ENSG00000169439

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
ENST00000302190 ENSG00000169439 pgwt_inf pgKDN_inf SDC2 protein_coding protein_coding 726.6585 918.2473 988.9701 13.08227 3.6919 0.1070431 689.13416 841.09213 962.3188 4.013762 3.036024 0.194249 0.9524833 0.916350 0.973075 0.056725 1.833275e-11 1.833275e-11 FALSE  
ENST00000520233 ENSG00000169439 pgwt_inf pgKDN_inf SDC2 protein_coding protein_coding_CDS_not_defined 726.6585 918.2473 988.9701 13.08227 3.6919 0.1070431 24.71594 64.01252 10.1353 8.397103 5.940986 -2.657767 0.0265250 0.069375 0.010200 -0.059175 6.853065e-01 1.833275e-11 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 pgKDN.inf pgwt.inf log2fold_pgwt.inf_pgKDN.inf
ENSG00000169439 E001 870.2869891 2.559126e-05 1.722929e-01 7.906475e-01 8 96493813 96494007 195 + 2.935 2.945 0.035
ENSG00000169439 E002 594.6447962 4.475440e-05 2.725534e-01 8.584877e-01 8 96494008 96494043 36 + 2.770 2.780 0.034
ENSG00000169439 E003 2018.0134279 2.155023e-05 1.069489e-06 7.780958e-04 8 96494044 96494331 288 + 3.291 3.319 0.096
ENSG00000169439 E004 1.3616190 9.337219e-03 7.885026e-01   8 96494332 96494335 4 + 0.393 0.350 -0.249
ENSG00000169439 E005 5.9197582 6.375774e-02 9.705018e-01 9.972569e-01 8 96529193 96529271 79 + 0.853 0.826 -0.105
ENSG00000169439 E006 7.0352321 6.571094e-02 9.065284e-01 9.920871e-01 8 96537300 96537425 126 + 0.922 0.886 -0.136
ENSG00000169439 E007 2.4888309 1.771141e-02 4.099663e-01   8 96538696 96538816 121 + 0.596 0.474 -0.571
ENSG00000169439 E008 0.0000000       8 96580349 96580568 220 +      
ENSG00000169439 E009 0.7386683 1.445349e-02 9.824968e-01   8 96584945 96585013 69 + 0.239 0.241 0.014
ENSG00000169439 E010 1.4895262 9.268584e-03 5.890181e-01   8 96586387 96586544 158 + 0.434 0.350 -0.471
ENSG00000169439 E011 1372.9424410 2.423026e-05 4.141920e-05 1.287783e-02 8 96593480 96593591 112 + 3.123 3.153 0.099
ENSG00000169439 E012 1627.5903093 2.118570e-05 4.098144e-05 1.285157e-02 8 96602395 96602528 134 + 3.198 3.225 0.089
ENSG00000169439 E013 1408.4881017 2.001891e-05 8.490524e-03 3.269024e-01 8 96608335 96608470 136 + 3.140 3.158 0.058
ENSG00000169439 E014 9585.7694217 4.065194e-05 3.107632e-19 2.260927e-15 8 96609385 96611790 2406 + 3.993 3.968 -0.085

Help

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