ENSMUSG00000033166

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
ENSMUST00000042471 ENSMUSG00000033166 Control shVgll3 Dis3 protein_coding protein_coding 9.778207 8.946686 10.60973 0.2554766 0.271624 0.24571 1.1310024 0.5001379 1.76186698 0.2851751 0.11361136 1.79631110 0.1117333 0.05736667 0.166100000 0.10873333 7.404783e-01 2.107837e-12 FALSE TRUE
ENSMUST00000228643 ENSMUSG00000033166 Control shVgll3 Dis3 protein_coding nonsense_mediated_decay 9.778207 8.946686 10.60973 0.2554766 0.271624 0.24571 0.3507035 0.6187474 0.08265956 0.6187474 0.08265956 -2.76246881 0.0380500 0.06790000 0.008200000 -0.05970000 1.000000e+00 2.107837e-12 TRUE TRUE
MSTRG.7653.1 ENSMUSG00000033166 Control shVgll3 Dis3 protein_coding   9.778207 8.946686 10.60973 0.2554766 0.271624 0.24571 0.8299548 1.6033229 0.05658672 0.1987808 0.05658672 -4.59865706 0.0918500 0.17856667 0.005133333 -0.17343333 2.107837e-12 2.107837e-12 FALSE TRUE
MSTRG.7653.4 ENSMUSG00000033166 Control shVgll3 Dis3 protein_coding   9.778207 8.946686 10.60973 0.2554766 0.271624 0.24571 2.5886223 2.5043201 2.67292454 0.1819241 0.49145422 0.09363813 0.2660167 0.27930000 0.252733333 -0.02656667 9.706657e-01 2.107837e-12 TRUE TRUE
MSTRG.7653.7 ENSMUSG00000033166 Control shVgll3 Dis3 protein_coding   9.778207 8.946686 10.60973 0.2554766 0.271624 0.24571 1.1523926 0.2249531 2.07983211 0.2249531 0.12425712 3.15294243 0.1113500 0.02663333 0.196066667 0.16943333 3.494355e-01 2.107837e-12 FALSE TRUE
MSTRG.7653.8 ENSMUSG00000033166 Control shVgll3 Dis3 protein_coding   9.778207 8.946686 10.60973 0.2554766 0.271624 0.24571 3.3592519 3.2774049 3.44109895 0.5779102 0.30152797 0.07010669 0.3448667 0.36596667 0.323766667 -0.04220000 9.708485e-01 2.107837e-12 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
ENSMUSG00000033166 E001 1.9643512 0.0113754029 4.430799e-05 0.004049334 14 99312529 99312641 113 - 0.000 0.720 12.806
ENSMUSG00000033166 E002 79.2345028 0.0043115702 1.060511e-02 0.222781277 14 99312642 99314069 1428 - 1.841 1.965 0.419
ENSMUSG00000033166 E003 27.4920644 0.0007506414 2.021415e-01 0.776869603 14 99314070 99314651 582 - 1.411 1.497 0.296
ENSMUSG00000033166 E004 2.4577046 0.0080690636 8.852885e-03 0.204211493 14 99314652 99314677 26 - 0.283 0.720 2.209
ENSMUSG00000033166 E005 3.1255121 0.0056838208 4.317672e-03 0.129508025 14 99314678 99314705 28 - 0.347 0.800 2.116
ENSMUSG00000033166 E006 31.5886782 0.0006559154 9.213173e-01 0.997946529 14 99314706 99314901 196 - 1.508 1.516 0.028
ENSMUSG00000033166 E007 44.8085825 0.0005524760 7.603672e-01 0.977725020 14 99314902 99315697 796 - 1.666 1.652 -0.046
ENSMUSG00000033166 E008 36.2048065 0.0005434050 2.596262e-01 0.813530431 14 99315698 99315820 123 - 1.597 1.535 -0.214
ENSMUSG00000033166 E009 95.8768791 0.0002988924 9.835671e-01 1.000000000 14 99315821 99316563 743 - 1.984 1.986 0.006
ENSMUSG00000033166 E010 42.6585686 0.0005212838 1.923063e-01 0.768387416 14 99316564 99316722 159 - 1.668 1.601 -0.229
