ENSMUSG00000002210

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
ENSMUST00000002280 ENSMUSG00000002210 Control shVgll3 Smg9 protein_coding protein_coding 8.192253 7.873753 8.510752 0.1502874 0.1624994 0.1120981 4.8679543 5.0695811 4.6663275 0.1921276 0.13547916 -0.1193336 0.59606667 0.64343333 0.5487000 -0.094733333 0.599476459 0.001797651 FALSE TRUE
ENSMUST00000139481 ENSMUSG00000002210 Control shVgll3 Smg9 protein_coding retained_intron 8.192253 7.873753 8.510752 0.1502874 0.1624994 0.1120981 0.4784678 0.7788550 0.1780807 0.1024457 0.01063753 -2.0684085 0.06018333 0.09946667 0.0209000 -0.078566667 0.001797651 0.001797651 FALSE TRUE
ENSMUST00000146381 ENSMUSG00000002210 Control shVgll3 Smg9 protein_coding retained_intron 8.192253 7.873753 8.510752 0.1502874 0.1624994 0.1120981 0.4444118 0.4224589 0.4663648 0.1439116 0.16782186 0.1395036 0.05371667 0.05313333 0.0543000 0.001166667 1.000000000 0.001797651 FALSE TRUE
ENSMUST00000146686 ENSMUSG00000002210 Control shVgll3 Smg9 protein_coding retained_intron 8.192253 7.873753 8.510752 0.1502874 0.1624994 0.1120981 1.1165983 0.9229199 1.3102767 0.1795573 0.32877473 0.5010152 0.13628333 0.11820000 0.1543667 0.036166667 0.970665669 0.001797651 FALSE TRUE
ENSMUST00000148288 ENSMUSG00000002210 Control shVgll3 Smg9 protein_coding retained_intron 8.192253 7.873753 8.510752 0.1502874 0.1624994 0.1120981 1.2848204 0.6799385 1.8897023 0.1371613 0.12150731 1.4612336 0.15373333 0.08573333 0.2217333 0.136000000 0.002859606 0.001797651 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
ENSMUSG00000002210 E001 6.744485 0.0108856401 0.4971624547 0.9272772 7 24099044 24099148 105 + 0.934 0.839 -0.362
ENSMUSG00000002210 E002 24.484508 0.0144832196 0.6245931631 0.9551420 7 24099149 24099316 168 + 1.432 1.379 -0.183
ENSMUSG00000002210 E003 0.000000       7 24099346 24099492 147 +      
ENSMUSG00000002210 E004 25.802345 0.0009156957 0.1905234732 0.7658913 7 24102817 24102972 156 + 1.388 1.466 0.269
ENSMUSG00000002210 E005 22.658861 0.0009085542 0.0003865837 0.0234089 7 24104952 24105026 75 + 1.235 1.480 0.853
ENSMUSG00000002210 E006 1.982443 0.0176175996 0.0805212464 0.5984355 7 24105027 24105112 86 + 0.299 0.597 1.577
ENSMUSG00000002210 E007 42.466426 0.0004899352 0.0390385370 0.4455344 7 24105113 24105377 265 + 1.587 1.684 0.329
ENSMUSG00000002210 E008 17.611672 0.0013384032 0.5704870911 0.9438727 7 24105460 24105557 98 + 1.251 1.287 0.127
ENSMUSG00000002210 E009 24.030846 0.0012345331 0.3541638075 0.8751770 7 24106946 24107058 113 + 1.370 1.425 0.190
ENSMUSG00000002210 E010 6.555825 0.0055348923 0.7992449207 0.9816518 7 24107059 24107698 640 + 0.899 0.859 -0.152
ENSMUSG00000002210 E011 4.773827 0.0039324893 0.2127923599 0.7850032 7 24114158 24114363 206 + 0.841 0.664 -0.719
ENSMUSG00000002210 E012 11.720812 0.0270020340 0.8641075461 0.9889212 7 24114364 24114399 36 + 1.099 1.108 0.031
ENSMUSG00000002210 E013 20.253171 0.0009358187 0.2048196621 0.7789694 7 24114400 24114475 76 + 1.376 1.272 -0.362
ENSMUSG00000002210 E014 25.344140 0.0370555879 0.2163608156 0.7889616 7 24115924 24116019 96 + 1.487 1.343 -0.495
ENSMUSG00000002210 E015 17.055720 0.0255380106 0.6562365761 0.9568598 7 24116346 24116431 86 + 1.289 1.224 -0.228
ENSMUSG00000002210 E016 21.018452 0.0372960251 0.5059559571 0.9301702 7 24119439 24119493 55 + 1.387 1.294 -0.323
ENSMUSG00000002210 E017 18.609602 0.0184099197 0.1020740311 0.6396862 7 24119494 24119545 52 + 1.370 1.198 -0.603
ENSMUSG00000002210 E018 9.556332 0.0020110799 0.4726387122 0.9212309 7 24119620 24120000 381 + 1.063 0.979 -0.308
ENSMUSG00000002210 E019 28.835927 0.0011023349 0.5648526628 0.9421718 7 24120001 24120108 108 + 1.496 1.451 -0.157
ENSMUSG00000002210 E020 25.124336 0.0091848428 0.4263190209 0.9054504 7 24120238 24120366 129 + 1.453 1.380 -0.254
ENSMUSG00000002210 E021 31.929920 0.0006469031 0.9781262121 1.0000000 7 24120545 24120689 145 + 1.523 1.512 -0.038
ENSMUSG00000002210 E022 66.632318 0.0003562913 0.5141027613 0.9314929 7 24121725 24122203 479 + 1.822 1.838 0.056

Help

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