ENSMUSG00000028207

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
ENSMUST00000078139 ENSMUSG00000028207 Control shVgll3 Asph protein_coding protein_coding 33.00669 30.00484 36.00854 0.2571482 1.173642 0.2630638 5.362258 5.444392 5.280123 0.18603724 0.2177975 -0.04411718 0.16416667 0.18160000 0.14673333 -0.03486667 0.61744045 0.02862121 FALSE  
ENSMUST00000084915 ENSMUSG00000028207 Control shVgll3 Asph protein_coding protein_coding 33.00669 30.00484 36.00854 0.2571482 1.173642 0.2630638 5.255354 3.826070 6.684638 0.04236475 0.1921966 0.80337700 0.15668333 0.12753333 0.18583333 0.05830000 0.02862121 0.02862121 FALSE  
MSTRG.15649.12 ENSMUSG00000028207 Control shVgll3 Asph protein_coding   33.00669 30.00484 36.00854 0.2571482 1.173642 0.2630638 1.824777 1.793295 1.856259 0.10170943 0.7651759 0.04951368 0.05523333 0.05973333 0.05073333 -0.00900000 0.97066567 0.02862121    
MSTRG.15649.5 ENSMUSG00000028207 Control shVgll3 Asph protein_coding   33.00669 30.00484 36.00854 0.2571482 1.173642 0.2630638 18.537605 16.689048 20.386162 0.24854125 0.5024212 0.28853186 0.56145000 0.55630000 0.56660000 0.01030000 0.98044549 0.02862121 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
ENSMUSG00000028207 E001 0.0000000       4 9448069 9448275 207 -      
ENSMUSG00000028207 E002 36.3356413 0.0015849647 4.081155e-01 0.8946504693 4 9449079 9451315 2237 - 1.545 1.599 0.185
ENSMUSG00000028207 E003 1231.9052530 0.0018156402 1.428967e-01 0.7090546106 4 9451316 9453445 2130 - 3.075 3.104 0.095
ENSMUSG00000028207 E004 114.3127975 0.0010855382 1.879278e-01 0.7658912678 4 9474898 9475031 134 - 2.035 2.087 0.175
ENSMUSG00000028207 E005 78.3603804 0.0073684624 7.270493e-01 0.9710735626 4 9475390 9475481 92 - 1.885 1.910 0.084
ENSMUSG00000028207 E006 98.9308476 0.0061020158 9.942266e-01 1.0000000000 4 9484472 9484607 136 - 1.995 1.999 0.015
ENSMUSG00000028207 E007 89.7605379 0.0009905789 8.992452e-01 0.9956322532 4 9508627 9508764 138 - 1.956 1.955 -0.001
ENSMUSG00000028207 E008 107.3472683 0.0070543573 3.369467e-01 0.8668264640 4 9514589 9514678 90 - 2.006 2.063 0.192
ENSMUSG00000028207 E009 97.0537449 0.0051961732 3.643516e-01 0.8754022310 4 9517636 9517734 99 - 1.966 2.015 0.164
ENSMUSG00000028207 E010 107.8113101 0.0028030472 9.930560e-01 1.0000000000 4 9529886 9530022 137 - 2.033 2.036 0.011
ENSMUSG00000028207 E011 113.3301684 0.0002101507 9.241806e-01 0.9989382987 4 9531915 9532065 151 - 2.055 2.056 0.005
ENSMUSG00000028207 E012 89.2035546 0.0008054041 4.990006e-01 0.9277261731 4 9537679 9537765 87 - 1.938 1.969 0.105
ENSMUSG00000028207 E013 68.4187742 0.0003588355 3.571399e-01 0.8751769517 4 9542225 9542310 86 - 1.819 1.863 0.148
ENSMUSG00000028207 E014 1.1543018 0.0123339057 3.895615e-01 0.8861838685 4 9574872 9575266 395 - 0.392 0.240 -0.993
ENSMUSG00000028207 E015 255.4504702 0.0014428935 2.452632e-06 0.0003152845 4 9575267 9576973 1707 - 2.458 2.330 -0.428
ENSMUSG00000028207 E016 88.7143605 0.0002412308 9.066647e-01 0.9956322532 4 9583812 9583856 45 - 1.950 1.950 0.001
