ENSMUSG00000057315

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
ENSMUST00000070000 ENSMUSG00000057315 Control shVgll3 Arhgap24 protein_coding protein_coding 8.360226 13.0808 3.639653 0.1779657 0.4454996 -1.842722 2.2522601 4.173492 0.3310279 0.1914830 0.0388200 -3.6167462 0.20698333 0.31913333 0.09483333 -0.224300000 0.0000271431 2.71431e-05 FALSE TRUE
ENSMUST00000094559 ENSMUSG00000057315 Control shVgll3 Arhgap24 protein_coding protein_coding 8.360226 13.0808 3.639653 0.1779657 0.4454996 -1.842722 0.5269283 0.573010 0.4808467 0.1685571 0.1872921 -0.2482482 0.09568333 0.04353333 0.14783333 0.104300000 0.8917660171 2.71431e-05 FALSE TRUE
ENSMUST00000112853 ENSMUSG00000057315 Control shVgll3 Arhgap24 protein_coding protein_coding 8.360226 13.0808 3.639653 0.1779657 0.4454996 -1.842722 5.1154457 8.033680 2.1972113 0.2080856 0.1638323 -1.8656309 0.61531667 0.61430000 0.61633333 0.002033333 1.0000000000 2.71431e-05 FALSE TRUE
MSTRG.17867.5 ENSMUSG00000057315 Control shVgll3 Arhgap24 protein_coding   8.360226 13.0808 3.639653 0.1779657 0.4454996 -1.842722 0.2273314 0.000000 0.4546628 0.0000000 0.4546628 5.5381122 0.05081667 0.00000000 0.10163333 0.101633333 0.9706656688 2.71431e-05   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
ENSMUSG00000057315 E001 0.6590735 0.0191067919 1.759467e-01   5 102629257 102629395 139 + 0.369 0.122 -2.045
ENSMUSG00000057315 E002 0.4933433 0.0218666709 7.688184e-02   5 102629396 102629418 23 + 0.369 0.065 -3.045
ENSMUSG00000057315 E003 0.3272567 0.0280809605 3.034333e-01   5 102629419 102629454 36 + 0.222 0.065 -2.045
ENSMUSG00000057315 E004 5.5941688 0.0145960519 2.039177e-03 8.031749e-02 5 102629455 102629728 274 + 1.043 0.610 -1.705
ENSMUSG00000057315 E005 0.0000000       5 102629729 102629729 1 +      
ENSMUSG00000057315 E006 0.1667494 0.0345381232 1.024949e-01   5 102648617 102648632 16 + 0.222 0.000 -12.420
ENSMUSG00000057315 E007 2.6207303 0.0068017214 2.951049e-02 3.867944e-01 5 102699992 102700185 194 + 0.754 0.390 -1.683
ENSMUSG00000057315 E008 2.7914907 0.0065933194 1.152600e-02 2.348975e-01 5 102811949 102812036 88 + 0.803 0.390 -1.876
ENSMUSG00000057315 E009 0.0000000       5 102812037 102815698 3662 +      
ENSMUSG00000057315 E010 21.8671751 0.0009573130 8.290008e-01 9.854840e-01 5 102872839 102873099 261 + 1.248 1.267 0.065
ENSMUSG00000057315 E011 0.1615462 0.0346223522 1.000000e+00   5 102916637 102916827 191 + 0.000 0.065 8.890
ENSMUSG00000057315 E012 0.3316336 0.0261482769 1.000000e+00   5 102956915 102957049 135 + 0.000 0.122 9.918
ENSMUSG00000057315 E013 13.6356148 0.0014086226 1.047585e-03 4.971953e-02 5 102989156 102989278 123 + 1.309 0.989 -1.149
ENSMUSG00000057315 E014 60.6467988 0.0003546272 3.492947e-10 1.021512e-07 5 102992873 102994035 1163 + 1.323 1.747 1.453
ENSMUSG00000057315 E015 45.5091959 0.0004521296 2.630110e-01 8.143369e-01 5 103008196 103008403 208 + 1.511 1.583 0.245
ENSMUSG00000057315 E016 23.7035021 0.0009615446 8.109629e-01 9.837689e-01 5 103023561 103023693 133 + 1.280 1.300 0.070
ENSMUSG00000057315 E017 0.1657302 0.0346487206 1.000000e+00   5 103023694 103023726 33 + 0.000 0.065 8.890
ENSMUSG00000057315 E018 17.6165123 0.0022950978 7.897572e-01 9.802040e-01 5 103026307 103026380 74 + 1.196 1.169 -0.096
ENSMUSG00000057315 E019 31.5531532 0.0005899079 5.140287e-01 9.314929e-01 5 103028627 103028748 122 + 1.375 1.425 0.171
ENSMUSG00000057315 E020 324.0517951 0.0001512222 6.355230e-02 5.473684e-01 5 103039708 103040785 1078 + 2.438 2.405 -0.112
ENSMUSG00000057315 E021 128.2035200 0.0002303940 7.415161e-01 9.729001e-01 5 103044950 103045803 854 + 2.003 2.014 0.037

Help

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