ENSMUSG00000027800

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
ENSMUST00000029376 ENSMUSG00000027800 Control shVgll3 Tm4sf1 protein_coding protein_coding 22.14752 29.08272 15.21231 2.274535 0.4525471 -0.9344703 8.855457 9.988563 7.722351 1.5848766 0.53934443 -0.3708137 0.4267333 0.3441333 0.5093333 0.16520000 0.61607836 0.04488935 FALSE TRUE
ENSMUST00000171384 ENSMUSG00000027800 Control shVgll3 Tm4sf1 protein_coding protein_coding 22.14752 29.08272 15.21231 2.274535 0.4525471 -0.9344703 2.500499 3.086021 1.914978 0.1957334 0.08050375 -0.6855733 0.1169000 0.1078667 0.1259333 0.01806667 0.97066567 0.04488935 FALSE TRUE
ENSMUST00000196506 ENSMUSG00000027800 Control shVgll3 Tm4sf1 protein_coding protein_coding 22.14752 29.08272 15.21231 2.274535 0.4525471 -0.9344703 4.162216 5.734740 2.589692 1.3066068 0.06584483 -1.1439010 0.1824333 0.1942333 0.1706333 -0.02360000 0.97638927 0.04488935 FALSE FALSE
ENSMUST00000198030 ENSMUSG00000027800 Control shVgll3 Tm4sf1 protein_coding protein_coding_CDS_not_defined 22.14752 29.08272 15.21231 2.274535 0.4525471 -0.9344703 6.338946 9.956295 2.721598 0.8391278 0.56713024 -1.8673123 0.2600833 0.3429000 0.1772667 -0.16563333 0.04488935 0.04488935 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
ENSMUSG00000027800 E001 61.5060792 0.0062326493 0.246242714 0.80442163 3 57193032 57194904 1873 - 1.739 1.810 0.238
ENSMUSG00000027800 E002 52.2612564 0.0006224250 0.647040141 0.95668705 3 57194905 57194936 32 - 1.698 1.725 0.093
ENSMUSG00000027800 E003 179.9328343 0.0001632480 0.583325173 0.94855494 3 57194937 57195191 255 - 2.251 2.242 -0.027
ENSMUSG00000027800 E004 127.5570951 0.0002483986 0.656361292 0.95689362 3 57197110 57197290 181 - 2.085 2.104 0.062
ENSMUSG00000027800 E005 27.8130023 0.0006704930 0.664309765 0.95821155 3 57200201 57200203 3 - 1.462 1.439 -0.081
ENSMUSG00000027800 E006 49.0378047 0.0015358145 0.712703248 0.96812431 3 57200204 57200239 36 - 1.672 1.697 0.086
ENSMUSG00000027800 E007 84.2658563 0.0111580194 0.165147838 0.73877606 3 57200240 57200346 107 - 1.860 1.952 0.308
ENSMUSG00000027800 E008 100.0365587 0.0002601474 0.592526655 0.95165770 3 57200434 57200523 90 - 1.978 2.001 0.080
ENSMUSG00000027800 E009 2.8035184 0.4004305319 0.712450156 0.96812431 3 57200524 57201124 601 - 0.595 0.555 -0.180
ENSMUSG00000027800 E010 1.9696291 0.0451314484 0.445023128 0.91335964 3 57201879 57202032 154 - 0.545 0.408 -0.686
ENSMUSG00000027800 E011 174.2787995 0.0001886770 0.002879537 0.09939928 3 57202033 57202503 471 - 2.272 2.204 -0.229
ENSMUSG00000027800 E012 3.6009419 0.1327908396 0.552894359 0.93833172 3 57202504 57202546 43 - 0.592 0.689 0.418
ENSMUSG00000027800 E013 0.4886299 0.0226539209 0.879248136   3 57208943 57209057 115 - 0.152 0.181 0.312
ENSMUSG00000027800 E014 1.1534557 0.0125471292 0.313148783 0.85211665 3 57209149 57209409 261 - 0.427 0.250 -1.103

Help

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