ENSMUSG00000031283

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
ENSMUST00000063029 ENSMUSG00000031283 Control shVgll3 Chrdl1 protein_coding protein_coding 53.81318 51.16779 56.45856 0.6834647 2.665913 0.1419299 7.258588 8.371204 6.145973 0.4261339 0.4836406 -0.4451705 0.1361000 0.16363333 0.1085667 -0.05506667 0.01832852 0.01832852 FALSE  
ENSMUST00000074660 ENSMUSG00000031283 Control shVgll3 Chrdl1 protein_coding protein_coding 53.81318 51.16779 56.45856 0.6834647 2.665913 0.1419299 25.267724 23.323617 27.211830 0.4199441 2.8424185 0.2223541 0.4679333 0.45613333 0.4797333 0.02360000 0.97066567 0.01832852 FALSE  
MSTRG.25309.4 ENSMUSG00000031283 Control shVgll3 Chrdl1 protein_coding   53.81318 51.16779 56.45856 0.6834647 2.665913 0.1419299 7.429580 4.976267 9.882893 2.6115504 1.6239609 0.9884321 0.1353500 0.09626667 0.1744333 0.07816667 0.97066567 0.01832852 FALSE  
MSTRG.25309.7 ENSMUSG00000031283 Control shVgll3 Chrdl1 protein_coding   53.81318 51.16779 56.45856 0.6834647 2.665913 0.1419299 10.263515 11.709339 8.817690 1.6372394 0.8277393 -0.4087832 0.1939667 0.22963333 0.1583000 -0.07133333 0.82450379 0.01832852 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
ENSMUSG00000031283 E001 1.975411 8.939366e-03 1.791397e-01 7.581680e-01 X 142068670 142068679 10 - 0.350 0.580 1.181
ENSMUSG00000031283 E002 424.151875 2.036681e-03 2.512810e-10 7.735486e-08 X 142068680 142070992 2313 - 2.538 2.712 0.580
ENSMUSG00000031283 E003 23.694090 7.667772e-04 3.264406e-06 4.062449e-04 X 142074091 142074180 90 - 1.199 1.540 1.183
ENSMUSG00000031283 E004 35.364461 5.302928e-04 8.908969e-04 4.356133e-02 X 142077170 142077337 168 - 1.455 1.655 0.684
ENSMUSG00000031283 E005 136.355262 2.686590e-03 2.875730e-01 8.343155e-01 X 142078090 142080169 2080 - 2.115 2.160 0.151
ENSMUSG00000031283 E006 2.958779 6.180283e-03 4.808792e-01 9.233856e-01 X 142080170 142080171 2 - 0.540 0.654 0.504
ENSMUSG00000031283 E007 32.548529 5.701191e-04 3.080628e-01 8.475347e-01 X 142080172 142080319 148 - 1.551 1.493 -0.199
ENSMUSG00000031283 E008 201.400905 1.193379e-03 1.582069e-02 2.821196e-01 X 142080320 142080502 183 - 2.335 2.268 -0.224
ENSMUSG00000031283 E009 1491.802996 9.310803e-05 2.058033e-02 3.253361e-01 X 142080503 142081703 1201 - 3.181 3.165 -0.053
ENSMUSG00000031283 E010 1860.226815 1.168808e-04 1.042376e-03 4.971953e-02 X 142081704 142082864 1161 - 3.279 3.257 -0.071
ENSMUSG00000031283 E011 368.528750 9.712377e-05 7.941962e-01 9.806319e-01 X 142082865 142083059 195 - 2.567 2.567 -0.001
ENSMUSG00000031283 E012 6.082873 2.992637e-03 6.437467e-01 9.566871e-01 X 142086339 142086344 6 - 0.874 0.820 -0.210
ENSMUSG00000031283 E013 384.237234 1.052029e-04 3.881442e-01 8.861300e-01 X 142086345 142086513 169 - 2.590 2.579 -0.037
ENSMUSG00000031283 E014 173.435964 1.542205e-04 6.939169e-01 9.639881e-01 X 142094078 142094145 68 - 2.234 2.249 0.051
ENSMUSG00000031283 E015 115.680588 1.992584e-04 7.562640e-01 9.761874e-01 X 142108985 142109033 49 - 2.069 2.063 -0.019
ENSMUSG00000031283 E016 158.282072 2.548041e-03 8.270709e-01 9.854840e-01 X 142109034 142109078 45 - 2.203 2.200 -0.012
ENSMUSG00000031283 E017 319.987221 1.703091e-03 4.215694e-01 9.033740e-01 X 142110918 142111060 143 - 2.493 2.520 0.091
ENSMUSG00000031283 E018 22.397977 8.367776e-04 4.907508e-01 9.262078e-01 X 142111061 142111063 3 - 1.389 1.343 -0.159
ENSMUSG00000031283 E019 274.986907 1.131561e-03 5.867320e-01 9.511275e-01 X 142148893 142148986 94 - 2.431 2.450 0.064
ENSMUSG00000031283 E020 197.293643 2.362612e-03 2.927996e-01 8.378109e-01 X 142151348 142151460 113 - 2.278 2.317 0.131
ENSMUSG00000031283 E021 178.559984 2.623471e-04 8.629693e-01 9.889212e-01 X 142173003 142173156 154 - 2.249 2.258 0.031
ENSMUSG00000031283 E022 142.795521 1.744689e-04 8.144733e-02 5.996640e-01 X 142176810 142177258 449 - 2.178 2.131 -0.158

Help

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