ENSMUSG00000031214

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
ENSMUST00000033560 ENSMUSG00000031214 Control shVgll3 Ophn1 protein_coding protein_coding 6.071934 8.206946 3.936922 0.3559457 0.4974863 -1.057874 1.4815834 2.1198733 0.8432935 0.0340991 0.02959027 -1.319654 0.23951667 0.2594667 0.21956667 -0.03990000 9.706657e-01 3.393064e-14 FALSE TRUE
ENSMUST00000113826 ENSMUSG00000031214 Control shVgll3 Ophn1 protein_coding protein_coding 6.071934 8.206946 3.936922 0.3559457 0.4974863 -1.057874 3.6585195 5.3625149 1.9545241 0.0877075 0.08938017 -1.451418 0.58115000 0.6554333 0.50686667 -0.14856667 5.128995e-01 3.393064e-14 FALSE TRUE
ENSMUST00000147529 ENSMUSG00000031214 Control shVgll3 Ophn1 protein_coding protein_coding 6.071934 8.206946 3.936922 0.3559457 0.4974863 -1.057874 0.3117972 0.6235944 0.0000000 0.3164668 0.00000000 -5.985488 0.03645000 0.0729000 0.00000000 -0.07290000 7.130935e-01 3.393064e-14 FALSE TRUE
ENSMUST00000154920 ENSMUSG00000031214 Control shVgll3 Ophn1 protein_coding protein_coding_CDS_not_defined 6.071934 8.206946 3.936922 0.3559457 0.4974863 -1.057874 0.1384967 0.0000000 0.2769933 0.0000000 0.27699334 4.842945 0.02821667 0.0000000 0.05643333 0.05643333 9.706657e-01 3.393064e-14 FALSE FALSE
MSTRG.25056.3 ENSMUSG00000031214 Control shVgll3 Ophn1 protein_coding   6.071934 8.206946 3.936922 0.3559457 0.4974863 -1.057874 0.3913964 0.0000000 0.7827928 0.0000000 0.13363943 6.308872 0.09856667 0.0000000 0.19713333 0.19713333 3.393064e-14 3.393064e-14 FALSE 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
ENSMUSG00000031214 E001 152.6122273 0.0002295177 8.198313e-03 0.197425592 X 97597883 97601856 3974 - 2.104 2.180 0.253
ENSMUSG00000031214 E002 2.7845954 0.0064506028 8.161654e-01 0.984110891 X 97601857 97601862 6 - 0.531 0.569 0.178
ENSMUSG00000031214 E003 15.2822034 0.0012770464 7.708323e-02 0.588675009 X 97601863 97602011 149 - 1.062 1.231 0.605
ENSMUSG00000031214 E004 7.0896923 0.0049070558 6.969614e-01 0.964625631 X 97603192 97603233 42 - 0.913 0.865 -0.185
ENSMUSG00000031214 E005 0.1613534 0.0340386904 2.301425e-01   X 97607175 97607235 61 - 0.170 0.000 -11.938
ENSMUSG00000031214 E006 8.8933145 0.0021901347 1.839907e-01 0.760822469 X 97607236 97607286 51 - 1.062 0.915 -0.545
ENSMUSG00000031214 E007 0.1615462 0.0344910150 1.000000e+00   X 97607898 97607939 42 - 0.000 0.088 9.497
ENSMUSG00000031214 E008 36.0007262 0.0056132292 8.978378e-01 0.995632253 X 97608322 97608487 166 - 1.545 1.537 -0.026
ENSMUSG00000031214 E009 26.9839848 0.0541804339 6.244509e-01 0.955141978 X 97621990 97622067 78 - 1.389 1.431 0.148
ENSMUSG00000031214 E010 68.2279504 0.0003002009 5.900138e-01 0.951399702 X 97622068 97622313 246 - 1.795 1.818 0.079
ENSMUSG00000031214 E011 38.3402286 0.0007295731 4.268866e-01 0.905450382 X 97640634 97640781 148 - 1.532 1.580 0.163
ENSMUSG00000031214 E012 35.8390730 0.0105185199 3.294103e-01 0.862412416 X 97670520 97670679 160 - 1.584 1.513 -0.243
ENSMUSG00000031214 E013 24.3162280 0.0012200179 5.490763e-01 0.937070285 X 97684514 97684619 106 - 1.344 1.389 0.155