ENSMUSG00000033166 E011 62.0230399 0.0003488429 6.489251e-01 0.956687053 14 99316824 99316992 169 - 1.807 1.789 -0.060
ENSMUSG00000033166 E012 88.2040558 0.0002508765 1.009974e-01 0.638630895 14 99317101 99317315 215 - 1.919 1.981 0.209
ENSMUSG00000033166 E013 63.3046487 0.0089907387 6.940727e-01 0.963988069 14 99318662 99318818 157 - 1.794 1.822 0.095
ENSMUSG00000033166 E014 45.8730466 0.0091254952 7.610349e-01 0.977903104 14 99320086 99320172 87 - 1.679 1.659 -0.069
ENSMUSG00000033166 E015 54.7819300 0.0004072461 5.042764e-01 0.928615097 14 99321463 99321590 128 - 1.730 1.763 0.114
ENSMUSG00000033166 E016 3.2945871 0.0052380705 7.589545e-01 0.977065704 14 99322112 99323309 1198 - 0.609 0.657 0.209
ENSMUSG00000033166 E017 38.9854495 0.0005498520 8.223926e-01 0.984110891 14 99323310 99323394 85 - 1.594 1.609 0.051
ENSMUSG00000033166 E018 23.0148971 0.0011902160 3.299446e-01 0.862412416 14 99323483 99323547 65 - 1.345 1.417 0.250
ENSMUSG00000033166 E019 29.3401618 0.0020334185 6.866222e-01 0.962918995 14 99324825 99324926 102 - 1.491 1.467 -0.084
ENSMUSG00000033166 E020 34.7298867 0.0005522511 1.765591e-02 0.302399412 14 99325170 99325286 117 - 1.611 1.472 -0.473
ENSMUSG00000033166 E021 8.2211905 0.0024001613 7.233493e-01 0.970716991 14 99325287 99326197 911 - 0.981 0.944 -0.139
ENSMUSG00000033166 E022 47.1696715 0.0049668550 1.275722e-02 0.247485883 14 99326198 99326344 147 - 1.744 1.597 -0.499
ENSMUSG00000033166 E023 36.3584405 0.0005310443 2.930087e-01 0.838033291 14 99327054 99327191 138 - 1.597 1.539 -0.198
ENSMUSG00000033166 E024 47.0611258 0.0004278455 4.731647e-01 0.921230945 14 99327401 99327514 114 - 1.696 1.662 -0.115
ENSMUSG00000033166 E025 53.4538498 0.0003626729 7.212712e-01 0.970588989 14 99328764 99328928 165 - 1.742 1.727 -0.049
ENSMUSG00000033166 E026 59.3013006 0.0009454982 3.276590e-01 0.861919190 14 99332609 99332776 168 - 1.756 1.804 0.161
ENSMUSG00000033166 E027 37.0371732 0.0086788063 4.499877e-01 0.913499868 14 99334193 99334266 74 - 1.551 1.609 0.197
ENSMUSG00000033166 E028 47.2198658 0.0034160313 9.497179e-01 1.000000000 14 99335021 99335122 102 - 1.683 1.682 -0.003
ENSMUSG00000033166 E029 40.2135612 0.0155296318 3.175746e-01 0.853431706 14 99335123 99335214 92 - 1.649 1.569 -0.271
ENSMUSG00000033166 E030 53.6822353 0.0003826568 8.040013e-02 0.598208417 14 99336119 99336276 158 - 1.772 1.691 -0.273
ENSMUSG00000033166 E031 2.6488076 0.0448706462 4.803455e-01 0.923279935 14 99336277 99336366 90 - 0.498 0.622 0.571
ENSMUSG00000033166 E032 4.7728953 0.0075061605 5.889828e-01 0.951244541 14 99336555 99336622 68 - 0.723 0.800 0.309
ENSMUSG00000033166 E033 0.4982099 0.2012121283 5.428444e-01   14 99336739 99336881 143 - 0.116 0.233 1.209
ENSMUSG00000033166 E034 0.0000000       14 99336882 99337206 325 -      

Help

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