ENSMUSG00000029106

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
ENSMUST00000114338 ENSMUSG00000029106 Control shVgll3 Add1 protein_coding protein_coding 42.44042 51.32041 33.56043 2.138708 0.5042301 -0.6126228 2.854508 2.619919 3.089098 0.8886319 0.4756296 0.2368300 0.07200000 0.05233333 0.09166667 0.03933333 8.789771e-01 3.284965e-32 FALSE TRUE
ENSMUST00000114340 ENSMUSG00000029106 Control shVgll3 Add1 protein_coding protein_coding 42.44042 51.32041 33.56043 2.138708 0.5042301 -0.6126228 14.643816 20.373081 8.914551 0.3753235 1.3249089 -1.1915207 0.33261667 0.39833333 0.26690000 -0.13143333 5.375217e-01 3.284965e-32 FALSE TRUE
ENSMUST00000145986 ENSMUSG00000029106 Control shVgll3 Add1 protein_coding protein_coding_CDS_not_defined 42.44042 51.32041 33.56043 2.138708 0.5042301 -0.6126228 3.222259 6.444518 0.000000 3.2279711 0.0000000 -9.3341655 0.06036667 0.12073333 0.00000000 -0.12073333 6.205872e-01 3.284965e-32   FALSE
ENSMUST00000201810 ENSMUSG00000029106 Control shVgll3 Add1 protein_coding protein_coding 42.44042 51.32041 33.56043 2.138708 0.5042301 -0.6126228 11.666985 13.790958 9.543012 0.7030681 0.9748448 -0.5307408 0.27741667 0.27083333 0.28400000 0.01316667 9.968162e-01 3.284965e-32 FALSE TRUE
MSTRG.17401.5 ENSMUSG00000029106 Control shVgll3 Add1 protein_coding   42.44042 51.32041 33.56043 2.138708 0.5042301 -0.6126228 2.706063 0.000000 5.412127 0.0000000 0.7880816 9.0827150 0.08036667 0.00000000 0.16073333 0.16073333 3.284965e-32 3.284965e-32 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
ENSMUSG00000029106 E001 0.0000000       5 34731008 34731108 101 +      
ENSMUSG00000029106 E002 0.0000000       5 34731109 34731112 4 +      
ENSMUSG00000029106 E003 0.1657302 0.0345194526 0.6311540075   5 34731113 34731144 32 + 0.000 0.109 8.296
ENSMUSG00000029106 E004 0.3270836 0.0284152177 0.8328603330   5 34731145 34731147 3 + 0.140 0.109 -0.419
ENSMUSG00000029106 E005 17.7282842 0.0013044493 0.6744379493 0.96164256 5 34731148 34731206 59 + 1.249 1.283 0.121
ENSMUSG00000029106 E006 20.0430057 0.0095209482 0.8677315353 0.98892123 5 34731207 34731216 10 + 1.310 1.326 0.057
ENSMUSG00000029106 E007 33.6839857 0.0011836828 0.2916751820 0.83781095 5 34731217 34731257 41 + 1.498 1.563 0.224
ENSMUSG00000029106 E008 1.1495782 0.0130549673 0.9962816720 1.00000000 5 34731386 34731494 109 + 0.331 0.330 -0.005
ENSMUSG00000029106 E009 2.9623104 0.0064325429 0.5449317634 0.93707028 5 34731495 34731968 474 + 0.646 0.552 -0.420
ENSMUSG00000029106 E010 0.0000000       5 34752913 34753049 137 +      
ENSMUSG00000029106 E011 0.8255164 0.1044797406 0.1199485524 0.66731784 5 34753684 34755512 1829 + 0.402 0.109 -2.419
ENSMUSG00000029106 E012 4.0853978 0.0821149534 0.5332563530 0.93660279 5 34755513 34755613 101 + 0.645 0.744 0.413
ENSMUSG00000029106 E013 8.8497323 0.0258790887 0.8709695451 0.98948659 5 34755614 34755791 178 + 1.005 0.979 -0.096
ENSMUSG00000029106 E014 0.4941990 0.0218665095 0.7467736606   5 34755792 34756457 666 + 0.140 0.196 0.580
ENSMUSG00000029106 E015 29.2668389 0.0049726286 0.7679545463 0.97799068 5 34758668 34758685 18 + 1.465 1.486 0.072
ENSMUSG00000029106 E016 134.4109008 0.0025190745 0.8879686441 0.99452963 5 34758686 34758882 197 + 2.130 2.125 -0.017
