ENSMUSG00000019124

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
ENSMUST00000019268 ENSMUSG00000019124 Control shVgll3 Scrn1 protein_coding protein_coding 34.05001 31.06163 37.0384 0.6174579 1.658583 0.2538135 12.402989 12.136938 12.66904 0.3213551 0.3187615 0.0618527 0.36730000 0.39073333 0.3438667 -0.04686667 8.918968e-01 2.493052e-14 FALSE  
ENSMUST00000203800 ENSMUSG00000019124 Control shVgll3 Scrn1 protein_coding protein_coding 34.05001 31.06163 37.0384 0.6174579 1.658583 0.2538135 20.189858 16.282881 24.09683 0.7737094 1.9104679 0.5652005 0.58621667 0.52376667 0.6486667 0.12490000 7.890974e-02 2.493052e-14 FALSE  
ENSMUST00000205108 ENSMUSG00000019124 Control shVgll3 Scrn1 protein_coding protein_coding 34.05001 31.06163 37.0384 0.6174579 1.658583 0.2538135 1.123818 2.247636 0.00000 0.4063313 0.0000000 -7.8186690 0.03641667 0.07283333 0.0000000 -0.07283333 2.493052e-14 2.493052e-14    
  • 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
ENSMUSG00000019124 E001 0.0000000       6 54478158 54478399 242 -      
ENSMUSG00000019124 E002 73.8968975 0.0002816325 7.279514e-04 3.755983e-02 6 54482875 54483249 375 - 1.800 1.944 0.485
ENSMUSG00000019124 E003 20.6762465 0.0211592695 7.459494e-02 5.832513e-01 6 54483250 54483307 58 - 1.241 1.423 0.632
ENSMUSG00000019124 E004 550.8263633 0.0006669955 2.211424e-10 6.991686e-08 6 54483308 54486092 2785 - 2.686 2.795 0.363
ENSMUSG00000019124 E005 119.0913975 0.0009495613 6.315756e-02 5.460585e-01 6 54486093 54486187 95 - 2.105 2.048 -0.191
ENSMUSG00000019124 E006 204.1567472 0.0002158809 1.834426e-01 7.608225e-01 6 54486188 54486347 160 - 2.323 2.298 -0.085
ENSMUSG00000019124 E007 220.6554835 0.0001832520 5.075363e-04 2.854404e-02 6 54489034 54489214 181 - 2.378 2.304 -0.247
ENSMUSG00000019124 E008 19.2512287 0.0011368245 5.713911e-02 5.233549e-01 6 54489215 54491802 2588 - 1.226 1.381 0.541
ENSMUSG00000019124 E009 203.3295161 0.0003705165 3.309457e-01 8.626507e-01 6 54497685 54497850 166 - 2.317 2.300 -0.058
ENSMUSG00000019124 E010 173.1088449 0.0001616996 4.729355e-01 9.212309e-01 6 54499745 54499939 195 - 2.246 2.234 -0.040
ENSMUSG00000019124 E011 158.6639465 0.0001869242 7.127192e-05 5.789853e-03 6 54502494 54502696 203 - 2.248 2.145 -0.345
ENSMUSG00000019124 E012 122.2659699 0.0002016489 1.659104e-01 7.413368e-01 6 54511398 54511509 112 - 2.107 2.070 -0.123
ENSMUSG00000019124 E013 88.1980947 0.0004091392 4.199125e-01 9.029284e-01 6 54511510 54511579 70 - 1.960 1.937 -0.079
ENSMUSG00000019124 E014 112.0861438 0.0002264117 8.546368e-02 6.110966e-01 6 54525209 54525368 160 - 2.075 2.025 -0.167
ENSMUSG00000019124 E015 0.0000000       6 54528703 54529338 636 -      
ENSMUSG00000019124 E016 0.1657302 0.0345346654 4.433194e-01   6 54531104 54531440 337 - 0.000 0.130 9.337
ENSMUSG00000019124 E017 49.8403973 0.0112383079 7.009029e-01 9.650002e-01 6 54543225 54543474 250 - 1.715 1.695 -0.070

Help

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