ENSMUSG00000039126

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
ENSMUST00000224117 ENSMUSG00000039126 Control shVgll3 Prune2 protein_coding retained_intron 16.22697 13.8551 18.59884 0.3091595 0.4428792 0.4245305 2.8827783 2.2744868 3.4910699 0.07560057 0.07931003 0.6159257 0.17608333 0.1644333 0.1877333 0.0233000 9.706657e-01 4.827556e-14 FALSE FALSE
ENSMUST00000225838 ENSMUSG00000039126 Control shVgll3 Prune2 protein_coding retained_intron 16.22697 13.8551 18.59884 0.3091595 0.4428792 0.4245305 0.8600368 0.7059552 1.0141183 0.10537760 0.13698584 0.5164412 0.05265000 0.0510000 0.0543000 0.0033000 9.973545e-01 4.827556e-14   FALSE
ENSMUST00000226052 ENSMUSG00000039126 Control shVgll3 Prune2 protein_coding protein_coding_CDS_not_defined 16.22697 13.8551 18.59884 0.3091595 0.4428792 0.4245305 7.5494368 6.6130566 8.4858170 0.38543415 0.59185820 0.3592555 0.46608333 0.4767333 0.4554333 -0.0213000 9.706657e-01 4.827556e-14 FALSE TRUE
MSTRG.11702.3 ENSMUSG00000039126 Control shVgll3 Prune2 protein_coding   16.22697 13.8551 18.59884 0.3091595 0.4428792 0.4245305 1.3740172 0.0000000 2.7480343 0.00000000 0.42457999 8.1074966 0.07393333 0.0000000 0.1478667 0.1478667 4.827556e-14 4.827556e-14 FALSE TRUE
MSTRG.11702.4 ENSMUSG00000039126 Control shVgll3 Prune2 protein_coding   16.22697 13.8551 18.59884 0.3091595 0.4428792 0.4245305 1.8165792 2.6748906 0.9582678 0.14260559 0.95826784 -1.4713852 0.12233333 0.1930667 0.0516000 -0.1414667 5.838450e-01 4.827556e-14 TRUE 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
ENSMUSG00000039126 E001 0.0000000       19 16933482 16933491 10 +      
ENSMUSG00000039126 E002 0.8330841 0.2534931512 0.0881509226 0.61674013 19 16933492 16933509 18 + 0.379 0.000 -10.370
ENSMUSG00000039126 E003 16.2988141 0.0018693525 0.9695547459 1.00000000 19 16933510 16933656 147 + 1.226 1.241 0.053
ENSMUSG00000039126 E004 11.8491687 0.0023740305 0.0462757197 0.47672919 19 16977303 16977407 105 + 1.172 0.982 -0.691
ENSMUSG00000039126 E005 21.8750134 0.0118191640 0.8766802826 0.99086048 19 16980986 16981188 203 + 1.355 1.352 -0.010
ENSMUSG00000039126 E006 13.5095726 0.0018259209 0.8896582294 0.99457396 19 16983986 16984149 164 + 1.156 1.155 -0.004
ENSMUSG00000039126 E007 2.6228824 0.0923672664 0.8949671153 0.99560027 19 16993572 16993578 7 + 0.543 0.572 0.130
ENSMUSG00000039126 E008 12.8497505 0.0560347619 0.5028416321 0.92783507 19 16993579 16993721 143 + 1.083 1.200 0.420
ENSMUSG00000039126 E009 13.1945184 0.0019725911 0.1282880958 0.68245300 19 16997923 16998017 95 + 1.196 1.062 -0.480
ENSMUSG00000039126 E010 1.8146813 0.0120166578 0.3131905596 0.85211665 19 17032154 17033146 993 + 0.508 0.337 -0.921
ENSMUSG00000039126 E011 12.6972519 0.0153407675 0.4785578933 0.92326912 19 17090951 17091106 156 + 1.156 1.091 -0.233
ENSMUSG00000039126 E012 775.8232783 0.0023363443 0.9540774114 1.00000000 19 17095407 17101956 6550 + 2.878 2.892 0.046
ENSMUSG00000039126 E013 137.5017628 0.0014033730 0.6647587092 0.95848872 19 17102302 17103010 709 + 2.124 2.151 0.091
ENSMUSG00000039126 E014 24.8196542 0.0098110249 0.5150816441 0.93149289 19 17103011 17103067 57 + 1.423 1.381 -0.148
ENSMUSG00000039126 E015 0.0000000       19 17114130 17114138 9 +      
ENSMUSG00000039126 E016 0.1667494 0.0344389684 0.6436891456   19 17114139 17114255 117 + 0.106 0.000 -10.700
ENSMUSG00000039126 E017 0.0000000       19 17116103 17116192 90 +      
ENSMUSG00000039126 E018 31.9053272 0.0015092672 0.6713095120 0.96111497 19 17145627 17145706 80 + 1.495 1.534 0.134
ENSMUSG00000039126 E019 70.3636601 0.0054039908 0.0970810413 0.63189316 19 17156154 17156354 201 + 1.802 1.904 0.345
ENSMUSG00000039126 E020 45.1292728 0.0004423529 0.6519508397 0.95668705 19 17170620 17170793 174 + 1.662 1.651 -0.039
ENSMUSG00000039126 E021 5.2656352 0.0540546322 0.4502811631 0.91349987 19 17170794 17171167 374 + 0.735 0.860 0.495
ENSMUSG00000039126 E022 19.7826153 0.0225431674 0.0962874748 0.63170379 19 17176477 17176579 103 + 1.370 1.211 -0.560
ENSMUSG00000039126 E023 28.4954044 0.0006501137 0.1231584878 0.67354277 19 17177145 17177276 132 + 1.498 1.408 -0.311
ENSMUSG00000039126 E024 23.9806944 0.0008742103 0.8255039716 0.98532653 19 17179006 17179092 87 + 1.381 1.408 0.096
ENSMUSG00000039126 E025 13.9606187 0.0013673241 0.3775412409 0.87965389 19 17185595 17185614 20 + 1.130 1.221 0.324
ENSMUSG00000039126 E026 17.4401656 0.0010608021 0.3130411418 0.85211665 19 17185615 17185693 79 + 1.218 1.312 0.330
ENSMUSG00000039126 E027 39.4341469 0.0064510545 0.4265924081 0.90545038 19 17185694 17187507 1814 + 1.618 1.576 -0.142
ENSMUSG00000039126 E028 5.5928436 0.0086198207 0.5895696766 0.95139970 19 17189042 17189077 36 + 0.778 0.860 0.323
ENSMUSG00000039126 E029 2.3024555 0.0085677846 0.2992522106 0.84044841 19 17189656 17189694 39 + 0.577 0.409 -0.828
ENSMUSG00000039126 E030 149.7763418 0.0001537239 0.0004798796 0.02765336 19 17191678 17193689 2012 + 2.207 2.117 -0.300
ENSMUSG00000039126 E031 6.5616072 0.0031353055 0.5493579395 0.93707028 19 17193690 17193737 48 + 0.899 0.836 -0.243
ENSMUSG00000039126 E032 189.4634795 0.0003033455 0.7178422838 0.96926954 19 17193738 17196125 2388 + 2.272 2.275 0.010
ENSMUSG00000039126 E033 1111.4593964 0.0038610456 0.3791545768 0.88024846 19 17198148 17201296 3149 + 3.027 3.057 0.100

Help

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