ENSMUSG00000028207 E017 64.3726381 0.0020447105 3.418875e-01 0.8712097537 4 9594663 9594698 36 - 1.830 1.789 -0.141
ENSMUSG00000028207 E018 75.3139918 0.0048233702 8.462258e-02 0.6084296101 4 9595377 9595415 39 - 1.916 1.829 -0.294
ENSMUSG00000028207 E019 10.2011620 0.0020180040 3.571105e-01 0.8751769517 4 9595416 9595689 274 - 1.085 0.993 -0.334
ENSMUSG00000028207 E020 0.3326527 0.0291420483 8.747453e-01   4 9597821 9597840 20 - 0.112 0.136 0.329
ENSMUSG00000028207 E021 7.2380602 0.0050385962 4.872838e-01 0.9257967229 4 9597921 9598268 348 - 0.873 0.960 0.328
ENSMUSG00000028207 E022 62.0341128 0.0003286270 6.187694e-01 0.9551419776 4 9598269 9598301 33 - 1.785 1.812 0.091
ENSMUSG00000028207 E023 40.7693749 0.0004853969 2.772076e-01 0.8222043420 4 9598733 9598780 48 - 1.642 1.587 -0.189
ENSMUSG00000028207 E024 99.1423754 0.0005114375 2.047442e-01 0.7789693625 4 9601307 9601363 57 - 1.975 2.026 0.171
ENSMUSG00000028207 E025 62.6385403 0.0003419382 9.116162e-01 0.9971030374 4 9602469 9602501 33 - 1.797 1.807 0.032
ENSMUSG00000028207 E026 172.9949771 0.0002310020 3.659306e-01 0.8754022310 4 9604516 9604629 114 - 2.246 2.226 -0.066
ENSMUSG00000028207 E027 116.3246730 0.0001972884 7.813145e-01 0.9790321967 4 9607797 9607871 75 - 2.060 2.074 0.046
ENSMUSG00000028207 E028 0.9786448 0.0446792283 2.996797e-01 0.8404484142 4 9610413 9610552 140 - 0.201 0.393 1.328
ENSMUSG00000028207 E029 138.3217038 0.0026874224 2.708826e-01 0.8182920579 4 9610843 9610938 96 - 2.158 2.120 -0.125
ENSMUSG00000028207 E030 4.9187130 0.1572119752 1.379014e-01 0.6995917003 4 9620909 9621695 787 - 0.625 0.904 1.127
ENSMUSG00000028207 E031 5.9089023 0.0031652827 1.953561e-01 0.7708253581 4 9621696 9622226 531 - 0.756 0.923 0.651
ENSMUSG00000028207 E032 0.3334988 0.3283962046 3.493763e-01   4 9624360 9624401 42 - 0.201 0.000 -9.634
ENSMUSG00000028207 E033 5.7414215 0.0336798162 1.319166e-01 0.6882828025 4 9629023 9630546 1524 - 0.709 0.941 0.912
ENSMUSG00000028207 E034 4.6102119 0.0512540243 4.508654e-01 0.9134998682 4 9630547 9630925 379 - 0.683 0.815 0.536
ENSMUSG00000028207 E035 1.4765385 0.0114895796 4.975709e-01 0.9275662840 4 9630926 9630952 27 - 0.441 0.323 -0.671
ENSMUSG00000028207 E036 8.7079902 0.0021655330 2.377382e-01 0.8044216279 4 9633116 9635900 2785 - 0.921 1.054 0.492
ENSMUSG00000028207 E037 97.2385724 0.0002478918 1.734088e-01 0.7549445754 4 9635901 9635969 69 - 2.009 1.964 -0.149
ENSMUSG00000028207 E038 0.4929870 0.0220912493 4.481677e-01   4 9637659 9637703 45 - 0.112 0.240 1.329
ENSMUSG00000028207 E039 126.4553640 0.0011680090 7.940828e-01 0.9806318995 4 9639198 9639347 150 - 2.097 2.110 0.046
ENSMUSG00000028207 E040 6.5935912 0.0028973580 7.925005e-01 0.9805859165 4 9643535 9643726 192 - 0.890 0.861 -0.107
ENSMUSG00000028207 E041 0.3270836 0.0289422877 8.739593e-01   4 9668313 9668512 200 - 0.112 0.136 0.329
ENSMUSG00000028207 E042 136.4726218 0.0044920071 3.430392e-01 0.8713684891 4 9668781 9669155 375 - 2.151 2.114 -0.124
ENSMUSG00000028207 E043 0.0000000       4 9669156 9669344 189 -      

Help

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