ENSMUSG00000057406

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
ENSMUST00000066854 ENSMUSG00000057406 Control shVgll3 Nsd2 protein_coding protein_coding 10.44493 10.17343 10.71644 1.319904 2.292765 0.0749473 1.7188727 1.9873998 1.4503457 0.13902879 0.78363279 -0.451813239 0.1877833 0.2039000 0.17166667 -0.03223333 9.708461e-01 2.614438e-06 FALSE TRUE
ENSMUST00000075812 ENSMUSG00000057406 Control shVgll3 Nsd2 protein_coding protein_coding 10.44493 10.17343 10.71644 1.319904 2.292765 0.0749473 2.4436190 2.2899312 2.5973068 0.30170695 0.58317818 0.180969629 0.2343667 0.2257333 0.24300000 0.01726667 9.810993e-01 2.614438e-06 FALSE TRUE
ENSMUST00000114397 ENSMUSG00000057406 Control shVgll3 Nsd2 protein_coding protein_coding 10.44493 10.17343 10.71644 1.319904 2.292765 0.0749473 0.9066695 1.0439933 0.7693457 0.05274011 0.08976860 -0.435530387 0.0926500 0.1062667 0.07903333 -0.02723333 9.706657e-01 2.614438e-06 FALSE TRUE
ENSMUST00000139845 ENSMUSG00000057406 Control shVgll3 Nsd2 protein_coding nonsense_mediated_decay 10.44493 10.17343 10.71644 1.319904 2.292765 0.0749473 0.5047881 0.0000000 1.0095762 0.00000000 0.11886373 6.671825742 0.0522000 0.0000000 0.10440000 0.10440000 2.614438e-06 2.614438e-06 TRUE TRUE
ENSMUST00000142080 ENSMUSG00000057406 Control shVgll3 Nsd2 protein_coding protein_coding 10.44493 10.17343 10.71644 1.319904 2.292765 0.0749473 1.1687124 1.3027838 1.0346410 0.14962412 0.04685190 -0.329622041 0.1186667 0.1324333 0.10490000 -0.02753333 9.706657e-01 2.614438e-06 FALSE FALSE
ENSMUST00000200981 ENSMUSG00000057406 Control shVgll3 Nsd2 protein_coding retained_intron 10.44493 10.17343 10.71644 1.319904 2.292765 0.0749473 1.9227536 1.4327519 2.4127553 1.43275191 2.41275532 0.747825469 0.1347667 0.1118333 0.15770000 0.04586667 1.000000e+00 2.614438e-06 FALSE FALSE
ENSMUST00000202912 ENSMUSG00000057406 Control shVgll3 Nsd2 protein_coding retained_intron 10.44493 10.17343 10.71644 1.319904 2.292765 0.0749473 0.8826642 0.8851775 0.8801509 0.16541238 0.04806502 -0.008123801 0.0906000 0.0935000 0.08770000 -0.00580000 1.000000e+00 2.614438e-06   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
ENSMUSG00000057406 E001 3.9642100 0.0825357124 7.522232e-01 0.9754469330 5 33978069 33978087 19 + 0.668 0.720 0.217
ENSMUSG00000057406 E002 7.4188248 0.0030578255 9.266448e-01 0.9993033078 5 33978088 33978172 85 + 0.919 0.930 0.039
ENSMUSG00000057406 E003 3.7977333 0.0084243852 2.914205e-01 0.8378082658 5 33978173 33978221 49 + 0.752 0.595 -0.663
ENSMUSG00000057406 E004 4.4596068 0.1221733335 5.271689e-01 0.9357449935 5 33979003 33979072 70 + 0.801 0.661 -0.572
ENSMUSG00000057406 E005 3.7843157 0.0586200779 3.572277e-01 0.8751769517 5 34000456 34000480 25 + 0.752 0.595 -0.665
ENSMUSG00000057406 E006 3.6173831 0.0107680344 6.527930e-01 0.9566870527 5 34000481 34000484 4 + 0.698 0.630 -0.288
ENSMUSG00000057406 E007 9.5422449 0.0359384913 8.716246e-01 0.9897364070 5 34000485 34000539 55 + 1.013 1.033 0.075
ENSMUSG00000057406 E008 90.2276667 0.0005070271 7.542493e-01 0.9761164994 5 34000540 34001081 542 + 1.954 1.965 0.038
ENSMUSG00000057406 E009 34.3952765 0.0005632492 8.227815e-01 0.9841108910 5 34003449 34003611 163 + 1.542 1.555 0.044
ENSMUSG00000057406 E010 39.1352745 0.0005010574 3.682342e-01 0.8754022310 5 34011954 34012120 167 + 1.628 1.578 -0.171
ENSMUSG00000057406 E011 80.2452853 0.0042604205 5.299789e-01 0.9357449935 5 34012598 34013080 483 + 1.926 1.894 -0.107
ENSMUSG00000057406 E012 15.9702780 0.0012927293 5.357956e-01 0.9366247565 5 34018378 34018412 35 + 1.202 1.254 0.184
ENSMUSG00000057406 E013 37.3342351 0.0005819854 4.653641e-01 0.9186439698 5 34018413 34018522 110 + 1.562 1.604 0.140
