ENSMUSG00000074657

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
ENSMUST00000099172 ENSMUSG00000074657 Control shVgll3 Kif5a protein_coding protein_coding 0.4910776 0.5282809 0.4538742 0.07656501 0.03370813 -0.2146256 0.1960656 0.1082888 0.2838425 0.04506736 0.04486059 1.3127295 0.4074500 0.1979000 0.6170000 0.4191000 0.2288886361 0.0005795633 FALSE TRUE
ENSMUST00000217895 ENSMUSG00000074657 Control shVgll3 Kif5a protein_coding protein_coding 0.4910776 0.5282809 0.4538742 0.07656501 0.03370813 -0.2146256 0.1343816 0.1031779 0.1655853 0.01707877 0.01347444 0.6335793 0.2887167 0.2039000 0.3735333 0.1696333 0.9706656688 0.0005795633 FALSE TRUE
ENSMUST00000218298 ENSMUSG00000074657 Control shVgll3 Kif5a protein_coding nonsense_mediated_decay 0.4910776 0.5282809 0.4538742 0.07656501 0.03370813 -0.2146256 0.1584071 0.3168142 0.0000000 0.05581169 0.00000000 -5.0303987 0.2991167 0.5982333 0.0000000 -0.5982333 0.0005795633 0.0005795633 FALSE 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
ENSMUSG00000074657 E001 19.0592463 0.043989026 3.467689e-04 0.0216925274 10 127061565 127063596 2032 - 1.390 1.006 -1.366
ENSMUSG00000074657 E002 1.9723207 0.216679499 2.685817e-01 0.8176563390 10 127063597 127063799 203 - 0.542 0.273 -1.506
ENSMUSG00000074657 E003 3.9587564 0.006449902 4.837815e-01 0.9239777708 10 127063800 127064290 491 - 0.718 0.608 -0.468
ENSMUSG00000074657 E004 8.4064345 0.002600192 7.503410e-03 0.1891700236 10 127064919 127065613 695 - 1.049 0.729 -1.224
ENSMUSG00000074657 E005 2.1427942 0.009566138 1.026883e-01 0.6399825085 10 127065614 127065725 112 - 0.572 0.272 -1.647
ENSMUSG00000074657 E006 0.4941893 0.021934534 2.201073e-01   10 127066018 127066045 28 - 0.242 0.000 -14.206
ENSMUSG00000074657 E007 1.6474025 0.255143054 7.716033e-01 0.9779906794 10 127066438 127066505 68 - 0.396 0.439 0.232
ENSMUSG00000074657 E008 0.9816168 0.048647221 1.336929e-01 0.6913966820 10 127066793 127066946 154 - 0.175 0.438 1.813
ENSMUSG00000074657 E009 0.9781748 0.175607629 4.699519e-02 0.4787977019 10 127067161 127067377 217 - 0.096 0.502 3.129
ENSMUSG00000074657 E010 0.3319899 0.028275071 6.696431e-01   10 127069686 127069790 105 - 0.096 0.157 0.812
ENSMUSG00000074657 E011 0.3318168 0.029205618 6.644656e-01   10 127069916 127069987 72 - 0.096 0.157 0.812
ENSMUSG00000074657 E012 0.4977201 0.023770961 2.814657e-01   10 127071486 127071546 61 - 0.096 0.272 1.812
ENSMUSG00000074657 E013 0.9924586 0.072085067 8.979500e-01 0.9956322532 10 127071923 127072024 102 - 0.300 0.272 -0.190
ENSMUSG00000074657 E014 0.3321731 0.423542611 5.317340e-01   10 127072590 127072699 110 - 0.175 0.000 -13.457
ENSMUSG00000074657 E015 0.0000000       10 127072801 127072813 13 -      
ENSMUSG00000074657 E016 0.1659033 0.034445097 2.727202e-01   10 127072814 127072865 52 - 0.000 0.157 12.762
ENSMUSG00000074657 E017 0.4935361 0.022865188 2.833886e-01   10 127073166 127073283 118 - 0.096 0.272 1.812
ENSMUSG00000074657 E018 0.3272567 0.028020376 6.683769e-01   10 127073586 127073711 126 - 0.096 0.157 0.812
ENSMUSG00000074657 E019 0.0000000       10 127073712 127073774 63 -      
ENSMUSG00000074657 E020 0.3324796 0.030702426 6.621380e-01   10 127074614 127074760 147 - 0.096 0.157 0.812
ENSMUSG00000074657 E021 0.3318168 0.029205618 6.644656e-01   10 127075043 127075249 207 - 0.096 0.157 0.812
ENSMUSG00000074657 E022 0.3318168 0.029205618 6.644656e-01   10 127075698 127075766 69 - 0.096 0.157 0.812
ENSMUSG00000074657 E023 1.1541880 0.409953779 7.963588e-01 0.9810079907 10 127077800 127077975 176 - 0.352 0.272 -0.521
ENSMUSG00000074657 E024 0.9867063 0.015833844 4.803055e-01 0.9232799352 10 127078527 127078675 149 - 0.242 0.363 0.812
ENSMUSG00000074657 E025 0.3318067 0.134325096 1.027613e-01   10 127079229 127079377 149 - 0.000 0.272 13.521
ENSMUSG00000074657 E026 0.1615462 0.035319472 2.719898e-01   10 127079517 127079621 105 - 0.000 0.157 12.761
ENSMUSG00000074657 E027 0.1659033 0.034445097 2.727202e-01   10 127081219 127081343 125 - 0.000 0.157 12.762
ENSMUSG00000074657 E028 0.6651324 0.029348958 5.610330e-01   10 127081574 127081661 88 - 0.175 0.272 0.812
ENSMUSG00000074657 E029 0.3326527 0.027760606 6.673487e-01   10 127081816 127081871 56 - 0.096 0.157 0.812
ENSMUSG00000074657 E030 0.1659033 0.034445097 2.727202e-01   10 127082901 127082949 49 - 0.000 0.157 12.762
ENSMUSG00000074657 E031 0.8209857 0.017554024 4.510238e-02 0.4732783659 10 127083392 127083496 105 - 0.096 0.438 2.812
ENSMUSG00000074657 E032 1.1484352 0.014949627 6.791571e-03 0.1757694541 10 127083899 127083972 74 - 0.096 0.558 3.397
ENSMUSG00000074657 E033 0.8120882 0.197895255 1.030049e-02 0.2197382926 10 127084061 127084148 88 - 0.000 0.502 14.529
ENSMUSG00000074657 E034 7.0839054 0.003201807 1.927619e-06 0.0002591872 10 127098637 127099217 581 - 0.626 1.149 2.018

Help

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