ENSMUSG00000037017

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
ENSMUST00000062350 ENSMUSG00000037017 Control shVgll3 Zscan21 protein_coding protein_coding 11.52433 11.46124 11.58743 0.2922831 0.8671248 0.01578334 1.733381 1.4424735 2.024288 0.6845096 0.2120880 0.4860117 0.15061667 0.1244333 0.17680000 0.05236667 9.706657e-01 5.794066e-19 FALSE TRUE
ENSMUST00000110960 ENSMUSG00000037017 Control shVgll3 Zscan21 protein_coding protein_coding 11.52433 11.46124 11.58743 0.2922831 0.8671248 0.01578334 2.067747 4.1354949 0.000000 0.5617887 0.0000000 -8.6954005 0.18075000 0.3615000 0.00000000 -0.36150000 5.794066e-19 5.794066e-19 FALSE TRUE
ENSMUST00000110961 ENSMUSG00000037017 Control shVgll3 Zscan21 protein_coding protein_coding 11.52433 11.46124 11.58743 0.2922831 0.8671248 0.01578334 6.617222 4.9475276 8.286916 0.4130742 0.6618842 0.7429544 0.57881667 0.4327333 0.72490000 0.29216667 2.816982e-01 5.794066e-19 FALSE TRUE
ENSMUST00000136425 ENSMUSG00000037017 Control shVgll3 Zscan21 protein_coding protein_coding 11.52433 11.46124 11.58743 0.2922831 0.8671248 0.01578334 0.815630 0.6253349 1.005925 0.4342904 1.0059252 0.6772049 0.06528333 0.0544000 0.07616667 0.02176667 9.706657e-01 5.794066e-19 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
ENSMUSG00000037017 E001 0.1660866 0.0342193794 0.50170679   5 138115165 138115177 13 + 0.122 0.000 -9.551
ENSMUSG00000037017 E002 0.4889862 0.0228318321 0.58684899   5 138115178 138115198 21 + 0.218 0.125 -0.967
ENSMUSG00000037017 E003 10.1943663 0.0018665518 0.53446405 0.93660279 5 138115199 138115241 43 + 1.081 1.014 -0.247
ENSMUSG00000037017 E004 9.8711104 0.0019570831 0.70445690 0.96592857 5 138115242 138115243 2 + 1.057 1.014 -0.160
ENSMUSG00000037017 E005 12.9775637 0.0034249022 0.13597881 0.69784382 5 138115244 138115250 7 + 1.212 1.066 -0.522
ENSMUSG00000037017 E006 11.1927849 0.0035365942 0.20080141 0.77686960 5 138115251 138115269 19 + 1.147 1.014 -0.482
ENSMUSG00000037017 E007 3.3082771 0.0685318488 0.77901903 0.97903220 5 138115303 138116097 795 + 0.661 0.602 -0.258
ENSMUSG00000037017 E008 24.9846629 0.0009477191 0.01076138 0.22399749 5 138116098 138116182 85 + 1.495 1.315 -0.624
ENSMUSG00000037017 E009 0.4888227 0.0271579702 0.07924108   5 138117912 138117991 80 + 0.000 0.301 11.914
ENSMUSG00000037017 E010 229.7654491 0.0040284536 0.22212791 0.79803804 5 138123240 138123952 713 + 2.382 2.342 -0.134
ENSMUSG00000037017 E011 70.9609735 0.0003139228 0.53776285 0.93662476 5 138124716 138124908 193 + 1.847 1.867 0.066
ENSMUSG00000037017 E012 318.9094903 0.0002454632 0.00132159 0.05969096 5 138131301 138132527 1227 + 2.483 2.526 0.145

Help

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