ENSMUSG00000031365

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
ENSMUST00000033731 ENSMUSG00000031365 Control shVgll3 Zfp275 protein_coding protein_coding 5.218305 5.183325 5.253285 0.1797175 0.1395346 0.01930515 1.9721185 1.767219 2.1770175 0.15808734 1.0995530 0.2993429 0.38446667 0.3434333 0.42550000 0.08206667 1.00000000 0.02377837 FALSE TRUE
ENSMUST00000114499 ENSMUSG00000031365 Control shVgll3 Zfp275 protein_coding protein_coding 5.218305 5.183325 5.253285 0.1797175 0.1395346 0.01930515 1.1477085 2.022690 0.2727271 0.30165397 0.1464027 -2.8459080 0.21975000 0.3875667 0.05193333 -0.33563333 0.02377837 0.02377837 FALSE TRUE
MSTRG.24897.3 ENSMUSG00000031365 Control shVgll3 Zfp275 protein_coding   5.218305 5.183325 5.253285 0.1797175 0.1395346 0.01930515 0.5261177 0.000000 1.0522355 0.00000000 1.0522355 6.7309598 0.09511667 0.0000000 0.19023333 0.19023333 0.97066567 0.02377837 FALSE TRUE
MSTRG.24897.4 ENSMUSG00000031365 Control shVgll3 Zfp275 protein_coding   5.218305 5.183325 5.253285 0.1797175 0.1395346 0.01930515 1.5723602 1.393415 1.7513052 0.05390955 0.1530497 0.3277029 0.30065000 0.2689667 0.33233333 0.06336667 0.92152710 0.02377837 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
ENSMUSG00000031365 E001 3.443976 0.1658251629 0.7811137471 0.97903220 X 72386227 72386265 39 + 0.685 0.606 -0.340
ENSMUSG00000031365 E002 8.064002 0.0379017987 0.1730022695 0.75428375 X 72386266 72386357 92 + 1.040 0.849 -0.714
ENSMUSG00000031365 E003 24.873262 0.0007801332 0.0554816958 0.51660036 X 72387289 72388073 785 + 1.471 1.340 -0.453
ENSMUSG00000031365 E004 14.317424 0.0013092140 0.1091829752 0.64991094 X 72388074 72388442 369 + 1.248 1.107 -0.503
ENSMUSG00000031365 E005 11.166453 0.0018008349 0.1338358293 0.69183011 X 72388443 72388518 76 + 1.151 1.004 -0.534
ENSMUSG00000031365 E006 13.671451 0.0013700018 0.0991387049 0.63564500 X 72394875 72394966 92 + 1.232 1.084 -0.531
ENSMUSG00000031365 E007 19.908629 0.0010384236 0.5722888107 0.94460955 X 72395415 72395529 115 + 1.340 1.298 -0.146
ENSMUSG00000031365 E008 23.652829 0.0114557461 0.2990720380 0.84044841 X 72396442 72396543 102 + 1.432 1.347 -0.295
ENSMUSG00000031365 E009 19.761063 0.0009994540 0.7659573407 0.97799068 X 72396827 72396927 101 + 1.327 1.306 -0.076
ENSMUSG00000031365 E010 32.069987 0.0006176494 0.7000450920 0.96500021 X 72396928 72397383 456 + 1.507 1.532 0.083
ENSMUSG00000031365 E011 768.454986 0.0002162263 0.0008912062 0.04356133 X 72397384 72402686 5303 + 2.876 2.896 0.065

Help

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