ENSMUSG00000029761

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
ENSMUST00000115021 ENSMUSG00000029761 Control shVgll3 Cald1 protein_coding protein_coding 264.0725 231.6933 296.4518 4.634085 4.169736 0.3555676 66.26293 54.35978 78.16608 1.9302478 4.0038404 0.52392231 0.24923333 0.23453333 0.26393333 0.029400000 0.93304518 0.02368588 FALSE  
ENSMUST00000115026 ENSMUSG00000029761 Control shVgll3 Cald1 protein_coding protein_coding 264.0725 231.6933 296.4518 4.634085 4.169736 0.3555676 104.04839 101.86314 106.23364 2.6647329 5.3867772 0.06060276 0.39883333 0.43956667 0.35810000 -0.081466667 0.02368588 0.02368588 FALSE  
ENSMUST00000146685 ENSMUSG00000029761 Control shVgll3 Cald1 protein_coding retained_intron 264.0725 231.6933 296.4518 4.634085 4.169736 0.3555676 35.26165 26.68861 43.83470 1.5800647 0.8901923 0.71563792 0.13161667 0.11533333 0.14790000 0.032566667 0.29199926 0.02368588    
MSTRG.18965.22 ENSMUSG00000029761 Control shVgll3 Cald1 protein_coding   264.0725 231.6933 296.4518 4.634085 4.169736 0.3555676 27.16739 24.63947 29.69531 0.4592982 4.6210227 0.26916447 0.10320000 0.10633333 0.10006667 -0.006266667 0.97771839 0.02368588 FALSE  
MSTRG.18965.6 ENSMUSG00000029761 Control shVgll3 Cald1 protein_coding   264.0725 231.6933 296.4518 4.634085 4.169736 0.3555676 15.27884 12.12966 18.42803 0.2543973 0.7592528 0.60295660 0.05728333 0.05233333 0.06223333 0.009900000 0.61744045 0.02368588 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
ENSMUSG00000029761 E001 1.615462e-01 3.467955e-02 3.933914e-01   6 34575120 34575149 30 + 0.000 0.138 14.387
ENSMUSG00000029761 E002 4.889958e-01 2.541253e-02 5.491795e-02   6 34575150 34575157 8 + 0.000 0.327 18.016
ENSMUSG00000029761 E003 5.600124e+00 2.250893e-01 2.697178e-01 8.182921e-01 6 34575158 34575297 140 + 0.679 0.946 1.052
ENSMUSG00000029761 E004 2.335585e+01 2.062979e-03 1.046351e-01 6.415676e-01 6 34575298 34575406 109 + 1.321 1.452 0.453
ENSMUSG00000029761 E005 4.595306e+00 1.196729e-02 6.070108e-01 9.533477e-01 6 34575407 34575434 28 + 0.772 0.709 -0.256
ENSMUSG00000029761 E006 4.092699e+00 1.210065e-02 6.767077e-01 9.616426e-01 6 34575435 34575446 12 + 0.727 0.676 -0.213
ENSMUSG00000029761 E007 6.578634e+00 2.804876e-03 3.078119e-01 8.474425e-01 6 34575447 34575478 32 + 0.813 0.948 0.517
ENSMUSG00000029761 E008 6.423340e+00 2.895347e-03 2.411057e-01 8.044216e-01 6 34575479 34575498 20 + 0.793 0.948 0.595
ENSMUSG00000029761 E009 5.601488e+00 3.203956e-03 5.129369e-01 9.308326e-01 6 34575499 34575499 1 + 0.772 0.867 0.372
ENSMUSG00000029761 E010 1.108812e+02 2.179744e-04 1.421646e-01 7.077261e-01 6 34575500 34575554 55 + 2.017 2.079 0.209
ENSMUSG00000029761 E011 1.565393e+02 6.077995e-04 2.257257e-01 7.984698e-01 6 34575555 34575600 46 + 2.172 2.221 0.166
ENSMUSG00000029761 E012 2.587953e+02 3.156987e-03 1.930001e-01 7.691151e-01 6 34639063 34639151 89 + 2.385 2.443 0.196
ENSMUSG00000029761 E013 1.615462e-01 3.467955e-02 3.933914e-01   6 34639152 34639683 532 + 0.000 0.138 16.257
ENSMUSG00000029761 E014 4.244456e+02 4.873440e-04 1.378108e-05 1.452352e-03 6 34662898 34663009 112 + 2.579 2.679 0.333
ENSMUSG00000029761 E015 6.585441e-01 4.979835e-01 4.457716e-01   6 34663010 34664108 1099 + 0.110 0.328 1.965
ENSMUSG00000029761 E016 2.315453e+00 1.508668e-02 9.154385e-01 9.975128e-01 6 34686377 34686417 41 + 0.520 0.511 -0.042
ENSMUSG00000029761 E017 2.975075e+00 3.423407e-02 9.888985e-01 1.000000e+00 6 34686418 34686424 7 + 0.590 0.602 0.051
ENSMUSG00000029761 E018 1.697282e+02 1.680582e-04 2.253071e-01 7.984698e-01 6 34686425 34686568 144 + 2.238 2.216 -0.071
