ENSMUSG00000024014

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
ENSMUST00000024811 ENSMUSG00000024014 Control shVgll3 Pim1 protein_coding protein_coding 4.257959 3.301793 5.214124 0.2886078 0.2238989 0.6575768 3.5862174 2.5248468 4.6475880 0.33584031 0.35643500 0.8776845 0.82663333 0.7633333 0.88993333 0.12660000 0.941023408 0.005025645 FALSE TRUE
ENSMUST00000234270 ENSMUSG00000024014 Control shVgll3 Pim1 protein_coding protein_coding 4.257959 3.301793 5.214124 0.2886078 0.2238989 0.6575768 0.3193589 0.5326987 0.1060192 0.09800123 0.06064724 -2.2257883 0.09215000 0.1648667 0.01943333 -0.14543333 0.005025645 0.005025645   FALSE
ENSMUST00000234665 ENSMUSG00000024014 Control shVgll3 Pim1 protein_coding protein_coding 4.257959 3.301793 5.214124 0.2886078 0.2238989 0.6575768 0.2398102 0.1471941 0.3324263 0.14719414 0.22952163 1.1232461 0.05708333 0.0467000 0.06746667 0.02076667 0.970665669 0.005025645 FALSE 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
ENSMUSG00000024014 E001 39.4331536 0.0009417792 0.189978094 0.76589127 17 29709727 29710129 403 + 1.618 1.549 -0.234
ENSMUSG00000024014 E002 1.9719398 0.0115603264 0.360658767 0.87535004 17 29710130 29710199 70 + 0.518 0.357 -0.846
ENSMUSG00000024014 E003 0.0000000       17 29710279 29710298 20 +      
ENSMUSG00000024014 E004 0.0000000       17 29710299 29710405 107 +      
ENSMUSG00000024014 E005 0.0000000       17 29710494 29710544 51 +      
ENSMUSG00000024014 E006 12.7003209 0.0069304589 0.112346043 0.65646420 17 29710639 29711005 367 + 1.176 1.015 -0.583
ENSMUSG00000024014 E007 0.6599095 0.0221410719 0.614354379   17 29711170 29711189 20 + 0.179 0.267 0.740
ENSMUSG00000024014 E008 0.4842530 0.1932361366 0.925479236   17 29711190 29711343 154 + 0.178 0.154 -0.259
ENSMUSG00000024014 E009 0.4896490 0.0229799146 0.894979082   17 29711344 29711400 57 + 0.179 0.154 -0.261
ENSMUSG00000024014 E010 1.1547617 0.2766431770 0.699224956 0.96475394 17 29712011 29712108 98 + 0.357 0.268 -0.580
ENSMUSG00000024014 E011 2.7851344 0.0075548536 0.001239639 0.05731739 17 29712381 29712695 315 + 0.305 0.815 2.440
ENSMUSG00000024014 E012 25.5355751 0.0033034329 0.144079188 0.70906417 17 29712696 29712872 177 + 1.370 1.470 0.345
ENSMUSG00000024014 E013 118.2634251 0.0002348269 0.785472325 0.97919769 17 29713564 29715086 1523 + 2.060 2.067 0.023

Help

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