ENSMUSG00000023951

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
ENSMUST00000024747 ENSMUSG00000023951 Control shVgll3 Vegfa protein_coding protein_coding 135.3217 185.0266 85.61678 0.2283399 4.879776 -1.111677 6.150749 12.30150 0.00000 1.7777265 0.0000000 -10.2657906 0.03321667 0.06643333 0.00000000 -0.066433333 6.026731e-24 6.026731e-24 FALSE  
ENSMUST00000071648 ENSMUSG00000023951 Control shVgll3 Vegfa protein_coding protein_coding 135.3217 185.0266 85.61678 0.2283399 4.879776 -1.111677 35.394850 48.81475 21.97495 0.4602193 1.6510081 -1.1510962 0.26000000 0.26383333 0.25616667 -0.007666667 9.706657e-01 6.026731e-24 FALSE  
ENSMUST00000146149 ENSMUSG00000023951 Control shVgll3 Vegfa protein_coding retained_intron 135.3217 185.0266 85.61678 0.2283399 4.879776 -1.111677 9.253527 11.90669 6.60036 1.0594455 0.7210680 -0.8501831 0.07120000 0.06436667 0.07803333 0.013666667 9.706657e-01 6.026731e-24 FALSE  
ENSMUST00000150327 ENSMUSG00000023951 Control shVgll3 Vegfa protein_coding retained_intron 135.3217 185.0266 85.61678 0.2283399 4.879776 -1.111677 58.775308 82.31053 35.24009 1.1602949 2.3693138 -1.2236252 0.42800000 0.44486667 0.41113333 -0.033733333 6.164163e-01 6.026731e-24    
MSTRG.10230.1 ENSMUSG00000023951 Control shVgll3 Vegfa protein_coding   135.3217 185.0266 85.61678 0.2283399 4.879776 -1.111677 16.509485 18.63738 14.38159 0.8919666 0.3609339 -0.3737467 0.13465000 0.10073333 0.16856667 0.067833333 3.219709e-06 6.026731e-24 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
ENSMUSG00000023951 E001 2248.89910 2.104801e-04 1.103454e-01 6.520740e-01 17 46327919 46329404 1486 - 3.311 3.325 0.047
ENSMUSG00000023951 E002 103.93651 2.125756e-04 1.945281e-01 7.708254e-01 17 46329405 46329468 64 - 1.955 2.005 0.165
ENSMUSG00000023951 E003 352.92479 1.296677e-04 6.166364e-01 9.543274e-01 17 46329469 46329531 63 - 2.510 2.521 0.035
ENSMUSG00000023951 E004 526.87240 1.359477e-04 5.735519e-02 5.233549e-01 17 46329532 46329637 106 - 2.668 2.701 0.109
ENSMUSG00000023951 E005 607.32032 9.099797e-05 5.287059e-01 9.357450e-01 17 46329638 46329756 119 - 2.759 2.750 -0.031
ENSMUSG00000023951 E006 231.91249 1.538734e-04 5.508002e-02 5.155648e-01 17 46329757 46329758 2 - 2.368 2.320 -0.158
ENSMUSG00000023951 E007 291.42124 3.688996e-04 3.137719e-01 8.521167e-01 17 46329759 46329783 25 - 2.451 2.427 -0.078
ENSMUSG00000023951 E008 180.79440 2.630654e-03 7.325545e-01 9.721410e-01 17 46329784 46329805 22 - 2.218 2.233 0.048
ENSMUSG00000023951 E009 198.23250 5.017902e-04 4.569059e-02 4.755236e-01 17 46331917 46332048 132 - 2.306 2.250 -0.188
ENSMUSG00000023951 E010 25.98104 7.134796e-04 2.307741e-01 8.037828e-01 17 46332049 46332298 250 - 1.457 1.372 -0.293
ENSMUSG00000023951 E011 16.10176 2.270554e-03 2.876002e-01 8.343155e-01 17 46333203 46333220 18 - 1.266 1.172 -0.334
ENSMUSG00000023951 E012 36.12770 2.575601e-03 8.214948e-01 9.841109e-01 17 46333221 46333274 54 - 1.549 1.535 -0.049
ENSMUSG00000023951 E013 228.84316 3.804519e-03 3.472089e-01 8.743181e-01 17 46334991 46335020 30 - 2.354 2.319 -0.117
ENSMUSG00000023951 E014 415.36406 1.811091e-03 2.049322e-01 7.791018e-01 17 46335370 46335446 77 - 2.611 2.577 -0.112
ENSMUSG00000023951 E015 368.55213 1.148322e-04 9.273973e-03 2.066418e-01 17 46335447 46335807 361 - 2.499 2.552 0.176
ENSMUSG00000023951 E016 58.76455 3.151154e-03 2.989219e-01 8.404484e-01 17 46336122 46336272 151 - 1.783 1.726 -0.191
ENSMUSG00000023951 E017 519.70514 4.223138e-04 2.643898e-03 9.400704e-02 17 46336273 46336469 197 - 2.722 2.667 -0.183
ENSMUSG00000023951 E018 185.69484 2.233822e-04 4.123936e-01 8.971427e-01 17 46339277 46339325 49 - 2.255 2.232 -0.076
ENSMUSG00000023951 E019 91.44075 2.511028e-04 5.632345e-13 2.745299e-10 17 46341407 46341793 387 - 2.101 1.830 -0.910
ENSMUSG00000023951 E020 1328.88554 1.809768e-04 6.106186e-04 3.337858e-02 17 46342217 46343295 1079 - 3.065 3.104 0.128

Help

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