ENSMUSG00000020946

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
ENSMUST00000021329 ENSMUSG00000020946 Control shVgll3 Gosr2 protein_coding protein_coding 30.62865 34.73095 26.52636 0.2624514 0.5689985 -0.3886671 28.270392 31.958284 24.5824989 0.6880521 0.3295058 -0.378423 0.9237167 0.91996667 0.92746667 0.00750000 0.98269584 2.502828e-07 FALSE  
MSTRG.4393.2 ENSMUSG00000020946 Control shVgll3 Gosr2 protein_coding   30.62865 34.73095 26.52636 0.2624514 0.5689985 -0.3886671 1.743159 2.772669 0.7136491 0.4261037 0.1737359 -1.943107 0.0533500 0.08003333 0.02666667 -0.05336667 0.04602332 2.502828e-07 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
ENSMUSG00000020946 E001 0.8275049 0.1009502249 0.129130282 0.68406303 11 103567675 103567715 41 - 0.394 0.112 -2.328
ENSMUSG00000020946 E002 1278.8646099 0.0007856703 0.001801451 0.07394166 11 103567716 103569551 1836 - 3.082 3.122 0.133
ENSMUSG00000020946 E003 176.2869403 0.0015041755 0.429477312 0.90755674 11 103569552 103569758 207 - 2.226 2.261 0.114
ENSMUSG00000020946 E004 341.9470353 0.0001365518 0.582521863 0.94855494 11 103569759 103570223 465 - 2.533 2.532 -0.002
ENSMUSG00000020946 E005 176.0601090 0.0013972940 0.078883498 0.59153254 11 103574618 103574758 141 - 2.270 2.225 -0.148
ENSMUSG00000020946 E006 234.1181455 0.0003599819 0.019292568 0.31444282 11 103577408 103577540 133 - 2.393 2.348 -0.152
ENSMUSG00000020946 E007 174.4221562 0.0001617006 0.107082963 0.64770243 11 103578351 103578459 109 - 2.259 2.226 -0.110
ENSMUSG00000020946 E008 84.4199390 0.0002626030 0.031403215 0.39886516 11 103580081 103580145 65 - 1.968 1.895 -0.244
ENSMUSG00000020946 E009 46.7767134 0.0004425250 0.367983241 0.87540223 11 103588456 103588724 269 - 1.696 1.659 -0.125

Help

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