ENSMUSG00000039197

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
ENSMUST00000045376 ENSMUSG00000039197 Control shVgll3 Adk protein_coding protein_coding 74.68985 81.58473 67.79497 5.145771 3.532703 -0.267085 20.134072 22.80102 17.467128 1.5583821 1.0398209 -0.3842625 0.2707500 0.2814667 0.2600333 -0.02143333 9.708461e-01 3.84234e-29 FALSE TRUE
ENSMUST00000223558 ENSMUSG00000039197 Control shVgll3 Adk protein_coding protein_coding_CDS_not_defined 74.68985 81.58473 67.79497 5.145771 3.532703 -0.267085 31.924367 25.81510 38.033631 4.9397527 3.0340819 0.5588809 0.4356333 0.3116000 0.5596667 0.24806667 1.079363e-03 3.84234e-29   FALSE
ENSMUST00000224069 ENSMUSG00000039197 Control shVgll3 Adk protein_coding protein_coding 74.68985 81.58473 67.79497 5.145771 3.532703 -0.267085 11.917885 15.81052 8.025245 0.2533333 0.7627258 -0.9773836 0.1568833 0.1953667 0.1184000 -0.07696667 2.577087e-02 3.84234e-29 FALSE TRUE
ENSMUST00000224899 ENSMUSG00000039197 Control shVgll3 Adk protein_coding protein_coding 74.68985 81.58473 67.79497 5.145771 3.532703 -0.267085 6.347453 12.69491 0.000000 2.6260169 0.0000000 -10.3111699 0.0766000 0.1532000 0.0000000 -0.15320000 3.842340e-29 3.84234e-29 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
ENSMUSG00000039197 E001 2.3218576 0.1594643232 3.041964e-01 0.84564863 14 21102642 21102678 37 + 0.623 0.420 -0.971
ENSMUSG00000039197 E002 3.8015706 0.0053290763 4.863319e-01 0.92538469 14 21102679 21102684 6 + 0.732 0.629 -0.430
ENSMUSG00000039197 E003 5.2882282 0.0204713921 3.289864e-01 0.86241242 14 21102685 21102694 10 + 0.868 0.728 -0.556
ENSMUSG00000039197 E004 8.7375309 0.0119598165 1.591572e-01 0.72812716 14 21102695 21102712 18 + 1.071 0.906 -0.610
ENSMUSG00000039197 E005 45.1642185 0.0020346317 4.060929e-02 0.45275406 14 21102713 21102768 56 + 1.720 1.606 -0.387
ENSMUSG00000039197 E006 27.8474264 0.0074937631 3.391941e-05 0.00327925 14 21103790 21103988 199 + 1.612 1.295 -1.091
ENSMUSG00000039197 E007 0.1615462 0.0353212505 6.858649e-01   14 21104013 21104026 14 + 0.000 0.104 10.149
ENSMUSG00000039197 E008 0.4933529 0.0284881128 1.613684e-01   14 21104027 21104084 58 + 0.000 0.259 11.795
ENSMUSG00000039197 E009 0.0000000       14 21104085 21104085 1 +      
ENSMUSG00000039197 E010 25.6465757 0.0008001938 7.826657e-03 0.19438692 14 21126220 21126389 170 + 1.296 1.485 0.658
ENSMUSG00000039197 E011 70.6321601 0.0036389763 1.660872e-01 0.74156048 14 21142435 21142509 75 + 1.804 1.874 0.237
ENSMUSG00000039197 E012 60.4127471 0.0003442948 1.441078e-01 0.70906417 14 21153888 21153941 54 + 1.739 1.806 0.225
ENSMUSG00000039197 E013 0.8224946 0.1369545114 9.683765e-01 1.00000000 14 21153942 21157965 4024 + 0.255 0.258 0.026
ENSMUSG00000039197 E014 160.8328499 0.0001844276 3.933448e-01 0.88760551 14 21219868 21219946 79 + 2.187 2.210 0.077
ENSMUSG00000039197 E015 209.0227266 0.0001593480 4.611712e-01 0.91682762 14 21284901 21285073 173 + 2.325 2.307 -0.060
ENSMUSG00000039197 E016 109.0685900 0.0071916361 6.023481e-01 0.95297107 14 21290531 21290639 109 + 2.049 2.023 -0.086
ENSMUSG00000039197 E017 125.5193983 0.0004774713 6.072032e-01 0.95334770 14 21368081 21368192 112 + 2.085 2.101 0.054
ENSMUSG00000039197 E018 84.0521331 0.0002772815 2.078228e-01 0.78286632 14 21368193 21368251 59 + 1.950 1.902 -0.164
ENSMUSG00000039197 E019 2.7909511 0.0108307036 6.677296e-01 0.95936073 14 21368252 21369730 1479 + 0.531 0.600 0.319
ENSMUSG00000039197 E020 0.3324796 0.0285361790 7.796523e-01   14 21376660 21376861 202 + 0.146 0.104 -0.556
ENSMUSG00000039197 E021 0.4933529 0.0284881128 1.613684e-01   14 21419138 21419138 1 + 0.000 0.259 11.795
ENSMUSG00000039197 E022 64.2032775 0.0003063651 6.073868e-01 0.95334770 14 21419139 21419174 36 + 1.820 1.797 -0.078
ENSMUSG00000039197 E023 0.1660866 0.0347512262 3.382268e-01   14 21419807 21420402 596 + 0.146 0.000 -11.552
ENSMUSG00000039197 E024 114.3866602 0.0002147424 7.197697e-01 0.97003059 14 21431571 21431685 115 + 2.047 2.059 0.038
ENSMUSG00000039197 E025 94.8288080 0.0003047275 4.256396e-01 0.90545038 14 21473571 21473657 87 + 1.956 1.985 0.096
ENSMUSG00000039197 E026 605.5273924 0.0004981151 5.019604e-01 0.92783507 14 21497882 21498637 756 + 2.769 2.778 0.030

Help

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