ENSMUSG00000038173

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
ENSMUST00000039840 ENSMUSG00000038173 Control shVgll3 Enpp6 protein_coding protein_coding 3.351496 4.569175 2.133817 0.2958888 0.1058792 -1.094906 1.8650890 3.0360261 0.6941519 0.1399747 0.02717933 -2.11296962 0.49721667 0.66626667 0.32816667 -0.3381000 0.0001212903 0.0001212903 FALSE TRUE
ENSMUST00000119686 ENSMUSG00000038173 Control shVgll3 Enpp6 protein_coding protein_coding 3.351496 4.569175 2.133817 0.2958888 0.1058792 -1.094906 0.7733533 0.8271375 0.7195691 0.1531915 0.11141636 -0.19841996 0.26376667 0.18436667 0.34316667 0.1588000 0.6199635993 0.0001212903 FALSE TRUE
ENSMUST00000140149 ENSMUSG00000038173 Control shVgll3 Enpp6 protein_coding retained_intron 3.351496 4.569175 2.133817 0.2958888 0.1058792 -1.094906 0.2734885 0.2755868 0.2713902 0.2755868 0.27139024 -0.02135719 0.08615000 0.05390000 0.11840000 0.0645000 1.0000000000 0.0001212903 FALSE TRUE
ENSMUST00000149593 ENSMUSG00000038173 Control shVgll3 Enpp6 protein_coding protein_coding 3.351496 4.569175 2.133817 0.2958888 0.1058792 -1.094906 0.3027445 0.4304250 0.1750640 0.0217678 0.05546350 -1.25087227 0.08966667 0.09546667 0.08386667 -0.0116000 0.9713102058 0.0001212903   FALSE
ENSMUST00000210466 ENSMUSG00000038173 Control shVgll3 Enpp6 protein_coding retained_intron 3.351496 4.569175 2.133817 0.2958888 0.1058792 -1.094906 0.1368209 0.0000000 0.2736419 0.0000000 0.09348402 4.82599868 0.06318333 0.00000000 0.12636667 0.1263667 0.0003643257 0.0001212903 FALSE 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
ENSMUSG00000038173 E001 0.1615462 0.0345981435 1.000000e+00   8 47439922 47439959 38 + 0.001 0.078 7.019
ENSMUSG00000038173 E002 0.0000000       8 47439960 47439961 2 +      
ENSMUSG00000038173 E003 1.6419024 0.0097315106 3.641567e-01 0.87540223 8 47439962 47439988 27 + 0.506 0.338 -0.904
ENSMUSG00000038173 E004 21.9461612 0.0224277045 3.606562e-01 0.87535004 8 47439989 47440246 258 + 1.373 1.281 -0.321
ENSMUSG00000038173 E005 22.7071265 0.0009143469 1.117624e-01 0.65468034 8 47483451 47483630 180 + 1.412 1.285 -0.442
ENSMUSG00000038173 E006 0.0000000       8 47483631 47483749 119 +      
ENSMUSG00000038173 E007 16.2935054 0.0012035707 9.308217e-01 0.99930331 8 47506619 47506730 112 + 1.186 1.186 0.000
ENSMUSG00000038173 E008 11.6766519 0.0016107396 4.245444e-01 0.90545038 8 47518407 47518548 142 + 0.992 1.072 0.292
ENSMUSG00000038173 E009 0.0000000       8 47518549 47518908 360 +      
ENSMUSG00000038173 E010 16.9286425 0.0266542894 6.449913e-01 0.95668705 8 47518909 47519088 180 + 1.244 1.186 -0.207
ENSMUSG00000038173 E011 7.0730254 0.0120009850 6.208691e-01 0.95514198 8 47521923 47521965 43 + 0.912 0.838 -0.284
ENSMUSG00000038173 E012 9.8607657 0.0499567028 8.650013e-01 0.98892123 8 47521966 47522060 95 + 0.967 0.993 0.094
ENSMUSG00000038173 E013 1.3205518 0.0120089402 9.563273e-06 0.00106544 8 47535356 47535449 94 + 0.733 0.000 -14.565
ENSMUSG00000038173 E014 18.5912434 0.0041161466 4.805893e-02 0.48339931 8 47535450 47535573 124 + 1.363 1.186 -0.622
ENSMUSG00000038173 E015 0.9861668 0.0143471647 5.694792e-01 0.94354310 8 47535574 47535829 256 + 0.191 0.297 0.833
ENSMUSG00000038173 E016 4.2898735 0.0043846917 6.419241e-01 0.95668705 8 47535899 47536511 613 + 0.733 0.657 -0.319
ENSMUSG00000038173 E017 190.8800421 0.0004151098 1.844673e-03 0.07492704 8 47546029 47549797 3769 + 2.188 2.241 0.177

Help

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