ENSMUSG00000074884

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
ENSMUST00000099475 ENSMUSG00000074884 Control shVgll3 Serf2 protein_coding protein_coding 171.7792 182.0861 161.4723 3.137019 3.803583 -0.1733242 14.34965 19.35752 9.341777 2.5867832 1.1842819 -1.050326715 0.08210000 0.10593333 0.05826667 -0.047666667 0.37357976 0.02248798 FALSE  
ENSMUST00000110615 ENSMUSG00000074884 Control shVgll3 Serf2 protein_coding protein_coding 171.7792 182.0861 161.4723 3.137019 3.803583 -0.1733242 40.61231 43.49273 37.731896 2.9080139 1.4563467 -0.204939143 0.23640000 0.23926667 0.23353333 -0.005733333 1.00000000 0.02248798    
ENSMUST00000134412 ENSMUSG00000074884 Control shVgll3 Serf2 protein_coding retained_intron 171.7792 182.0861 161.4723 3.137019 3.803583 -0.1733242 10.36541 10.57824 10.152578 0.5362832 0.5636726 -0.059196858 0.06051667 0.05810000 0.06293333 0.004833333 0.97066567 0.02248798    
ENSMUST00000139253 ENSMUSG00000074884 Control shVgll3 Serf2 protein_coding protein_coding 171.7792 182.0861 161.4723 3.137019 3.803583 -0.1733242 10.59598 12.83906 8.352897 0.4138199 0.3130336 -0.619588428 0.06120000 0.07053333 0.05186667 -0.018666667 0.17715606 0.02248798    
ENSMUST00000148575 ENSMUSG00000074884 Control shVgll3 Serf2 protein_coding nonsense_mediated_decay 171.7792 182.0861 161.4723 3.137019 3.803583 -0.1733242 94.91862 94.72643 95.110813 2.3655996 3.8374252 0.005841752 0.55435000 0.52013333 0.58856667 0.068433333 0.02248798 0.02248798 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 from IsoformSwitchAnalyzeR.