ENSMUSG00000029106 E017 0.0000000       5 34758883 34758969 87 +      
ENSMUSG00000029106 E018 110.9708460 0.0003567147 0.2972384124 0.84044841 5 34762034 34762196 163 + 2.064 2.029 -0.119
ENSMUSG00000029106 E019 106.9117799 0.0009489502 0.1835102868 0.76082247 5 34763172 34763323 152 + 2.000 2.049 0.165
ENSMUSG00000029106 E020 69.4356436 0.0002835360 0.8083958325 0.98304176 5 34767536 34767616 81 + 1.849 1.839 -0.034
ENSMUSG00000029106 E021 99.6847583 0.0002339718 0.8212916029 0.98411089 5 34767834 34767983 150 + 2.003 1.995 -0.027
ENSMUSG00000029106 E022 109.0402002 0.0003434030 0.7210786022 0.97058899 5 34770632 34770775 144 + 2.030 2.042 0.041
ENSMUSG00000029106 E023 78.4607779 0.0002749120 0.9961608969 1.00000000 5 34770863 34770961 99 + 1.896 1.896 0.001
ENSMUSG00000029106 E024 92.0469815 0.0002441524 0.8953082607 0.99560027 5 34771528 34771590 63 + 1.962 1.967 0.017
ENSMUSG00000029106 E025 119.3369591 0.0003258391 0.4799652415 0.92327994 5 34771591 34771704 114 + 2.063 2.086 0.078
ENSMUSG00000029106 E026 72.4168086 0.0003575464 0.6194671346 0.95514198 5 34773907 34773969 63 + 1.849 1.870 0.070
ENSMUSG00000029106 E027 132.8509663 0.0002161614 0.7053341597 0.96592857 5 34773970 34774110 141 + 2.129 2.117 -0.039
ENSMUSG00000029106 E028 56.5969166 0.0003307758 0.8165083355 0.98411089 5 34774111 34774158 48 + 1.750 1.761 0.037
ENSMUSG00000029106 E029 4.9213989 0.0053574913 0.0738522784 0.58137547 5 34774159 34774251 93 + 0.607 0.861 1.040
ENSMUSG00000029106 E030 27.7832920 0.0032265185 0.2117168450 0.78415341 5 34776694 34776697 4 + 1.503 1.416 -0.300
ENSMUSG00000029106 E031 110.4451522 0.0006119025 0.9724751598 1.00000000 5 34776698 34776795 98 + 2.042 2.044 0.004
ENSMUSG00000029106 E032 0.4989225 0.0270508689 0.0485935219   5 34777193 34777314 122 + 0.331 0.000 -12.926
ENSMUSG00000029106 E033 0.4995853 0.0298145535 0.0488165250   5 34777315 34777388 74 + 0.331 0.000 -12.885
ENSMUSG00000029106 E034 123.5115114 0.0016767121 0.1092069249 0.64991094 5 34777389 34777478 90 + 2.056 2.115 0.200
ENSMUSG00000029106 E035 9.0697603 0.0021225164 0.0022464021 0.08523000 5 34777479 34777795 317 + 1.156 0.825 -1.227
ENSMUSG00000029106 E036 34.0949746 0.0006897108 0.0008079123 0.04091324 5 34778176 34778262 87 + 1.643 1.443 -0.685
ENSMUSG00000029106 E037 214.8723558 0.0012714436 0.4430563062 0.91335964 5 34782623 34782779 157 + 2.342 2.320 -0.073
ENSMUSG00000029106 E038 158.2072606 0.0007824580 0.6523390244 0.95668705 5 34785759 34785857 99 + 2.190 2.203 0.046
ENSMUSG00000029106 E039 10.0260630 0.0019298556 0.8175555177 0.98411089 5 34785858 34786087 230 + 1.052 1.028 -0.087
ENSMUSG00000029106 E040 4.4358551 0.0095088078 0.5582641097 0.94110467 5 34786480 34786482 3 + 0.682 0.766 0.347
ENSMUSG00000029106 E041 5.2576773 0.0036888189 0.9135806451 0.99729780 5 34786483 34786516 34 + 0.801 0.787 -0.057
ENSMUSG00000029106 E042 3.4466574 0.0056170416 0.1948610133 0.77082536 5 34787579 34787628 50 + 0.746 0.552 -0.834
ENSMUSG00000029106 E043 1700.8854220 0.0009652540 0.9726100133 1.00000000 5 34787814 34789652 1839 + 3.226 3.227 0.002

Help

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