ENSMUSG00000042167

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
ENSMUST00000048702 ENSMUSG00000042167 Control shVgll3 Tent2 protein_coding protein_coding 17.96867 19.40068 16.53665 0.8799428 0.5940359 -0.2303114 1.522726 3.045452 0.0000000 1.2110216 0.0000000 -8.2552421 0.0801000 0.1602000 0.0000000 -0.16020000 6.823843e-06 6.823843e-06 FALSE TRUE
ENSMUST00000223975 ENSMUSG00000042167 Control shVgll3 Tent2 protein_coding retained_intron 17.96867 19.40068 16.53665 0.8799428 0.5940359 -0.2303114 3.966619 4.372616 3.5606225 0.7797900 0.7914487 -0.2956165 0.2176667 0.2228333 0.2125000 -0.01033333 1.000000e+00 6.823843e-06   FALSE
ENSMUST00000225868 ENSMUSG00000042167 Control shVgll3 Tent2 protein_coding protein_coding 17.96867 19.40068 16.53665 0.8799428 0.5940359 -0.2303114 3.079686 2.573136 3.5862357 1.3254774 0.2478744 0.4773640 0.1732333 0.1300667 0.2164000 0.08633333 9.706657e-01 6.823843e-06 FALSE TRUE
ENSMUST00000226081 ENSMUSG00000042167 Control shVgll3 Tent2 protein_coding protein_coding 17.96867 19.40068 16.53665 0.8799428 0.5940359 -0.2303114 1.100749 1.212326 0.9891726 0.2998751 0.1962344 -0.2908233 0.0619000 0.0630000 0.0608000 -0.00220000 1.000000e+00 6.823843e-06 FALSE FALSE
MSTRG.6578.4 ENSMUSG00000042167 Control shVgll3 Tent2 protein_coding   17.96867 19.40068 16.53665 0.8799428 0.5940359 -0.2303114 7.440864 6.954657 7.9270711 0.1460845 0.1398355 0.1885545 0.4200833 0.3592333 0.4809333 0.12170000 6.807308e-02 6.823843e-06 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
ENSMUSG00000042167 E001 0.4980765 0.2295324629 0.5122477398   13 93282725 93282789 65 - 0.239 0.113 -1.311
ENSMUSG00000042167 E002 0.1660866 0.0347219410 0.4004469506   13 93282790 93282790 1 - 0.136 0.000 -9.950
ENSMUSG00000042167 E003 83.6048499 0.0002578906 0.0007242998 0.03755983 13 93282791 93284125 1335 - 1.853 1.975 0.409
ENSMUSG00000042167 E004 7.5881816 0.0031353281 0.0627018449 0.54534289 13 93284126 93284173 48 - 1.037 0.821 -0.817
ENSMUSG00000042167 E005 16.6234127 0.0011370404 0.2514508033 0.80641511 13 93285389 93285468 80 - 1.294 1.198 -0.339
ENSMUSG00000042167 E006 49.5239258 0.0004123212 0.8301901321 0.98548395 13 93287192 93287283 92 - 1.697 1.705 0.027
ENSMUSG00000042167 E007 60.1338433 0.0015592546 0.3864909295 0.88546179 13 93291433 93291569 137 - 1.762 1.800 0.128
ENSMUSG00000042167 E008 7.5490928 0.0036744070 0.6406057836 0.95668705 13 93291570 93291714 145 - 0.901 0.953 0.197
ENSMUSG00000042167 E009 8.7406210 0.0055507836 0.4679602874 0.91939825 13 93294332 93294721 390 - 0.939 1.019 0.297
ENSMUSG00000042167 E010 24.0694980 0.0008783545 0.5471613412 0.93707028 13 93296153 93296196 44 - 1.420 1.376 -0.152
ENSMUSG00000042167 E011 3.4662461 0.2254887078 0.1386568047 0.70100332 13 93304434 93304562 129 - 0.453 0.758 1.366
ENSMUSG00000042167 E012 4.1242875 0.0044110075 0.2675293702 0.81669065 13 93304899 93304975 77 - 0.787 0.628 -0.658
ENSMUSG00000042167 E013 22.6874643 0.0013381907 0.9729304674 1.00000000 13 93308331 93308400 70 - 1.375 1.370 -0.016
ENSMUSG00000042167 E014 27.7817468 0.0007296176 0.6746401332 0.96164256 13 93311148 93311214 67 - 1.443 1.468 0.085
ENSMUSG00000042167 E015 15.1285895 0.0013020160 0.7085037105 0.96612147 13 93311215 93311226 12 - 1.224 1.190 -0.122
ENSMUSG00000042167 E016 26.4808857 0.0007126646 0.6450075081 0.95668705 13 93312027 93312118 92 - 1.455 1.422 -0.113
ENSMUSG00000042167 E017 10.2114976 0.0018724781 0.5734768449 0.94499678 13 93312206 93312320 115 - 1.079 1.019 -0.217
ENSMUSG00000042167 E018 0.6548799 0.0263247650 0.0230642550   13 93312892 93312971 80 - 0.392 0.000 -11.901
ENSMUSG00000042167 E019 8.5667968 0.0022320362 0.1168607593 0.66203098 13 93313603 93313766 164 - 1.065 0.892 -0.645
ENSMUSG00000042167 E020 0.9886852 0.0399227093 0.0603666110 0.53218643 13 93313767 93313770 4 - 0.452 0.112 -2.632
ENSMUSG00000042167 E021 61.2583513 0.0149208230 0.8873424410 0.99452963 13 93320587 93320824 238 - 1.792 1.792 0.000
ENSMUSG00000042167 E022 32.0804201 0.0007164025 0.6268272322 0.95514198 13 93322316 93322405 90 - 1.502 1.529 0.092
ENSMUSG00000042167 E023 49.6556756 0.0042340258 0.0032704821 0.10899743 13 93322811 93322984 174 - 1.786 1.621 -0.559
ENSMUSG00000042167 E024 1.4867713 0.0110576549 0.5238885608 0.93407230 13 93328301 93328601 301 - 0.452 0.339 -0.632
ENSMUSG00000042167 E025 60.8690803 0.0003444559 0.5354061276 0.93662476 13 93328602 93328912 311 - 1.775 1.800 0.082

Help

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