ENSMUSG00000059851

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
ENSMUST00000108582 ENSMUSG00000059851 Control shVgll3 Kmt5c protein_coding protein_coding 14.24036 13.211 15.26972 0.5122891 1.174867 0.2087875 3.996092 3.641675 4.350508 0.5316134 0.3659620 0.2559379 0.27940000 0.2738333 0.2849667 0.011133333 1.000000e+00 2.883477e-09 FALSE TRUE
ENSMUST00000128018 ENSMUSG00000059851 Control shVgll3 Kmt5c protein_coding protein_coding 14.24036 13.211 15.26972 0.5122891 1.174867 0.2087875 0.664868 1.329736 0.000000 0.2717654 0.0000000 -7.0658049 0.05063333 0.1012667 0.0000000 -0.101266667 2.883477e-09 2.883477e-09 FALSE FALSE
ENSMUST00000129927 ENSMUSG00000059851 Control shVgll3 Kmt5c protein_coding retained_intron 14.24036 13.211 15.26972 0.5122891 1.174867 0.2087875 1.709489 1.159480 2.259497 0.7274355 0.4747813 0.9565049 0.11791667 0.0902000 0.1456333 0.055433333 9.706657e-01 2.883477e-09 FALSE FALSE
MSTRG.20116.7 ENSMUSG00000059851 Control shVgll3 Kmt5c protein_coding   14.24036 13.211 15.26972 0.5122891 1.174867 0.2087875 3.630097 3.077779 4.182416 0.4770988 0.3236011 0.4412121 0.25586667 0.2356000 0.2761333 0.040533333 9.706657e-01 2.883477e-09 FALSE TRUE
MSTRG.20116.8 ENSMUSG00000059851 Control shVgll3 Kmt5c protein_coding   14.24036 13.211 15.26972 0.5122891 1.174867 0.2087875 2.588450 2.463904 2.712997 0.4339729 0.1050186 0.1384057 0.18256667 0.1847333 0.1804000 -0.004333333 1.000000e+00 2.883477e-09 TRUE 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
ENSMUSG00000059851 E001 0.0000000       7 4743114 4743151 38 +      
ENSMUSG00000059851 E002 0.0000000       7 4743152 4743154 3 +      
ENSMUSG00000059851 E003 0.0000000       7 4743155 4743165 11 +      
ENSMUSG00000059851 E004 0.0000000       7 4743166 4743180 15 +      
ENSMUSG00000059851 E005 0.0000000       7 4743181 4743183 3 +      
ENSMUSG00000059851 E006 0.3276328 0.0280203376 0.8997327347   7 4743184 4743192 9 + 0.114 0.133 0.254
ENSMUSG00000059851 E007 10.5254794 0.0097912140 0.2682126810 0.81729193 7 4743193 4743238 46 + 1.002 1.121 0.435
ENSMUSG00000059851 E008 113.2392202 0.0002262231 0.3332058104 0.86560901 7 4743239 4743719 481 + 2.069 2.040 -0.100
ENSMUSG00000059851 E009 38.1397906 0.0041731504 0.0626655707 0.54534289 7 4743720 4743817 98 + 1.641 1.523 -0.403
ENSMUSG00000059851 E010 150.1520463 0.0002435721 0.0711280240 0.57385011 7 4743818 4744607 790 + 2.199 2.151 -0.163
ENSMUSG00000059851 E011 11.5000866 0.0295008336 0.4196043700 0.90263551 7 4744608 4744633 26 + 1.135 1.043 -0.333
ENSMUSG00000059851 E012 31.5685300 0.0056305017 0.9870855434 1.00000000 7 4744634 4744778 145 + 1.510 1.513 0.013
ENSMUSG00000059851 E013 24.4942902 0.0013903340 0.6385776126 0.95668705 7 4744779 4744848 70 + 1.389 1.423 0.118
ENSMUSG00000059851 E014 57.6256614 0.0006514879 0.7419747991 0.97290014 7 4744849 4744980 132 + 1.759 1.775 0.056
ENSMUSG00000059851 E015 2.9572505 0.0066785725 0.4100435969 0.89590796 7 4744981 4745120 140 + 0.533 0.662 0.576
ENSMUSG00000059851 E016 80.8197215 0.0063931671 0.4042620176 0.89278027 7 4745121 4745286 166 + 1.890 1.935 0.153
ENSMUSG00000059851 E017 11.3747325 0.0189739834 0.3690911505 0.87560906 7 4745287 4745322 36 + 1.136 1.030 -0.384
ENSMUSG00000059851 E018 17.9199434 0.0011218231 0.3613732127 0.87535004 7 4745323 4745452 130 + 1.307 1.235 -0.254
ENSMUSG00000059851 E019 12.3363495 0.0377603493 0.5319513470 0.93619354 7 4745453 4745489 37 + 1.154 1.084 -0.254
ENSMUSG00000059851 E020 27.8060217 0.0006988342 0.1558697184 0.72503983 7 4745490 4745617 128 + 1.497 1.405 -0.316
ENSMUSG00000059851 E021 37.6776861 0.0005711701 0.3979201116 0.88994788 7 4745618 4745655 38 + 1.563 1.612 0.166
ENSMUSG00000059851 E022 34.0437367 0.0005764150 0.8298525652 0.98548395 7 4745656 4745727 72 + 1.548 1.537 -0.039
ENSMUSG00000059851 E023 1.7996310 0.0111642953 0.9871406667 1.00000000 7 4745728 4745742 15 + 0.448 0.447 -0.009
ENSMUSG00000059851 E024 8.6927954 0.0055167987 0.1253114505 0.67739988 7 4745743 4745945 203 + 0.899 1.071 0.638
ENSMUSG00000059851 E025 6.0920909 0.0033022407 0.1842483812 0.76092924 7 4745946 4745949 4 + 0.765 0.932 0.647
ENSMUSG00000059851 E026 36.0317390 0.0081789402 0.9138856399 0.99729780 7 4745950 4746109 160 + 1.570 1.563 -0.022
ENSMUSG00000059851 E027 17.5833579 0.0011074748 0.6838800072 0.96291900 7 4746246 4746265 20 + 1.252 1.286 0.119
ENSMUSG00000059851 E028 17.1213317 0.0012978125 0.3853351249 0.88524161 7 4746266 4746604 339 + 1.222 1.294 0.254
ENSMUSG00000059851 E029 16.0941177 0.0012707076 0.1482429526 0.71571101 7 4748801 4748806 6 + 1.172 1.294 0.431
ENSMUSG00000059851 E030 34.5623765 0.0006166118 0.7733058170 0.97808677 7 4748807 4748937 131 + 1.541 1.559 0.062
ENSMUSG00000059851 E031 3.1332044 0.0056722889 0.4432011172 0.91335964 7 4748938 4749075 138 + 0.664 0.546 -0.523
ENSMUSG00000059851 E032 66.1754545 0.0003134459 0.7895765998 0.98020403 7 4749076 4749260 185 + 1.830 1.820 -0.034
ENSMUSG00000059851 E033 1.3181663 0.0119375603 0.0008386926 0.04192746 7 4749341 4749375 35 + 0.000 0.588 11.517
ENSMUSG00000059851 E034 267.3744902 0.0002954138 0.1837553120 0.76082247 7 4749376 4750513 1138 + 2.414 2.442 0.093

Help

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