ENSMUSG00000026516

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
ENSMUST00000027797 ENSMUSG00000026516 Control shVgll3 Nvl protein_coding protein_coding 15.78582 12.81436 18.75727 0.9200917 0.7680162 0.5493315 1.676862 2.2394466 1.114276 0.2876439 0.2265294 -1.0005733 0.1171167 0.17513333 0.0591000 -0.11603333 0.005213763 0.005213763 FALSE TRUE
ENSMUST00000191728 ENSMUSG00000026516 Control shVgll3 Nvl protein_coding retained_intron 15.78582 12.81436 18.75727 0.9200917 0.7680162 0.5493315 3.703475 2.7223152 4.684635 0.5590998 0.4004624 0.7808892 0.2288000 0.20853333 0.2490667 0.04053333 0.970665669 0.005213763 FALSE TRUE
ENSMUST00000195209 ENSMUSG00000026516 Control shVgll3 Nvl protein_coding retained_intron 15.78582 12.81436 18.75727 0.9200917 0.7680162 0.5493315 5.998214 4.6279735 7.368455 0.4002626 0.4794763 0.6698241 0.3764167 0.36076667 0.3920667 0.03130000 0.970665669 0.005213763   FALSE
MSTRG.1582.2 ENSMUSG00000026516 Control shVgll3 Nvl protein_coding   15.78582 12.81436 18.75727 0.9200917 0.7680162 0.5493315 2.374269 2.5200734 2.228464 0.2125412 0.1493552 -0.1766700 0.1591000 0.19896667 0.1192333 -0.07973333 0.343537214 0.005213763 TRUE TRUE
MSTRG.1582.3 ENSMUSG00000026516 Control shVgll3 Nvl protein_coding   15.78582 12.81436 18.75727 0.9200917 0.7680162 0.5493315 1.958385 0.6469673 3.269803 0.4308651 0.3044933 2.3197157 0.1137500 0.05196667 0.1755333 0.12356667 0.691338433 0.005213763 TRUE TRUE
  • 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
ENSMUSG00000026516 E001 0.0000000       1 180914703 180914719 17 -      
ENSMUSG00000026516 E002 0.8293436 0.2577908185 2.693899e-02 3.685759e-01 1 180914720 180914812 93 - 0.000 0.466 11.639
ENSMUSG00000026516 E003 105.1697870 0.0002554978 1.269243e-08 2.969522e-06 1 180914813 180919216 4404 - 1.929 2.121 0.643
ENSMUSG00000026516 E004 0.0000000       1 180919217 180919764 548 -      
ENSMUSG00000026516 E005 105.7439710 0.0021711331 4.463798e-01 9.133596e-01 1 180919765 180920823 1059 - 2.012 2.039 0.092
ENSMUSG00000026516 E006 153.2129438 0.0019760582 4.260207e-01 9.054504e-01 1 180920824 180921278 455 - 2.172 2.198 0.085
ENSMUSG00000026516 E007 98.4940694 0.0041794443 7.588925e-01 9.770657e-01 1 180921279 180921474 196 - 2.000 1.982 -0.058
ENSMUSG00000026516 E008 44.0020297 0.0096332889 6.464278e-01 9.566871e-01 1 180922549 180922619 71 - 1.637 1.665 0.094
ENSMUSG00000026516 E009 248.8224554 0.0020838030 2.394856e-04 1.569740e-02 1 180922620 180923546 927 - 2.437 2.324 -0.379
ENSMUSG00000026516 E010 241.6609119 0.0002706230 3.071024e-07 5.443158e-05 1 180923547 180924700 1154 - 2.428 2.306 -0.407
ENSMUSG00000026516 E011 36.2123243 0.0136044647 6.518008e-01 9.566871e-01 1 180924701 180924789 89 - 1.550 1.586 0.123
