ENSG00000122958

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
ENST00000263559 ENSG00000122958 No_inf pgKDN_inf VPS26A protein_coding protein_coding 21.8981 15.61167 26.98996 0.6646817 1.541891 0.7894082 11.980857 10.144606 13.849244 0.4049020 0.2729284 0.4487142 0.56409167 0.653325 0.519950 -0.133375 0.51949361 0.02519183 FALSE TRUE
ENST00000467852 ENSG00000122958 No_inf pgKDN_inf VPS26A protein_coding protein_coding_CDS_not_defined 21.8981 15.61167 26.98996 0.6646817 1.541891 0.7894082 7.017462 5.236747 6.237054 0.9279588 2.1932097 0.2517529 0.32481667 0.331000 0.225925 -0.105075 0.81930122 0.02519183 FALSE FALSE
ENST00000489656 ENSG00000122958 No_inf pgKDN_inf VPS26A protein_coding nonsense_mediated_decay 21.8981 15.61167 26.98996 0.6646817 1.541891 0.7894082 2.430766 0.000000 6.056427 0.0000000 2.1008038 9.2447032 0.08988333 0.000000 0.220875 0.220875 0.02519183 0.02519183 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 pgKDN.inf No.inf log2fold_No.inf_pgKDN.inf
ENSG00000122958 E001 0.1176306 0.0117879617 0.7271133511   10 69123512 69123546 35 + 0.083 0.000 -8.593
ENSG00000122958 E002 0.4719759 0.0151480626 0.0874699433   10 69123660 69124151 492 + 0.266 0.000 -12.365
ENSG00000122958 E003 0.0000000       10 69124152 69124155 4 +      
ENSG00000122958 E004 0.0000000       10 69124156 69124177 22 +      
ENSG00000122958 E005 0.0000000       10 69124178 69124185 8 +      
ENSG00000122958 E006 0.2357071 0.0156630378 0.3640345349   10 69124186 69124211 26 + 0.153 0.000 -11.423
ENSG00000122958 E007 2.6839907 0.0059576590 0.7832727643 0.9165837 10 69124212 69124245 34 + 0.549 0.584 0.160
ENSG00000122958 E008 6.7073812 0.0022228505 0.6624308400 0.8592904 10 69124246 69124280 35 + 0.866 0.908 0.160
ENSG00000122958 E009 20.0344843 0.0007658544 0.2492934541 0.5401597 10 69132898 69133047 150 + 1.353 1.275 -0.272
ENSG00000122958 E010 13.4042055 0.0270324597 0.9394049364 0.9827346 10 69155812 69155887 76 + 1.162 1.147 -0.054
ENSG00000122958 E011 21.4716649 0.0006983100 0.1093178129 0.3470213 10 69157007 69157163 157 + 1.392 1.288 -0.362
ENSG00000122958 E012 23.7311425 0.0120130501 0.1092659099 0.3470102 10 69158047 69158211 165 + 1.441 1.319 -0.424
ENSG00000122958 E013 20.1223778 0.0015031083 0.1274696882 0.3785766 10 69162406 69162512 107 + 1.365 1.262 -0.360
ENSG00000122958 E014 18.5991922 0.0010266080 0.4979617644 0.7584923 10 69166042 69166110 69 + 1.311 1.262 -0.169
ENSG00000122958 E015 23.6406830 0.0005954973 0.9420010951 0.9836326 10 69168489 69168631 143 + 1.388 1.390 0.004
ENSG00000122958 E016 0.9804882 0.0119950152 0.6751672482 0.8654246 10 69170034 69170369 336 + 0.266 0.329 0.423
ENSG00000122958 E017 189.4482066 0.0001639872 0.0006607885 0.0108424 10 69171156 69174412 3257 + 2.255 2.303 0.159

Help

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