ENSMUSG00000029761 E019 1.511963e+02 1.885085e-04 1.901116e-01 7.658913e-01 6 34686569 34686632 64 + 2.190 2.164 -0.087
ENSMUSG00000029761 E020 3.319899e-01 2.861968e-02 8.685817e-01   6 34686633 34687688 1056 + 0.110 0.138 0.372
ENSMUSG00000029761 E021 7.488354e+02 5.723662e-04 4.601336e-01 9.168276e-01 6 34718724 34718870 147 + 2.860 2.885 0.085
ENSMUSG00000029761 E022 3.228996e-01 2.851245e-02 8.679976e-01   6 34718871 34719143 273 + 0.110 0.138 0.372
ENSMUSG00000029761 E023 1.803236e+03 1.506991e-03 9.740747e-01 1.000000e+00 6 34722554 34722886 333 + 3.247 3.260 0.043
ENSMUSG00000029761 E024 3.304995e+02 7.802330e-03 7.424482e-01 9.729001e-01 6 34722887 34722915 29 + 2.518 2.515 -0.011
ENSMUSG00000029761 E025 3.343483e+02 7.883503e-04 1.031287e-01 6.407411e-01 6 34722916 34722941 26 + 2.533 2.507 -0.086
ENSMUSG00000029761 E026 2.949102e+02 5.371761e-04 7.072550e-02 5.733652e-01 6 34722942 34722950 9 + 2.480 2.450 -0.099
ENSMUSG00000029761 E027 4.148585e+01 2.519526e-03 1.974127e-04 1.350487e-02 6 34722951 34723025 75 + 1.705 1.491 -0.732
ENSMUSG00000029761 E028 4.774490e+01 6.092846e-03 6.689423e-03 1.738953e-01 6 34723026 34723320 295 + 1.748 1.585 -0.553
ENSMUSG00000029761 E029 1.129795e+02 9.306913e-03 8.726003e-03 2.029360e-01 6 34723321 34723574 254 + 2.108 1.970 -0.463
ENSMUSG00000029761 E030 5.187077e+01 1.539969e-03 6.306087e-02 5.460297e-01 6 34724708 34724820 113 + 1.755 1.669 -0.290
ENSMUSG00000029761 E031 3.444438e+01 2.393398e-03 5.783456e-02 5.234760e-01 6 34724821 34724826 6 + 1.590 1.480 -0.376
ENSMUSG00000029761 E032 6.389835e+01 5.240261e-04 3.730888e-02 4.373139e-01 6 34724827 34724904 78 + 1.842 1.760 -0.278
ENSMUSG00000029761 E033 2.403268e+03 3.827944e-04 1.165165e-20 1.048469e-17 6 34724905 34730377 5473 + 3.416 3.321 -0.314
ENSMUSG00000029761 E034 1.157346e+03 1.416059e-03 7.835146e-01 9.790322e-01 6 34730378 34730523 146 + 3.057 3.064 0.022
ENSMUSG00000029761 E035 2.639505e+02 6.997171e-03 1.103284e-01 6.520740e-01 6 34732569 34732574 6 + 2.445 2.384 -0.202
ENSMUSG00000029761 E036 1.707553e+03 7.088410e-04 3.262898e-01 8.606398e-01 6 34732575 34732833 259 + 3.230 3.228 -0.007
ENSMUSG00000029761 E037 9.387774e+02 1.459753e-03 8.585200e-01 9.888424e-01 6 34734919 34735059 141 + 2.965 2.975 0.033
ENSMUSG00000029761 E038 6.208632e+02 9.536614e-04 9.358790e-02 6.286265e-01 6 34739045 34739088 44 + 2.769 2.816 0.158
ENSMUSG00000029761 E039 8.536929e+02 2.621699e-04 5.971756e-01 9.520020e-01 6 34739186 34739264 79 + 2.919 2.940 0.068
ENSMUSG00000029761 E040 1.910855e+01 2.361126e-02 7.403705e-01 9.729001e-01 6 34739795 34741890 2096 + 1.277 1.327 0.173
ENSMUSG00000029761 E041 9.668264e+02 2.487306e-04 8.844771e-01 9.931669e-01 6 34741891 34742028 138 + 2.976 2.990 0.049
ENSMUSG00000029761 E042 2.967696e+00 5.928178e-03 3.471389e-01 8.743181e-01 6 34742029 34743037 1009 + 0.520 0.676 0.694
ENSMUSG00000029761 E043 8.797344e+02 7.957311e-05 4.487020e-01 9.134999e-01 6 34743038 34743133 96 + 2.931 2.953 0.074
ENSMUSG00000029761 E044 2.897523e+01 6.527890e-04 1.786911e-01 7.571012e-01 6 34743134 34743766 633 + 1.504 1.429 -0.261
ENSMUSG00000029761 E045 9.896058e+00 2.582194e-02 5.991396e-01 9.524032e-01 6 34746484 34746597 114 + 1.058 0.999 -0.215
ENSMUSG00000029761 E046 8.821443e+02 1.322135e-04 4.270277e-01 9.054504e-01 6 34747983 34748063 81 + 2.941 2.944 0.008
ENSMUSG00000029761 E047 5.293698e+01 1.070225e-02 6.852549e-01 9.629190e-01 6 34750155 34750157 3 + 1.735 1.719 -0.054
ENSMUSG00000029761 E048 1.386121e+04 1.186299e-03 2.400656e-02 3.462747e-01 6 34750158 34752408 2251 + 4.123 4.157 0.113

Help

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