ENSMUSG00000032875

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
ENSMUST00000107032 ENSMUSG00000032875 Control shVgll3 Arhgef17 protein_coding protein_coding 26.97289 16.83401 37.11177 3.35924 8.892013 1.14003 3.662033 3.975191 3.348876 0.08462637 0.29020944 -0.2466701 0.17460000 0.25150000 0.0977000 -0.15380000 0.04657537 0.04657537 FALSE TRUE
ENSMUST00000175555 ENSMUSG00000032875 Control shVgll3 Arhgef17 protein_coding miRNA 26.97289 16.83401 37.11177 3.35924 8.892013 1.14003 13.451510 3.459731 23.443290 3.45973083 8.68840269 2.7568946 0.36846667 0.14690000 0.5900333 0.44313333 0.47860048 0.04657537   FALSE
ENSMUST00000209041 ENSMUSG00000032875 Control shVgll3 Arhgef17 protein_coding protein_coding 26.97289 16.83401 37.11177 3.35924 8.892013 1.14003 7.682820 7.187174 8.178465 0.23623223 0.09133115 0.1861625 0.35478333 0.46200000 0.2475667 -0.21443333 0.61816246 0.04657537 FALSE TRUE
MSTRG.21244.1 ENSMUSG00000032875 Control shVgll3 Arhgef17 protein_coding   26.97289 16.83401 37.11177 3.35924 8.892013 1.14003 1.360196 1.279745 1.440648 0.03076023 0.11491225 0.1696118 0.06221667 0.08203333 0.0424000 -0.03963333 0.61744045 0.04657537 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
ENSMUSG00000032875 E001 0.3316336 0.0261382897 1.949517e-01   7 100518944 100518958 15 - 0.000 0.222 9.956
ENSMUSG00000032875 E002 169.4348724 0.0024573165 2.225920e-11 8.137130e-09 7 100518959 100521341 2383 - 2.097 2.336 0.799
ENSMUSG00000032875 E003 596.8477075 0.0002123277 1.698260e-02 2.947515e-01 7 100521342 100522803 1462 - 2.792 2.761 -0.103
ENSMUSG00000032875 E004 130.5296321 0.0011341984 9.817458e-01 1.000000e+00 7 100525620 100525889 270 - 2.118 2.120 0.006
ENSMUSG00000032875 E005 26.8530005 0.0034156875 4.520189e-01 9.134999e-01 7 100525973 100526024 52 - 1.416 1.471 0.191
ENSMUSG00000032875 E006 49.6710843 0.0003827216 9.745191e-01 1.000000e+00 7 100526025 100526147 123 - 1.703 1.707 0.012
ENSMUSG00000032875 E007 62.6140171 0.0003528397 7.697122e-01 9.779907e-01 7 100526915 100527063 149 - 1.809 1.798 -0.037
ENSMUSG00000032875 E008 31.5772135 0.0007690506 3.069909e-01 8.470590e-01 7 100527303 100527370 68 - 1.542 1.481 -0.210
ENSMUSG00000032875 E009 34.8934420 0.0005505979 6.739087e-01 9.616426e-01 7 100527701 100527787 87 - 1.566 1.543 -0.078
ENSMUSG00000032875 E010 47.0650317 0.0004069486 7.062492e-01 9.659286e-01 7 100528012 100528159 148 - 1.671 1.692 0.072
ENSMUSG00000032875 E011 54.1199445 0.0003775584 9.023425e-01 9.956323e-01 7 100528160 100528261 102 - 1.743 1.739 -0.013
ENSMUSG00000032875 E012 167.2098694 0.0038325160 4.765183e-01 9.226779e-01 7 100528659 100528963 305 - 2.239 2.212 -0.089
ENSMUSG00000032875 E013 83.5765303 0.0020585455 4.941240e-01 9.267463e-01 7 100529140 100529339 200 - 1.941 1.913 -0.094
ENSMUSG00000032875 E014 36.2052217 0.0005181394 2.902406e-01 8.366558e-01 7 100529808 100529881 74 - 1.538 1.601 0.215
ENSMUSG00000032875 E015 101.9995706 0.0054706864 6.026749e-01 9.530216e-01 7 100530386 100530599 214 - 1.998 2.027 0.097
ENSMUSG00000032875 E016 67.5160485 0.0045004759 6.620708e-01 9.581733e-01 7 100530900 100531018 119 - 1.822 1.849 0.088
ENSMUSG00000032875 E017 27.6568176 0.0028060896 9.590099e-01 1.000000e+00 7 100531427 100531479 53 - 1.457 1.456 -0.003
ENSMUSG00000032875 E018 27.7813037 0.0007429687 5.240066e-01 9.341403e-01 7 100531480 100531512 33 - 1.437 1.481 0.151
ENSMUSG00000032875 E019 5.6135604 0.0059498920 4.760609e-01 9.226627e-01 7 100531513 100531616 104 - 0.770 0.865 0.372
ENSMUSG00000032875 E020 54.1018372 0.0003491816 7.339231e-01 9.723295e-01 7 100531617 100531726 110 - 1.748 1.734 -0.048
ENSMUSG00000032875 E021 6.7293934 0.0471398541 8.296546e-01 9.854840e-01 7 100531727 100531979 253 - 0.875 0.903 0.105
ENSMUSG00000032875 E022 25.0052604 0.0007374118 3.082036e-01 8.475347e-01 7 100531980 100532030 51 - 1.447 1.379 -0.235
ENSMUSG00000032875 E023 54.3516374 0.0022494650 2.068802e-01 7.820062e-01 7 100532323 100532499 177 - 1.773 1.710 -0.214
ENSMUSG00000032875 E024 44.5339431 0.0004767241 2.147573e-01 7.879665e-01 7 100532677 100532769 93 - 1.689 1.626 -0.214
ENSMUSG00000032875 E025 53.3573308 0.0109940567 2.474386e-01 8.045610e-01 7 100532975 100533091 117 - 1.694 1.775 0.272
ENSMUSG00000032875 E026 51.8001223 0.0021198346 9.309163e-01 9.993033e-01 7 100534884 100535066 183 - 1.720 1.726 0.022
ENSMUSG00000032875 E027 43.0960281 0.0004284664 1.144322e-01 6.585239e-01 7 100538178 100539257 1080 - 1.683 1.601 -0.278
ENSMUSG00000032875 E028 17.4557352 0.0011203697 3.834520e-01 8.835182e-01 7 100539628 100539705 78 - 1.298 1.230 -0.242
ENSMUSG00000032875 E029 0.0000000       7 100543650 100543897 248 -      
ENSMUSG00000032875 E030 603.9761876 0.0023656466 5.250777e-01 9.347146e-01 7 100577776 100581334 3559 - 2.789 2.775 -0.047

Help

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