730e-01 0.840448414 16 5062743 5063021 279 - 1.690 1.740 0.170
ENSMUSG00000022544 E003 48.412938 0.0004288924 3.322554e-01 0.863908375 16 5063022 5063249 228 - 1.713 1.667 -0.157
ENSMUSG00000022544 E004 3.610938 0.0063120338 7.568404e-01 0.976264271 16 5065239 5065250 12 - 0.641 0.688 0.198
ENSMUSG00000022544 E005 12.642016 0.0481604348 9.226057e-01 0.997946529 16 5065251 5065316 66 - 1.133 1.136 0.012
ENSMUSG00000022544 E006 61.397061 0.0003357843 1.638895e-01 0.737242038 16 5065317 5065463 147 - 1.820 1.762 -0.199
ENSMUSG00000022544 E007 144.666394 0.0002341335 4.454814e-01 0.913359639 16 5066429 5066694 266 - 2.152 2.173 0.070
ENSMUSG00000022544 E008 7.240660 0.0049188442 1.894151e-01 0.765891268 16 5066695 5066775 81 - 0.835 0.992 0.594
ENSMUSG00000022544 E009 45.942678 0.0004733716 9.901489e-01 1.000000000 16 5066776 5066850 75 - 1.670 1.670 0.001
ENSMUSG00000022544 E010 37.381433 0.0005948183 9.826155e-01 1.000000000 16 5066851 5066909 59 - 1.582 1.584 0.007
ENSMUSG00000022544 E011 9.553630 0.0020744034 3.045955e-01 0.845953915 16 5066910 5067210 301 - 0.968 1.077 0.398
ENSMUSG00000022544 E012 62.887204 0.0003313253 1.139285e-01 0.658453158 16 5067211 5067312 102 - 1.771 1.839 0.228
ENSMUSG00000022544 E013 3.290567 0.0052383427 5.559996e-01 0.939560912 16 5067313 5067365 53 - 0.671 0.582 -0.387
ENSMUSG00000022544 E014 44.155790 0.0045481200 1.616332e-01 0.733971228 16 5068339 5068419 81 - 1.612 1.696 0.285
ENSMUSG00000022544 E015 3.459145 0.0307429225 2.083061e-01 0.782866316 16 5069037 5069081 45 - 0.539 0.747 0.899
ENSMUSG00000022544 E016 1.323014 0.0849492337 4.364876e-01 0.910653162 16 5070845 5070888 44 - 0.284 0.442 0.937
ENSMUSG00000022544 E017 14.832235 0.0013502696 5.243631e-01 0.934348708 16 5070889 5070951 63 - 1.171 1.227 0.198
ENSMUSG00000022544 E018 0.000000       16 5073705 5073847 143 -      

Help

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