ENSMUSG00000057406 E014 45.8959404 0.0012732641 3.773059e-01 0.8796144419 5 34022004 34022122 119 + 1.694 1.647 -0.160
ENSMUSG00000057406 E015 8.7354256 0.0022015936 6.797290e-02 0.5629922055 5 34024918 34024920 3 + 1.078 0.876 -0.748
ENSMUSG00000057406 E016 22.8985509 0.0111246093 5.707418e-01 0.9438726707 5 34024921 34025002 82 + 1.402 1.353 -0.171
ENSMUSG00000057406 E017 13.8416102 0.0017581238 2.256828e-01 0.7984698495 5 34026098 34026135 38 + 1.112 1.222 0.390
ENSMUSG00000057406 E018 23.5502932 0.0009920506 7.536127e-01 0.9761164994 5 34026136 34026222 87 + 1.378 1.400 0.076
ENSMUSG00000057406 E019 68.1580090 0.0003879682 9.983198e-03 0.2166364558 5 34026223 34028750 2528 + 1.781 1.890 0.368
ENSMUSG00000057406 E020 14.6423040 0.0014298102 6.968837e-01 0.9646256308 5 34028751 34028845 95 + 1.211 1.177 -0.122
ENSMUSG00000057406 E021 13.6495598 0.0023776599 4.103785e-01 0.8962710588 5 34028846 34028978 133 + 1.202 1.127 -0.269
ENSMUSG00000057406 E022 311.5946008 0.0006643533 1.423469e-06 0.0001959028 5 34028979 34034634 5656 + 2.441 2.542 0.335
ENSMUSG00000057406 E023 18.9043044 0.0018604407 9.983925e-01 1.0000000000 5 34035559 34036401 843 + 1.299 1.299 0.000
ENSMUSG00000057406 E024 19.7602681 0.0010387348 3.224510e-01 0.8578266220 5 34036402 34036494 93 + 1.354 1.277 -0.266
ENSMUSG00000057406 E025 11.0124188 0.0024730331 5.074221e-01 0.9305696371 5 34036495 34036533 39 + 1.112 1.046 -0.241
ENSMUSG00000057406 E026 21.6989857 0.0084996321 4.916660e-01 0.9267462875 5 34037396 34037519 124 + 1.384 1.327 -0.200
ENSMUSG00000057406 E027 38.7311635 0.0005894565 1.761542e-01 0.7567761689 5 34038331 34038531 201 + 1.635 1.559 -0.259
ENSMUSG00000057406 E028 41.9824168 0.0012830874 9.566664e-01 1.0000000000 5 34039332 34039511 180 + 1.632 1.634 0.009
ENSMUSG00000057406 E029 36.4845773 0.0069373590 8.083256e-02 0.5989280986 5 34039871 34040027 157 + 1.631 1.510 -0.416
ENSMUSG00000057406 E030 31.2452277 0.0006321584 2.064538e-01 0.7820062379 5 34040143 34040246 104 + 1.546 1.468 -0.269
ENSMUSG00000057406 E031 19.8917059 0.0010162159 1.932591e-02 0.3144428243 5 34040247 34040348 102 + 1.402 1.222 -0.630
ENSMUSG00000057406 E032 28.0090823 0.0007643771 1.707401e-02 0.2958988422 5 34042331 34042434 104 + 1.534 1.377 -0.540
ENSMUSG00000057406 E033 28.1391319 0.0006706306 5.235496e-01 0.9337797524 5 34042726 34042827 102 + 1.485 1.443 -0.143
ENSMUSG00000057406 E034 9.5426871 0.0401587715 2.136213e-01 0.7863254999 5 34042828 34042841 14 + 1.101 0.929 -0.633
ENSMUSG00000057406 E035 42.1202483 0.0145312214 1.051371e-01 0.6425299756 5 34042842 34042995 154 + 1.694 1.567 -0.435
ENSMUSG00000057406 E036 30.6142162 0.0006135029 5.835111e-01 0.9485704391 5 34044596 34044712 117 + 1.517 1.482 -0.118
ENSMUSG00000057406 E037 0.9826360 0.0146691769 9.844174e-01 1.0000000000 5 34044713 34045047 335 + 0.300 0.296 -0.025
ENSMUSG00000057406 E038 37.0335852 0.0007865321 8.515680e-01 0.9877994073 5 34048850 34048991 142 + 1.586 1.574 -0.038
ENSMUSG00000057406 E039 0.3318168 0.0276288836 9.903895e-01   5 34048992 34049018 27 + 0.124 0.123 -0.025
ENSMUSG00000057406 E040 0.3282956 0.0277340471 9.903509e-01   5 34049249 34049283 35 + 0.124 0.123 -0.025
ENSMUSG00000057406 E041 31.2085314 0.0017660901 1.728692e-01 0.7542837535 5 34049284 34049390 107 + 1.550 1.463 -0.299
ENSMUSG00000057406 E042 40.0488708 0.0339460604 7.807715e-01 0.9790321967 5 34050749 34050953 205 + 1.628 1.599 -0.097
ENSMUSG00000057406 E043 357.1677898 0.0001318695 5.001431e-01 0.9278350659 5 34052250 34055319 3070 + 2.548 2.560 0.037

Help

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