ENSMUSG00000025408

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
ENSMUST00000026475 ENSMUSG00000025408 Control shVgll3 Ddit3 protein_coding protein_coding 124.969 159.357 90.58089 11.29557 6.31461 -0.8149155 20.236468 22.057945 18.414992 1.001486 2.290215 -0.2602883 0.17378333 0.1389333 0.20863333 0.06970000 0.7772096774 0.0001831265 FALSE TRUE
ENSMUST00000139091 ENSMUSG00000025408 Control shVgll3 Ddit3 protein_coding protein_coding 124.969 159.357 90.58089 11.29557 6.31461 -0.8149155 5.755675 2.315527 9.195823 1.331805 2.142314 1.9849892 0.05763333 0.0159000 0.09936667 0.08346667 0.6463238924 0.0001831265 FALSE TRUE
ENSMUST00000230446 ENSMUSG00000025408 Control shVgll3 Ddit3 protein_coding protein_coding 124.969 159.357 90.58089 11.29557 6.31461 -0.8149155 92.981951 129.428919 56.534983 11.853561 6.370216 -1.1948005 0.71505000 0.8096667 0.62043333 -0.18923333 0.0001831265 0.0001831265   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.