ENSMUSG00000026516 E012 48.3679558 0.0004695923 3.714402e-01 8.768396e-01 1 180926692 180926768 77 - 1.670 1.713 0.144
ENSMUSG00000026516 E013 61.0540728 0.0003177881 5.925731e-02 5.285001e-01 1 180929094 180929200 107 - 1.751 1.833 0.276
ENSMUSG00000026516 E014 70.1211367 0.0003349764 9.330869e-01 9.993033e-01 1 180932637 180932736 100 - 1.847 1.847 0.003
ENSMUSG00000026516 E015 79.2203382 0.0004435617 7.442406e-01 9.729001e-01 1 180934425 180934544 120 - 1.894 1.905 0.035
ENSMUSG00000026516 E016 53.0098968 0.0003662431 9.858620e-01 1.000000e+00 1 180936725 180936787 63 - 1.729 1.725 -0.012
ENSMUSG00000026516 E017 67.1642219 0.0003143351 7.255739e-01 9.710736e-01 1 180939853 180939957 105 - 1.836 1.818 -0.060
ENSMUSG00000026516 E018 91.4943718 0.0002391589 2.244473e-01 7.980499e-01 1 180941648 180941866 219 - 1.981 1.933 -0.161
ENSMUSG00000026516 E019 141.2310257 0.0001838558 1.831854e-01 7.608225e-01 1 180945001 180945250 250 - 2.132 2.168 0.122
ENSMUSG00000026516 E020 79.0322961 0.0002644364 5.788653e-01 9.473737e-01 1 180947920 180948064 145 - 1.890 1.909 0.065
ENSMUSG00000026516 E021 78.1048707 0.0028367184 8.324196e-01 9.854840e-01 1 180951432 180951549 118 - 1.890 1.897 0.022
ENSMUSG00000026516 E022 64.3099890 0.0003529380 3.402888e-01 8.688679e-01 1 180954503 180954604 102 - 1.829 1.784 -0.152
ENSMUSG00000026516 E023 71.3359734 0.0058877101 6.870619e-01 9.629190e-01 1 180957074 180957208 135 - 1.864 1.840 -0.079
ENSMUSG00000026516 E024 56.9377714 0.0003311470 8.023219e-01 9.816518e-01 1 180957959 180958035 77 - 1.764 1.750 -0.049
ENSMUSG00000026516 E025 70.6624608 0.0007986480 4.725200e-01 9.212309e-01 1 180958303 180958435 133 - 1.838 1.866 0.095
ENSMUSG00000026516 E026 135.7846309 0.0003884792 8.803949e-01 9.918955e-01 1 180962357 180962629 273 - 2.130 2.132 0.006
ENSMUSG00000026516 E027 0.1615462 0.0345869820 3.636251e-01   1 180963719 180964437 719 - 0.000 0.141 12.493
ENSMUSG00000026516 E028 42.8293828 0.0004554178 6.145206e-01 9.542188e-01 1 180964438 180964495 58 - 1.626 1.650 0.083
ENSMUSG00000026516 E029 0.6642863 0.0237722034 1.910504e-01   1 180964496 180966247 1752 - 0.108 0.332 2.025
ENSMUSG00000026516 E030 55.0141497 0.0004367681 6.748896e-02 5.607602e-01 1 180966636 180966732 97 - 1.705 1.789 0.284
ENSMUSG00000026516 E031 26.3251026 0.0043903147 7.565903e-02 5.853567e-01 1 180966819 180966866 48 - 1.373 1.500 0.440
ENSMUSG00000026516 E032 12.0060333 0.0188043808 1.164481e-01 6.620310e-01 1 180966867 180966871 5 - 1.025 1.203 0.638
ENSMUSG00000026516 E033 30.6021437 0.0048810852 4.090218e-01 8.953475e-01 1 180969891 180969964 74 - 1.470 1.526 0.191
ENSMUSG00000026516 E034 29.7556289 0.0007833609 9.464292e-01 1.000000e+00 1 180971616 180971769 154 - 1.483 1.484 0.006

Help

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