ENSMUSG00000011118

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
ENSMUST00000011262 ENSMUSG00000011118 Control shVgll3 Panx3 protein_coding protein_coding 129.9517 145.1187 114.7848 2.06728 3.100805 -0.3382755 109.80155 125.88123 93.72187 1.88473145 2.1769322 -0.4255662 0.8420500 0.86740000 0.8167000 -0.0507 1.997124e-05 2.535037e-09 FALSE  
MSTRG.23461.2 ENSMUSG00000011118 Control shVgll3 Panx3 protein_coding   129.9517 145.1187 114.7848 2.06728 3.100805 -0.3382755 14.07942 12.41293 15.74591 0.04204683 0.4087609 0.3428868 0.1113667 0.08556667 0.1371667 0.0516 2.535037e-09 2.535037e-09 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
ENSMUSG00000011118 E001 11.057878 1.007995e-02 3.908899e-02 4.456754e-01 9 37571198 37571335 138 - 0.926 1.188 0.958
ENSMUSG00000011118 E002 5.254052 3.809330e-03 3.665732e-02 4.317431e-01 9 37571336 37571336 1 - 0.606 0.923 1.279
ENSMUSG00000011118 E003 6334.546447 6.278070e-04 1.748231e-09 4.869240e-07 9 37571337 37573009 1673 - 3.762 3.836 0.244
ENSMUSG00000011118 E004 770.661422 1.657838e-03 8.116294e-01 9.837689e-01 9 37575322 37575516 195 - 2.864 2.908 0.148
ENSMUSG00000011118 E005 156.017782 2.272523e-03 5.290143e-01 9.357450e-01 9 37575517 37575536 20 - 2.163 2.225 0.206
ENSMUSG00000011118 E006 1005.558376 6.520713e-05 6.276650e-57 1.223738e-53 9 37575537 37577904 2368 - 3.069 2.929 -0.465
ENSMUSG00000011118 E007 166.769297 7.138598e-03 4.927649e-01 9.267463e-01 9 37577905 37577928 24 - 2.185 2.259 0.246
ENSMUSG00000011118 E008 422.872074 8.982270e-05 4.137593e-01 8.978215e-01 9 37577929 37578047 119 - 2.599 2.652 0.175
ENSMUSG00000011118 E009 335.471573 1.405367e-04 1.879710e-07 3.546589e-05 9 37578048 37578655 608 - 2.559 2.494 -0.215
ENSMUSG00000011118 E010 67.178256 9.470836e-03 1.025157e-02 2.196389e-01 9 37578656 37578796 141 - 1.895 1.766 -0.435
ENSMUSG00000011118 E011 289.731790 1.135006e-04 3.713500e-06 4.572686e-04 9 37578797 37579408 612 - 2.492 2.433 -0.196
ENSMUSG00000011118 E012 251.513687 1.005441e-03 7.287363e-07 1.079083e-04 9 37579409 37580170 762 - 2.448 2.354 -0.315
ENSMUSG00000011118 E013 806.148645 7.729308e-04 2.388642e-03 8.802766e-02 9 37580171 37580531 361 - 2.857 2.949 0.307

Help

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