ENSMUSG00000062098

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
ENSMUST00000075410 ENSMUSG00000062098 Control shVgll3 Btbd3 protein_coding protein_coding 3.437908 4.159938 2.715878 0.1431744 0.2358891 -0.6133049 0.8334428 1.374571 0.2923146 0.05718834 0.1138643 -2.195317 0.21815 0.3313667 0.1049333 -0.2264333 0.01554737 0.01554737 FALSE TRUE
ENSMUST00000091556 ENSMUSG00000062098 Control shVgll3 Btbd3 protein_coding protein_coding 3.437908 4.159938 2.715878 0.1431744 0.2358891 -0.6133049 2.5408366 2.721668 2.3600051 0.15828397 0.1940036 -0.204892 0.76390 0.6539000 0.8739000 0.2200000 0.28951663 0.01554737 FALSE TRUE
  • 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
ENSMUSG00000062098 E001 2.2999466 0.008765540 0.374348421 0.87859307 2 138098485 138098581 97 + 0.416 0.567 0.745
ENSMUSG00000062098 E002 1.3143290 0.026642788 0.882466063 0.99260462 2 138098582 138098589 8 + 0.344 0.370 0.159
ENSMUSG00000062098 E003 4.1192570 0.004817469 0.992405454 1.00000000 2 138098590 138098674 85 + 0.701 0.702 0.007
ENSMUSG00000062098 E004 8.5579050 0.002219574 0.001319133 0.05969096 2 138120413 138120885 473 + 0.701 1.090 1.493
ENSMUSG00000062098 E005 39.1566472 0.000530736 0.450029926 0.91349987 2 138120886 138121177 292 + 1.570 1.611 0.140
ENSMUSG00000062098 E006 14.9741342 0.001310304 0.913855963 0.99729780 2 138121669 138121759 91 + 1.190 1.199 0.034
ENSMUSG00000062098 E007 17.7459840 0.002305044 0.751033569 0.97541370 2 138122293 138122411 119 + 1.281 1.255 -0.092
ENSMUSG00000062098 E008 284.9323963 0.000266941 0.073425663 0.58038593 2 138125378 138129342 3965 + 2.459 2.440 -0.062
ENSMUSG00000062098 E009 0.0000000       2 138267609 138267710 102 +      
ENSMUSG00000062098 E010 0.3316336 0.025893028 0.332043227   2 138331015 138331181 167 + 0.001 0.187 8.522
ENSMUSG00000062098 E011 0.0000000       2 138331644 138331693 50 +      
ENSMUSG00000062098 E012 0.0000000       2 138333316 138333392 77 +      
ENSMUSG00000062098 E013 0.4891790 0.238843696 0.858346254   2 138381038 138381128 91 + 0.147 0.187 0.418
ENSMUSG00000062098 E014 0.0000000       2 138431054 138431212 159 +      

Help

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