ENSMUSG00000000420

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
ENSMUST00000170243 ENSMUSG00000000420 Control shVgll3 Galnt1 protein_coding protein_coding 25.33556 26.01096 24.66017 1.07287 0.8528162 -0.07690637 2.2706723 1.720761 2.820584 0.1823406 0.4851271 0.7096931 0.09073333 0.06606667 0.11540000 0.04933333 6.174405e-01 5.128203e-13 FALSE  
ENSMUST00000178605 ENSMUSG00000000420 Control shVgll3 Galnt1 protein_coding protein_coding 25.33556 26.01096 24.66017 1.07287 0.8528162 -0.07690637 17.9090388 19.142150 16.675927 0.6749612 1.3607813 -0.1988745 0.70543333 0.73633333 0.67453333 -0.06180000 9.229067e-01 5.128203e-13 FALSE  
MSTRG.10834.4 ENSMUSG00000000420 Control shVgll3 Galnt1 protein_coding   25.33556 26.01096 24.66017 1.07287 0.8528162 -0.07690637 0.8059153 0.000000 1.611831 0.0000000 0.2803334 7.3414793 0.03261667 0.00000000 0.06523333 0.06523333 5.128203e-13 5.128203e-13 FALSE  
MSTRG.10834.6 ENSMUSG00000000420 Control shVgll3 Galnt1 protein_coding   25.33556 26.01096 24.66017 1.07287 0.8528162 -0.07690637 2.4726960 3.065782 1.879610 0.0100500 0.5172721 -0.7028648 0.09765000 0.11830000 0.07700000 -0.04130000 8.617138e-01 5.128203e-13 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
ENSMUSG00000000420 E001 1.632619 0.0667268807 9.593720e-01 1.000000000 18 24338287 24338400 114 + 0.429 0.415 -0.077
ENSMUSG00000000420 E002 4.116399 0.0042698253 7.407729e-01 0.972900143 18 24338401 24338575 175 + 0.732 0.685 -0.194
ENSMUSG00000000420 E003 2.468824 0.0118475350 8.842872e-01 0.993166916 18 24338824 24339015 192 + 0.527 0.552 0.114
ENSMUSG00000000420 E004 4.936047 0.0036441518 9.680653e-05 0.007549618 18 24339016 24339041 26 + 0.976 0.415 -2.401
ENSMUSG00000000420 E005 20.575698 0.0009994685 1.685909e-04 0.011809437 18 24339042 24339137 96 + 1.458 1.169 -1.010
ENSMUSG00000000420 E006 18.715180 0.0080584040 6.755880e-01 0.961642565 18 24339138 24339408 271 + 1.314 1.277 -0.128
ENSMUSG00000000420 E007 0.000000       18 24365654 24365655 2 +      
ENSMUSG00000000420 E008 16.254269 0.0090242344 5.792468e-01 0.947373653 18 24365656 24365710 55 + 1.210 1.262 0.185
ENSMUSG00000000420 E009 36.020492 0.0005734991 5.497705e-01 0.937070285 18 24371299 24371379 81 + 1.586 1.551 -0.118
ENSMUSG00000000420 E010 98.365585 0.0024022573 6.549600e-01 0.956687053 18 24371380 24371542 163 + 2.006 1.987 -0.064
ENSMUSG00000000420 E011 41.505976 0.0005490085 1.494784e-01 0.716345253 18 24379107 24379142 36 + 1.586 1.664 0.267
ENSMUSG00000000420 E012 117.614522 0.0028355434 6.195462e-01 0.955141978 18 24379143 24379281 139 + 2.063 2.084 0.071
ENSMUSG00000000420 E013 154.886367 0.0001866638 1.196395e-01 0.667067574 18 24387575 24387741 167 + 2.170 2.213 0.146
ENSMUSG00000000420 E014 151.049424 0.0001693222 1.802663e-02 0.304050715 18 24397382 24397589 208 + 2.146 2.213 0.224
ENSMUSG00000000420 E015 24.975718 0.0121845863 6.722382e-01 0.961114969 18 24400585 24400587 3 + 1.432 1.398 -0.118
ENSMUSG00000000420 E016 131.892302 0.0004545500 8.013750e-01 0.981651838 18 24400588 24400755 168 + 2.119 2.127 0.026
ENSMUSG00000000420 E017 126.498409 0.0002481485 8.818341e-01 0.992275470 18 24402505 24402622 118 + 2.103 2.108 0.015
ENSMUSG00000000420 E018 155.939868 0.0001960416 8.994627e-01 0.995632253 18 24404643 24404823 181 + 2.197 2.194 -0.012
ENSMUSG00000000420 E019 98.600201 0.0002396309 5.322578e-01 0.936193537 18 24405719 24405858 140 + 2.009 1.987 -0.074
ENSMUSG00000000420 E020 54.615857 0.0006634904 4.757303e-02 0.481050166 18 24413001 24413051 51 + 1.791 1.696 -0.322
ENSMUSG00000000420 E021 76.652613 0.0012636957 1.627722e-01 0.735461433 18 24413052 24413089 38 + 1.920 1.860 -0.202
ENSMUSG00000000420 E022 58.201500 0.0034551474 6.757114e-01 0.961642565 18 24413090 24413099 10 + 1.784 1.761 -0.079
ENSMUSG00000000420 E023 234.373473 0.0001427911 1.539226e-01 0.722546601 18 24415159 24415293 135 + 2.388 2.356 -0.107
ENSMUSG00000000420 E024 3.793297 0.0047978384 1.154057e-01 0.661447964 18 24415294 24415595 302 + 0.783 0.552 -0.985
ENSMUSG00000000420 E025 10.031621 0.0018684844 3.541353e-01 0.875176952 18 24415596 24416360 765 + 0.991 1.087 0.350
ENSMUSG00000000420 E026 792.957796 0.0001506926 2.376618e-01 0.804421628 18 24417767 24419999 2233 + 2.893 2.906 0.044

Help

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