ENSMUSG00000040351

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
ENSMUST00000043551 ENSMUSG00000040351 Control shVgll3 Ankib1 protein_coding protein_coding 5.72327 5.910308 5.536232 0.2900883 0.4829568 -0.09416419 1.9633603 2.0392711 1.8874495 0.3691173 0.1145912 -0.1110493 0.34816667 0.34740000 0.3489333 0.001533333 1.000000000 0.006004351 FALSE  
ENSMUST00000198344 ENSMUSG00000040351 Control shVgll3 Ankib1 protein_coding retained_intron 5.72327 5.910308 5.536232 0.2900883 0.4829568 -0.09416419 0.3022263 0.6044526 0.0000000 0.2754094 0.0000000 -5.9412297 0.04916667 0.09833333 0.0000000 -0.098333333 0.006004351 0.006004351    
ENSMUST00000199043 ENSMUSG00000040351 Control shVgll3 Ankib1 protein_coding retained_intron 5.72327 5.910308 5.536232 0.2900883 0.4829568 -0.09416419 0.1890926 0.0000000 0.3781852 0.0000000 0.3781852 5.2786731 0.02935000 0.00000000 0.0587000 0.058700000 0.970665669 0.006004351 FALSE  
MSTRG.17045.1 ENSMUSG00000040351 Control shVgll3 Ankib1 protein_coding   5.72327 5.910308 5.536232 0.2900883 0.4829568 -0.09416419 3.0792846 3.0021320 3.1564372 0.4419384 0.2963228 0.0720755 0.53988333 0.50800000 0.5717667 0.063766667 0.970665669 0.006004351 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
ENSMUSG00000040351 E001 0.3314605 0.3567739424 0.2811947122   5 3739999 3739999 1 - 0.000 0.222 10.368
ENSMUSG00000040351 E002 487.0081393 0.0043357113 0.7355563638 0.97290014 5 3740000 3743468 3469 - 2.682 2.695 0.043
ENSMUSG00000040351 E003 12.5058532 0.0017792870 0.0460253050 0.47632637 5 3743469 3743496 28 - 1.211 1.028 -0.661
ENSMUSG00000040351 E004 25.6425468 0.0008150936 0.5688945569 0.94354310 5 3743772 3743879 108 - 1.442 1.409 -0.112
ENSMUSG00000040351 E005 13.8037210 0.0067737955 0.5194130465 0.93163045 5 3743880 3743905 26 - 1.136 1.204 0.242
ENSMUSG00000040351 E006 13.3154368 0.0014478440 0.2095461813 0.78286632 5 3744779 3744800 22 - 1.093 1.213 0.430
ENSMUSG00000040351 E007 19.7359057 0.0009394398 0.0787359757 0.59153254 5 3744801 3744875 75 - 1.376 1.247 -0.449
ENSMUSG00000040351 E008 7.0792442 0.0027367960 0.1039989103 0.64156759 5 3744876 3744893 18 - 0.990 0.801 -0.719
ENSMUSG00000040351 E009 1.9774226 0.0414057313 0.0002012909 0.01356331 5 3744894 3745229 336 - 0.000 0.699 15.608
ENSMUSG00000040351 E010 13.9625650 0.0021338961 0.0045168919 0.13309471 5 3750356 3750407 52 - 1.283 1.028 -0.913
ENSMUSG00000040351 E011 0.8297100 0.1540201153 0.6849814758 0.96291900 5 3750551 3751804 1254 - 0.218 0.301 0.621
ENSMUSG00000040351 E012 47.3583943 0.0004653461 0.2487719133 0.80516260 5 3751805 3751983 179 - 1.652 1.716 0.217
ENSMUSG00000040351 E013 0.0000000       5 3751984 3752132 149 -      
ENSMUSG00000040351 E014 39.0915017 0.0073281735 0.7123894340 0.96812431 5 3752892 3753037 146 - 1.588 1.619 0.109
ENSMUSG00000040351 E015 15.6531259 0.0013767755 0.9578646866 1.00000000 5 3754526 3754592 67 - 1.220 1.222 0.006
ENSMUSG00000040351 E016 14.6518557 0.0012575145 0.3703685235 0.87598742 5 3754788 3754874 87 - 1.229 1.156 -0.257
ENSMUSG00000040351 E017 15.9347409 0.0039945481 0.0471681388 0.47963320 5 3756189 3756323 135 - 1.305 1.135 -0.599
ENSMUSG00000040351 E018 13.6595055 0.0014085547 0.8765516105 0.99081078 5 3763108 3763238 131 - 1.156 1.176 0.071
ENSMUSG00000040351 E019 16.7342955 0.0101176416 0.2458806243 0.80442163 5 3772546 3772634 89 - 1.298 1.195 -0.362
ENSMUSG00000040351 E020 25.1330422 0.0009343642 0.0524659368 0.50120656 5 3777489 3777655 167 - 1.476 1.349 -0.440
ENSMUSG00000040351 E021 25.8029695 0.0008134042 0.9881634090 1.00000000 5 3779635 3779779 145 - 1.426 1.431 0.018
ENSMUSG00000040351 E022 18.6075224 0.0050691033 0.2409619297 0.80442163 5 3782540 3782628 89 - 1.237 1.342 0.369
ENSMUSG00000040351 E023 0.6553792 0.0181692935 0.9907028378   5 3783680 3783975 296 - 0.217 0.222 0.036
ENSMUSG00000040351 E024 35.9061020 0.0005644261 0.1950464760 0.77082536 5 3783976 3784184 209 - 1.525 1.605 0.275
ENSMUSG00000040351 E025 22.5445406 0.0009056047 0.6286647281 0.95595792 5 3797021 3797138 118 - 1.351 1.392 0.141
ENSMUSG00000040351 E026 27.9331312 0.0130607407 0.8778499038 0.99160759 5 3805594 3805776 183 - 1.452 1.472 0.070
ENSMUSG00000040351 E027 46.2412455 0.0004621891 0.1130856362 0.65678228 5 3819429 3819729 301 - 1.629 1.716 0.293
ENSMUSG00000040351 E028 38.3106702 0.0005049197 0.6825493065 0.96291900 5 3822517 3822787 271 - 1.580 1.609 0.098
ENSMUSG00000040351 E029 0.1615462 0.0346775924 0.4823405219   5 3845429 3845490 62 - 0.000 0.125 12.246
ENSMUSG00000040351 E030 34.2182548 0.0006070521 0.4501184688 0.91349987 5 3852597 3853077 481 - 1.565 1.527 -0.131

Help

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