ENSMUSG00000031214 E014 15.9663131 0.0024735860 2.744971e-01 0.819981544 X 97685357 97685415 59 - 1.129 1.231 0.364
ENSMUSG00000031214 E015 23.6685552 0.0008227629 3.894402e-01 0.886183869 X 97688516 97688600 85 - 1.406 1.343 -0.219
ENSMUSG00000031214 E016 20.0381806 0.0010244690 3.479059e-01 0.874503943 X 97739605 97739679 75 - 1.344 1.270 -0.260
ENSMUSG00000031214 E017 20.1984057 0.0011689641 6.225001e-01 0.955141978 X 97741893 97741955 63 - 1.325 1.285 -0.138
ENSMUSG00000031214 E018 10.6926662 0.0021718143 8.264690e-01 0.985483953 X 97742462 97742495 34 - 1.025 1.048 0.085
ENSMUSG00000031214 E019 18.2483978 0.0010930577 4.889126e-01 0.925796723 X 97745471 97745549 79 - 1.294 1.237 -0.201
ENSMUSG00000031214 E020 16.4712457 0.0011877101 4.021320e-01 0.892114652 X 97748636 97748727 92 - 1.261 1.189 -0.255
ENSMUSG00000031214 E021 14.4785871 0.0014595058 3.347231e-01 0.866181884 X 97753684 97753784 101 - 1.097 1.189 0.330
ENSMUSG00000031214 E022 0.6607752 0.0878164295 4.800720e-01   X 97755805 97755946 142 - 0.292 0.162 -1.087
ENSMUSG00000031214 E023 24.6550959 0.0017443519 7.181340e-01 0.969269541 X 97755947 97756032 86 - 1.363 1.389 0.092
ENSMUSG00000031214 E024 20.8689617 0.0069247146 6.207640e-01 0.955141978 X 97756033 97756076 44 - 1.283 1.324 0.143
ENSMUSG00000031214 E025 3.1175152 0.0409480246 7.094186e-01 0.966210104 X 97756077 97757712 1636 - 0.639 0.570 -0.306
ENSMUSG00000031214 E026 24.8281527 0.0008127167 9.135800e-01 0.997297804 X 97757713 97757817 105 - 1.389 1.381 -0.028
ENSMUSG00000031214 E027 24.5027467 0.0008053110 5.673355e-01 0.943543097 X 97769611 97769721 111 - 1.406 1.364 -0.143
ENSMUSG00000031214 E028 11.0318627 0.0017564151 7.039412e-01 0.965928569 X 97775971 97775997 27 - 1.025 1.065 0.147
ENSMUSG00000031214 E029 15.7632228 0.0012320924 8.681170e-01 0.988921231 X 97775998 97776072 75 - 1.187 1.202 0.052
ENSMUSG00000031214 E030 14.2845688 0.0013519730 7.978058e-01 0.981200055 X 97807311 97807382 72 - 1.173 1.149 -0.086
ENSMUSG00000031214 E031 9.1873206 0.0020600219 2.593455e-01 0.813530431 X 97824562 97824623 62 - 1.062 0.939 -0.457
ENSMUSG00000031214 E032 0.1657302 0.0345416879 1.000000e+00   X 97845407 97846690 1284 - 0.000 0.088 9.497
ENSMUSG00000031214 E033 10.6875416 0.0020380337 1.145928e-01 0.658560141 X 97846691 97846786 96 - 0.913 1.090 0.652
ENSMUSG00000031214 E034 0.0000000       X 97917332 97917628 297 -      
ENSMUSG00000031214 E035 0.6587172 0.0222592130 7.672826e-01   X 97931386 97933687 2302 - 0.170 0.225 0.500
ENSMUSG00000031214 E036 25.9806874 0.0008535196 6.881171e-01 0.962918995 X 97933688 97933860 173 - 1.422 1.393 -0.099
ENSMUSG00000031214 E037 0.1659033 0.0345614842 1.000000e+00   X 97933861 97933986 126 - 0.000 0.088 9.497
ENSMUSG00000031214 E038 19.8957512 0.0009689495 5.138639e-02 0.494422538 X 97933987 97934105 119 - 1.389 1.237 -0.530
ENSMUSG00000031214 E039 12.8270256 0.0014637291 8.288173e-05 0.006551017 X 97934106 97934303 198 - 1.325 0.961 -1.308
ENSMUSG00000031214 E040 5.4300657 0.0036394095 2.977533e-03 0.101398388 X 97934304 97934631 328 - 1.005 0.619 -1.526

Help

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