ENSMUSG00000001847

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
ENSMUST00000100489 ENSMUSG00000001847 Control shVgll3 Rac1 protein_coding protein_coding 133.9964 134.9388 133.054 1.785251 2.120657 -0.02029178 87.19614 91.50143 82.89086 0.4348215 1.5589380 -0.1425650 0.6505833 0.6782333 0.6229333 -0.05530000 0.008038284 0.008038284 FALSE  
ENSMUST00000145709 ENSMUSG00000001847 Control shVgll3 Rac1 protein_coding protein_coding_CDS_not_defined 133.9964 134.9388 133.054 1.785251 2.120657 -0.02029178 46.50737 43.43735 49.57739 1.3868100 0.9099878 0.1907049 0.3471833 0.3217667 0.3726000 0.05083333 0.019445100 0.008038284 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
ENSMUSG00000001847 E001 0.0000000       5 143489389 143491236 1848 -      
ENSMUSG00000001847 E002 1987.5628070 3.126126e-04 7.278629e-07 0.0001079083 5 143491237 143492814 1578 - 3.275 3.321 0.151
ENSMUSG00000001847 E003 187.8026794 1.682511e-04 9.401572e-01 0.9996344513 5 143492815 143492860 46 - 2.272 2.280 0.028
ENSMUSG00000001847 E004 376.0141414 1.272145e-04 8.452424e-03 0.2001547641 5 143493082 143493241 160 - 2.596 2.555 -0.137
ENSMUSG00000001847 E005 366.3321648 9.849845e-05 5.064756e-03 0.1443623962 5 143493851 143493913 63 - 2.587 2.542 -0.148
ENSMUSG00000001847 E006 10.3488052 1.819351e-03 2.223395e-01 0.7980380445 5 143495352 143495408 57 - 1.111 0.993 -0.432
ENSMUSG00000001847 E007 429.7245083 1.302980e-04 1.200547e-01 0.6673178387 5 143500424 143500541 118 - 2.644 2.624 -0.066
ENSMUSG00000001847 E008 498.6272165 1.000926e-04 2.695931e-01 0.8182920579 5 143502913 143502984 72 - 2.704 2.693 -0.035
ENSMUSG00000001847 E009 0.6654887 2.802263e-02 3.031290e-01   5 143503210 143503363 154 - 0.300 0.123 -1.602
ENSMUSG00000001847 E010 0.4935265 2.605293e-02 8.036495e-02   5 143503812 143503937 126 - 0.300 0.000 -10.785
ENSMUSG00000001847 E011 759.4477784 1.693930e-04 5.706974e-02 0.5233548854 5 143513518 143513791 274 - 2.890 2.872 -0.059

Help

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