ENSMUSG00000017291

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
ENSMUST00000017435 ENSMUSG00000017291 Control shVgll3 Taok1 protein_coding protein_coding 5.251968 4.844165 5.659771 0.6201762 0.5596693 0.2240673 1.8588752 2.5305234 1.187227 0.3973063 0.3294938 -1.0854291 0.3618667 0.51890000 0.2048333 -0.31406667 0.0006645966 0.0006645966 FALSE TRUE
ENSMUST00000058496 ENSMUSG00000017291 Control shVgll3 Taok1 protein_coding protein_coding 5.251968 4.844165 5.659771 0.6201762 0.5596693 0.2240673 0.7423713 0.0000000 1.484743 0.0000000 1.0923212 7.2237532 0.1286833 0.00000000 0.2573667 0.25736667 0.6781786442 0.0006645966 FALSE TRUE
MSTRG.3882.1 ENSMUSG00000017291 Control shVgll3 Taok1 protein_coding   5.251968 4.844165 5.659771 0.6201762 0.5596693 0.2240673 1.7865496 1.8924099 1.680689 0.1993010 0.9279537 -0.1702166 0.3649500 0.41186667 0.3180333 -0.09383333 0.9706656688 0.0006645966 FALSE TRUE
MSTRG.3882.4 ENSMUSG00000017291 Control shVgll3 Taok1 protein_coding   5.251968 4.844165 5.659771 0.6201762 0.5596693 0.2240673 0.8641724 0.4212322 1.307113 0.4212322 0.4503134 1.6108419 0.1445000 0.06923333 0.2197667 0.15053333 0.6424850794 0.0006645966   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
ENSMUSG00000017291 E001 1093.162782 0.0002272044 5.274845e-03 0.1490462347 11 77419988 77429154 9167 - 3.030 3.048 0.062
ENSMUSG00000017291 E002 16.469345 0.0123656130 5.990959e-01 0.9524032220 11 77430880 77431062 183 - 1.265 1.216 -0.174
ENSMUSG00000017291 E003 28.486883 0.0006868257 9.946821e-01 1.0000000000 11 77432451 77432663 213 - 1.468 1.470 0.007
ENSMUSG00000017291 E004 35.529641 0.0005452789 9.907379e-01 1.0000000000 11 77436115 77436354 240 - 1.562 1.563 0.004
ENSMUSG00000017291 E005 32.764420 0.0011948306 5.139208e-01 0.9314928898 11 77440098 77440301 204 - 1.547 1.508 -0.132
ENSMUSG00000017291 E006 22.227069 0.0009281785 5.764993e-01 0.9467287493 11 77441698 77441826 129 - 1.384 1.345 -0.135
ENSMUSG00000017291 E007 32.768377 0.0005861834 8.414102e-02 0.6060847568 11 77444499 77444735 237 - 1.473 1.579 0.363
ENSMUSG00000017291 E008 22.413154 0.0015654263 1.691151e-01 0.7479065513 11 77446390 77446524 135 - 1.316 1.418 0.355
ENSMUSG00000017291 E009 26.337836 0.0007321957 5.138341e-02 0.4944225384 11 77450568 77450771 204 - 1.367 1.499 0.457
ENSMUSG00000017291 E010 22.737519 0.0112245662 6.957455e-01 0.9646256308 11 77451080 77451247 168 - 1.390 1.358 -0.110
ENSMUSG00000017291 E011 16.776354 0.0140796066 4.991505e-01 0.9277261731 11 77454490 77454571 82 - 1.280 1.216 -0.227
ENSMUSG00000017291 E012 19.725212 0.0009976792 8.648982e-01 0.9889212314 11 77456572 77456665 94 - 1.322 1.311 -0.039
ENSMUSG00000017291 E013 11.694999 0.0019492689 6.188699e-01 0.9551419776 11 77462433 77462524 92 - 1.078 1.128 0.179
ENSMUSG00000017291 E014 13.481826 0.0014912619 8.722980e-01 0.9900206142 11 77464522 77464635 114 - 1.153 1.169 0.057
ENSMUSG00000017291 E015 17.918663 0.0011334276 4.543464e-02 0.4747216078 11 77466399 77466495 97 - 1.348 1.188 -0.561
ENSMUSG00000017291 E016 8.575705 0.0023751814 3.773840e-02 0.4394834487 11 77468149 77468194 46 - 1.078 0.848 -0.860
ENSMUSG00000017291 E017 12.335019 0.0015907843 6.479433e-03 0.1706263400 11 77469552 77469653 102 - 1.234 0.973 -0.943
ENSMUSG00000017291 E018 7.716922 0.0295309008 4.649172e-01 0.9186439698 11 77470600 77470671 72 - 0.987 0.887 -0.375
ENSMUSG00000017291 E019 22.047377 0.0008354616 2.433001e-01 0.8044216279 11 77476099 77476320 222 - 1.401 1.318 -0.289
ENSMUSG00000017291 E020 0.000000       11 77476321 77476332 12 -      
ENSMUSG00000017291 E021 4.126924 0.0972595955 7.728537e-01 0.9780867667 11 77492525 77492587 63 - 0.689 0.729 0.167
ENSMUSG00000017291 E022 1.483048 0.0114954495 1.628492e-02 0.2870718865 11 77496416 77496464 49 - 0.554 0.126 -2.943
ENSMUSG00000017291 E023 43.285178 0.0004243977 2.198853e-06 0.0002873747 11 77498034 77498659 626 - 1.752 1.499 -0.861

Help

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