ENSMUSG00000041193

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
ENSMUST00000102512 ENSMUSG00000041193 Control shVgll3 Pla2g5 protein_coding protein_coding 3.006307 4.310429 1.702185 0.9202254 0.4388912 -1.335336 0.8276501 0.8583679 0.7969323 0.1182670 0.0622111 -0.1058587 0.3923333 0.2105667 0.5741 0.3635333 8.933122e-01 1.206351e-19 FALSE TRUE
ENSMUST00000127183 ENSMUSG00000041193 Control shVgll3 Pla2g5 protein_coding protein_coding_CDS_not_defined 3.006307 4.310429 1.702185 0.9202254 0.4388912 -1.335336 0.2843693 0.0000000 0.5687386 0.0000000 0.5687386 5.8548400 0.1165500 0.0000000 0.2331 0.2331000 9.706657e-01 1.206351e-19   FALSE
ENSMUST00000136393 ENSMUSG00000041193 Control shVgll3 Pla2g5 protein_coding protein_coding_CDS_not_defined 3.006307 4.310429 1.702185 0.9202254 0.4388912 -1.335336 0.1682569 0.0000000 0.3365137 0.0000000 0.3365137 5.1148407 0.0964000 0.0000000 0.1928 0.1928000 9.706657e-01 1.206351e-19   FALSE
ENSMUST00000154844 ENSMUSG00000041193 Control shVgll3 Pla2g5 protein_coding protein_coding_CDS_not_defined 3.006307 4.310429 1.702185 0.9202254 0.4388912 -1.335336 1.7260308 3.4520616 0.0000000 0.8353994 0.0000000 -8.4354876 0.3947167 0.7894333 0.0000 -0.7894333 1.206351e-19 1.206351e-19   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
ENSMUSG00000041193 E001 0.0000000       4 138526555 138526559 5 -      
ENSMUSG00000041193 E002 24.3745752 0.001881212 0.38411363 0.88463649 4 138526560 138527663 1104 - 1.415 1.393 -0.077
ENSMUSG00000041193 E003 6.0655076 0.026288300 0.32315957 0.85860186 4 138527664 138527880 217 - 0.768 0.921 0.591
ENSMUSG00000041193 E004 4.7492209 0.007940687 0.52228826 0.93360676 4 138527881 138527972 92 - 0.792 0.727 -0.260
ENSMUSG00000041193 E005 3.6072342 0.005666765 0.35265333 0.87517695 4 138528663 138528769 107 - 0.718 0.602 -0.490
ENSMUSG00000041193 E006 1.6414126 0.011028681 0.55200173 0.93781564 4 138531818 138531875 58 - 0.361 0.477 0.625
ENSMUSG00000041193 E007 1.1439894 0.015479453 0.68479294 0.96291900 4 138531876 138531889 14 - 0.361 0.301 -0.375
ENSMUSG00000041193 E008 2.2791407 0.013628426 0.95280327 1.00000000 4 138531890 138531962 73 - 0.515 0.523 0.040
ENSMUSG00000041193 E009 0.0000000       4 138531963 138532004 42 -      
ENSMUSG00000041193 E010 0.0000000       4 138533393 138533495 103 -      
ENSMUSG00000041193 E011 1.4622350 0.015949508 0.77792943 0.97903220 4 138533496 138533545 50 - 0.361 0.426 0.362
ENSMUSG00000041193 E012 1.4840696 0.030160058 0.00106489 0.05002844 4 138536899 138537134 236 - 0.000 0.602 12.534
ENSMUSG00000041193 E013 0.0000000       4 138539398 138539522 125 -      
ENSMUSG00000041193 E014 0.1667494 0.035623544 0.47927690   4 138546307 138546310 4 - 0.122 0.000 -10.375
ENSMUSG00000041193 E015 2.8028121 0.008268546 0.76326486 0.97799068 4 138546311 138546426 116 - 0.593 0.565 -0.130
ENSMUSG00000041193 E016 1.1591582 0.199047898 0.69724166 0.96467568 4 138546427 138546566 140 - 0.296 0.368 0.453
ENSMUSG00000041193 E017 0.0000000       4 138546567 138546568 2 -      
ENSMUSG00000041193 E018 0.0000000       4 138586376 138586458 83 -      
ENSMUSG00000041193 E019 0.0000000       4 138590481 138590793 313 -      

Help

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