ENSG00000104142

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
ENST00000220509 ENSG00000104142 No_inf pgKDN_inf VPS18 protein_coding protein_coding 18.26308 14.09586 18.56212 1.296068 0.53751 0.3968436 5.501703 1.040718 10.270800 0.6350937 2.068478 3.290505 0.29657500 0.088625 0.56215 0.473525 0.0471867 0.0471867 FALSE TRUE
ENST00000558474 ENSG00000104142 No_inf pgKDN_inf VPS18 protein_coding protein_coding 18.26308 14.09586 18.56212 1.296068 0.53751 0.3968436 1.639695 0.000000 2.997921 0.0000000 1.745795 8.232623 0.08579167 0.000000 0.16060 0.160600 0.5258337 0.0471867 FALSE TRUE
MSTRG.9340.1 ENSG00000104142 No_inf pgKDN_inf VPS18 protein_coding   18.26308 14.09586 18.56212 1.296068 0.53751 0.3968436 4.668521 6.276476 1.875835 1.1118825 1.145561 -1.737048 0.26305833 0.433600 0.10100 -0.332600 0.1321010 0.0471867 FALSE TRUE
MSTRG.9340.5 ENSG00000104142 No_inf pgKDN_inf VPS18 protein_coding   18.26308 14.09586 18.56212 1.296068 0.53751 0.3968436 6.396464 6.740080 3.353105 0.8369342 1.971183 -1.005111 0.35162500 0.475475 0.17255 -0.302925 0.3364322 0.0471867 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 pgKDN.inf No.inf log2fold_No.inf_pgKDN.inf
ENSG00000104142 E001 0.2454921 0.0163422502 0.793849702   15 40894447 40894449 3 + 0.080 0.113 0.552
ENSG00000104142 E002 0.2454921 0.0163422502 0.793849702   15 40894450 40894451 2 + 0.080 0.113 0.552
ENSG00000104142 E003 0.6004640 0.0150410943 0.316937342 0.609705329 15 40894452 40894466 15 + 0.257 0.113 -1.448
ENSG00000104142 E004 14.2399543 0.0010919488 0.006293271 0.058402831 15 40894467 40894859 393 + 1.250 1.056 -0.693
ENSG00000104142 E005 0.0000000       15 40895892 40895937 46 +      
ENSG00000104142 E006 9.1264691 0.0097191685 0.799546893 0.924785270 15 40895938 40896079 142 + 1.004 0.995 -0.033
ENSG00000104142 E007 0.2455571 0.0164790125 0.794374596   15 40898658 40898811 154 + 0.080 0.113 0.552
ENSG00000104142 E008 7.5111559 0.0142074715 0.249846204 0.540781972 15 40898907 40898998 92 + 0.968 0.859 -0.413
ENSG00000104142 E009 3.8619444 0.0528590078 0.186964294 0.464860988 15 40899144 40899171 28 + 0.752 0.564 -0.802
ENSG00000104142 E010 4.1464337 0.0676042421 0.964976493 0.992649689 15 40899172 40899208 37 + 0.703 0.712 0.037
ENSG00000104142 E011 97.9632434 0.0002131444 0.012127793 0.091125715 15 40899209 40901014 1806 + 2.008 1.965 -0.144
ENSG00000104142 E012 129.3361044 0.0052582192 0.000500584 0.008757216 15 40902616 40903975 1360 + 2.061 2.169 0.364

Help

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