ENSMUSG00000031754

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
ENSMUST00000034204 ENSMUSG00000031754 Control shVgll3 Nudt21 protein_coding protein_coding 35.65442 33.66158 37.64725 1.54796 1.692998 0.161396 3.458627 4.200997 2.716257 0.121328 0.2077231 -0.6272403 0.09896667 0.1253333 0.0726000 -0.05273333 0.04607928 0.04607928 FALSE  
ENSMUST00000212981 ENSMUSG00000031754 Control shVgll3 Nudt21 protein_coding protein_coding 35.65442 33.66158 37.64725 1.54796 1.692998 0.161396 31.669464 28.864417 34.474511 1.703914 1.8909439 0.2561567 0.88573333 0.8565000 0.9149667 0.05846667 0.19550760 0.04607928 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
ENSMUSG00000031754 E001 114.2352309 0.0003056661 8.073988e-09 2.009564e-06 8 94742124 94746032 3909 - 1.996 2.108 0.378
ENSMUSG00000031754 E002 3.2851501 0.0063801423 3.143013e-01 8.521167e-01 8 94746033 94746075 43 - 0.543 0.695 0.663
ENSMUSG00000031754 E003 40.6877484 0.0005325542 9.445182e-06 1.062401e-03 8 94746076 94746332 257 - 1.722 1.505 -0.737
ENSMUSG00000031754 E004 2.6346675 0.0064276448 8.464642e-01 9.868692e-01 8 94749217 94749402 186 - 0.543 0.572 0.133
ENSMUSG00000031754 E005 0.4980765 0.2606399774 5.401564e-01   8 94749403 94749517 115 - 0.234 0.115 -1.230
ENSMUSG00000031754 E006 1.1529162 0.0129680525 3.450928e-01 8.728572e-01 8 94751170 94751245 76 - 0.234 0.401 1.093
ENSMUSG00000031754 E007 0.6641630 0.5382580649 4.839240e-01   8 94755463 94755552 90 - 0.316 0.115 -1.817
ENSMUSG00000031754 E008 0.0000000       8 94755553 94755555 3 -      
ENSMUSG00000031754 E009 0.1613534 0.0353870303 4.198072e-01   8 94757772 94757835 64 - 0.132 0.000 -9.675
ENSMUSG00000031754 E010 0.1667494 0.0336948489 4.215336e-01   8 94758930 94759130 201 - 0.132 0.000 -9.689
ENSMUSG00000031754 E011 0.9786448 0.0168652441 5.294326e-01 9.357450e-01 8 94763254 94763404 151 - 0.234 0.345 0.770
ENSMUSG00000031754 E012 12.0241932 0.0028802993 1.085172e-04 8.243081e-03 8 94763405 94763659 255 - 1.275 0.903 -1.350

Help

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