ENSMUSG00000027465

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
ENSMUST00000028963 ENSMUSG00000027465 Control shVgll3 Tbc1d20 protein_coding protein_coding 19.37255 21.04136 17.70374 0.1393693 0.5538394 -0.2490444 16.467070 18.288532 14.645608 0.1499051 0.3795739 -0.3202751 0.8484000 0.86916667 0.8276333 -0.04153333 0.61590990 0.04633006 FALSE  
ENSMUST00000140482 ENSMUSG00000027465 Control shVgll3 Tbc1d20 protein_coding retained_intron 19.37255 21.04136 17.70374 0.1393693 0.5538394 -0.2490444 1.882739 1.396483 2.368995 0.0203860 0.2637672 0.7582595 0.1003833 0.06636667 0.1344000 0.06803333 0.04633006 0.04633006 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
ENSMUSG00000027465 E001 0.0000000       2 152135748 152135770 23 +      
ENSMUSG00000027465 E002 0.8312088 0.6599441243 0.940238785 0.99963445 2 152135771 152135791 21 + 0.234 0.282 0.357
ENSMUSG00000027465 E003 1.4876072 0.2771015478 0.722674123 0.97061080 2 152135792 152135806 15 + 0.445 0.346 -0.551
ENSMUSG00000027465 E004 65.2183382 0.0004114976 0.545402480 0.93707028 2 152135807 152135960 154 + 1.834 1.806 -0.096
ENSMUSG00000027465 E005 0.1615462 0.0346014089 0.557882520   2 152136100 152136439 340 + 0.000 0.115 9.062
ENSMUSG00000027465 E006 84.7547761 0.0002554449 0.130921733 0.68720021 2 152144072 152144257 186 + 1.963 1.903 -0.199
ENSMUSG00000027465 E007 47.7097865 0.0004165334 0.814157556 0.98399344 2 152146866 152146946 81 + 1.694 1.680 -0.048
ENSMUSG00000027465 E008 135.5271497 0.0002573073 0.109370030 0.64991094 2 152149909 152150095 187 + 2.109 2.154 0.153
ENSMUSG00000027465 E009 7.0845659 0.0026450800 0.122846467 0.67246512 2 152150096 152150118 23 + 0.996 0.811 -0.701
ENSMUSG00000027465 E010 13.8274289 0.0013724650 0.002186899 0.08333012 2 152150119 152150249 131 + 1.298 1.018 -1.001
ENSMUSG00000027465 E011 87.4629991 0.0008132669 0.323212133 0.85860186 2 152150250 152150351 102 + 1.926 1.962 0.121
ENSMUSG00000027465 E012 78.8241445 0.0002730842 0.761140072 0.97790310 2 152152306 152152447 142 + 1.896 1.905 0.032
ENSMUSG00000027465 E013 3.2835078 0.0053449217 0.317378846 0.85337378 2 152152448 152152738 291 + 0.543 0.695 0.666
ENSMUSG00000027465 E014 80.2884734 0.0002485549 0.218626283 0.79186271 2 152153237 152153424 188 + 1.884 1.929 0.153
ENSMUSG00000027465 E015 4.4294794 0.0067221701 0.034451656 0.41995754 2 152153425 152153629 205 + 0.543 0.850 1.287
ENSMUSG00000027465 E016 1190.1122018 0.0015394670 0.709770204 0.96623901 2 152153630 152155916 2287 + 3.078 3.072 -0.019

Help

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