ENSMUSG00000044042

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
ENSMUST00000081349 ENSMUSG00000044042 Control shVgll3 Fmn1 protein_coding protein_coding 3.020803 2.972662 3.068943 0.0528987 0.1551526 0.04583478 2.66813998 2.3015138 3.034766 0.1376287 0.1581151 0.3974935 0.88096667 0.77313333 0.9888 0.21566667 2.666703e-05 2.666703e-05 FALSE TRUE
ENSMUST00000145891 ENSMUSG00000044042 Control shVgll3 Fmn1 protein_coding protein_coding_CDS_not_defined 3.020803 2.972662 3.068943 0.0528987 0.1551526 0.04583478 0.19248730 0.3849746 0.000000 0.1932898 0.0000000 -5.3036880 0.06361667 0.12723333 0.0000 -0.12723333 6.164163e-01 2.666703e-05 FALSE FALSE
ENSMUST00000153151 ENSMUSG00000044042 Control shVgll3 Fmn1 protein_coding protein_coding_CDS_not_defined 3.020803 2.972662 3.068943 0.0528987 0.1551526 0.04583478 0.09288492 0.1857698 0.000000 0.1857698 0.0000000 -4.2910866 0.03238333 0.06476667 0.0000 -0.06476667 9.706657e-01 2.666703e-05   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
ENSMUSG00000044042 E001 0.0000000       2 113158081 113158115 35 +      
ENSMUSG00000044042 E002 0.0000000       2 113158116 113158126 11 +      
ENSMUSG00000044042 E003 0.0000000       2 113158127 113158176 50 +      
ENSMUSG00000044042 E004 0.0000000       2 113194181 113194184 4 +      
ENSMUSG00000044042 E005 0.6599196 0.0183715636 0.3667693018   2 113194185 113196174 1990 + 0.284 0.131 -1.390
ENSMUSG00000044042 E006 0.0000000       2 113230804 113230902 99 +      
ENSMUSG00000044042 E007 0.0000000       2 113235475 113235578 104 +      
ENSMUSG00000044042 E008 0.0000000       2 113235579 113235698 120 +      
ENSMUSG00000044042 E009 0.0000000       2 113240239 113240595 357 +      
ENSMUSG00000044042 E010 0.0000000       2 113259982 113260157 176 +      
ENSMUSG00000044042 E011 57.2285105 0.0003579357 0.2119336251 0.7841534 2 113271409 113273004 1596 + 1.785 1.739 -0.155
ENSMUSG00000044042 E012 9.8599922 0.0019495271 0.5481044044 0.9370703 2 113274687 113274804 118 + 1.059 1.007 -0.192
ENSMUSG00000044042 E013 8.3750464 0.0027983911 0.3928307157 0.8873117 2 113309247 113309308 62 + 1.010 0.924 -0.320
ENSMUSG00000044042 E014 0.0000000       2 113328135 113328401 267 +      
ENSMUSG00000044042 E015 102.2532708 0.0002873661 0.0311979683 0.3984212 2 113355496 113356286 791 + 2.041 1.979 -0.207
ENSMUSG00000044042 E016 14.2950417 0.0015191196 0.8166809268 0.9841109 2 113359658 113359808 151 + 1.189 1.178 -0.038
ENSMUSG00000044042 E017 6.5637825 0.0482780339 0.6454633218 0.9566871 2 113393628 113393715 88 + 0.907 0.844 -0.240
ENSMUSG00000044042 E018 10.0397884 0.0020069481 0.4735428943 0.9212309 2 113412443 113412504 62 + 1.071 1.007 -0.234
ENSMUSG00000044042 E019 12.8307596 0.0029022187 0.6807416506 0.9627969 2 113414376 113414464 89 + 1.153 1.125 -0.102
ENSMUSG00000044042 E020 11.0307154 0.0017214543 0.0179617578 0.3040507 2 113423432 113423561 130 + 1.171 0.942 -0.838
ENSMUSG00000044042 E021 15.6039523 0.0015466023 0.4285561468 0.9067191 2 113425368 113425514 147 + 1.246 1.188 -0.203
ENSMUSG00000044042 E022 2.9642499 0.0073325894 0.0970502892 0.6318932 2 113426678 113426737 60 + 0.699 0.441 -1.184
ENSMUSG00000044042 E023 0.0000000       2 113429914 113430021 108 +      
ENSMUSG00000044042 E024 7.5580949 0.0280790142 0.8841706497 0.9931669 2 113433514 113433634 121 + 0.939 0.924 -0.054
ENSMUSG00000044042 E025 10.1865822 0.0443352539 0.1810541964 0.7603324 2 113467077 113467169 93 + 1.124 0.941 -0.668
ENSMUSG00000044042 E026 0.0000000       2 113515435 113515449 15 +      
ENSMUSG00000044042 E027 0.0000000       2 113515450 113515537 88 +      
ENSMUSG00000044042 E028 0.3321731 0.3193465008 0.3086791017   2 113515538 113516225 688 + 0.208 0.000 -12.530
ENSMUSG00000044042 E029 0.1615462 0.0346734186 0.4404668487   2 113516226 113516250 25 + 0.000 0.131 11.606
ENSMUSG00000044042 E030 0.1615462 0.0346734186 0.4404668487   2 113516251 113516822 572 + 0.000 0.131 11.606
ENSMUSG00000044042 E031 0.0000000       2 113518087 113518148 62 +      
ENSMUSG00000044042 E032 9.1907748 0.0550492451 0.8661328978 0.9889212 2 113518454 113518505 52 + 1.010 1.006 -0.013
ENSMUSG00000044042 E033 12.8462053 0.0015039067 0.9757617071 1.0000000 2 113523354 113523503 150 + 1.134 1.147 0.047
ENSMUSG00000044042 E034 10.1969472 0.0477797494 0.9901994972 1.0000000 2 113538208 113538292 85 + 1.035 1.063 0.102
ENSMUSG00000044042 E035 0.4971907 0.6442284087 0.2520488836   2 113539016 113539174 159 + 0.000 0.314 12.367
ENSMUSG00000044042 E036 598.9333526 0.0010112702 0.0003683045 0.0226976 2 113539761 113547112 7352 + 2.755 2.801 0.154

Help

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