ENSMUSG00000029096

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
ENSMUST00000114233 ENSMUSG00000029096 Control shVgll3 Htra3 protein_coding protein_coding 3.64903 3.258147 4.039912 0.1399089 0.2276611 0.3094176 0.3919104 0.2606930 0.5231277 0.03481629 0.07248220 0.9778236 0.1050500 0.08053333 0.1295667 0.04903333 0.94294830 0.02920747 FALSE TRUE
ENSMUST00000137935 ENSMUSG00000029096 Control shVgll3 Htra3 protein_coding protein_coding 3.64903 3.258147 4.039912 0.1399089 0.2276611 0.3094176 0.6460915 0.3592917 0.9328912 0.03697022 0.02093299 1.3523303 0.1722167 0.11156667 0.2328667 0.12130000 0.24968603 0.02920747   FALSE
MSTRG.17416.2 ENSMUSG00000029096 Control shVgll3 Htra3 protein_coding   3.64903 3.258147 4.039912 0.1399089 0.2276611 0.3094176 2.0821730 2.2605268 1.9038192 0.14806263 0.21409821 -0.2465725 0.5806000 0.69266667 0.4685333 -0.22413333 0.02920747 0.02920747 FALSE TRUE
MSTRG.17416.5 ENSMUSG00000029096 Control shVgll3 Htra3 protein_coding   3.64903 3.258147 4.039912 0.1399089 0.2276611 0.3094176 0.5224255 0.3776357 0.6672153 0.09809121 0.10789848 0.8049131 0.1407167 0.11530000 0.1661333 0.05083333 0.97066567 0.02920747 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
ENSMUSG00000029096 E001 0.1613534 0.0338917246 0.5136014964   5 35809367 35809396 30 - 0.120 0.000 -8.297
ENSMUSG00000029096 E002 70.5984286 0.0004321546 0.0006427114 0.03464718 5 35809397 35810360 964 - 1.797 1.910 0.380
ENSMUSG00000029096 E003 5.0910042 0.0037025623 0.0685760351 0.56404148 5 35810361 35810466 106 - 0.887 0.642 -0.987
ENSMUSG00000029096 E004 3.7744825 0.0050222694 0.2365557581 0.80442163 5 35811415 35811510 96 - 0.588 0.759 0.721
ENSMUSG00000029096 E005 3.1231932 0.0059609776 0.0826784701 0.60353553 5 35812888 35812936 49 - 0.465 0.733 1.199
ENSMUSG00000029096 E006 15.9473735 0.0014206401 0.0016200212 0.06967282 5 35818903 35819608 706 - 1.338 1.073 -0.939
ENSMUSG00000029096 E007 7.7424672 0.0027192172 0.2672202310 0.81669065 5 35820952 35821306 355 - 0.998 0.871 -0.476
ENSMUSG00000029096 E008 7.0579915 0.0100470492 0.4093360333 0.89565180 5 35821307 35821421 115 - 0.954 0.851 -0.390
ENSMUSG00000029096 E009 3.4647339 0.0063779773 0.7259814879 0.97107356 5 35822758 35822790 33 - 0.623 0.675 0.221
ENSMUSG00000029096 E010 2.6380060 0.0464755087 0.7215115274 0.97058899 5 35823394 35823428 35 - 0.588 0.528 -0.278
ENSMUSG00000029096 E011 9.7217116 0.0416383065 0.7674097381 0.97799068 5 35823429 35823588 160 - 1.051 1.006 -0.162
ENSMUSG00000029096 E012 3.1274814 0.0058615268 0.4145589045 0.89831921 5 35825527 35825536 10 - 0.551 0.675 0.543
ENSMUSG00000029096 E013 8.3619581 0.0024105726 0.2264234502 0.79951561 5 35825537 35825573 37 - 0.905 1.034 0.482
ENSMUSG00000029096 E014 15.6034515 0.0012690800 0.3971677327 0.88939196 5 35825574 35825749 176 - 1.254 1.183 -0.252
ENSMUSG00000029096 E015 9.7077593 0.0020855740 0.1401717707 0.70296974 5 35828376 35828475 100 - 1.097 0.944 -0.563
ENSMUSG00000029096 E016 3.6179969 0.0049818358 0.0439129333 0.46656993 5 35828476 35828568 93 - 0.786 0.482 -1.331
ENSMUSG00000029096 E017 4.9440968 0.0074662341 0.8415537988 0.98677151 5 35828569 35828609 41 - 0.786 0.759 -0.109
ENSMUSG00000029096 E018 16.2836880 0.0012745026 0.8357210701 0.98626126 5 35828610 35828897 288 - 1.230 1.245 0.055
ENSMUSG00000029096 E019 0.0000000       5 35835727 35836287 561 -      
ENSMUSG00000029096 E020 0.3228996 0.0274764012 0.9636559130   5 35836288 35836321 34 - 0.120 0.127 0.084
ENSMUSG00000029096 E021 0.9779819 0.0166765210 0.3765582922 0.87961444 5 35836322 35837126 805 - 0.215 0.372 1.083

Help

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