ENSG00000139977

1 Isoform Switch

Summary Plot

Only the isoforms with fraction > 5% are shown below.

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
ENST00000556492 ENSG00000139977 HEK293_OSMI2_6hA HEK293_TMG_6hB NAA30 protein_coding protein_coding 4.953476 1.787203 7.7124 0.3504989 0.176654 2.103296 4.829556 1.787203 7.303937 0.3504989 0.08797677 2.024895 0.979325 1 0.9475333 -0.05246667 0.02174937 0.02174937 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.

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 HEK293_TMG_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000139977 E001 0.3807181 0.0320436999 3.733990e-01   14 57390544 57390585 42 + 0.071 0.201 1.727
ENSG00000139977 E002 0.5421338 0.0215217893 6.646216e-01   14 57390586 57390587 2 + 0.132 0.201 0.729
ENSG00000139977 E003 0.6847684 0.0187416005 9.416786e-01   14 57390588 57390588 1 + 0.185 0.201 0.145
ENSG00000139977 E004 7.9389297 0.0039491783 4.309292e-02 0.1628220420 14 57390589 57390705 117 + 0.824 1.063 0.896
ENSG00000139977 E005 39.6243888 0.0011317876 5.406439e-04 0.0060424150 14 57390957 57391300 344 + 1.486 1.686 0.685
ENSG00000139977 E006 47.8478084 0.0009519077 6.002271e-03 0.0397342545 14 57391301 57391506 206 + 1.580 1.726 0.496
ENSG00000139977 E007 65.5593821 0.0011114311 1.183095e-01 0.3130789958 14 57391507 57391728 222 + 1.734 1.805 0.239
ENSG00000139977 E008 71.2588971 0.0007904766 3.920814e-01 0.6221153198 14 57396752 57396875 124 + 1.779 1.813 0.116
ENSG00000139977 E009 57.2863871 0.0006898168 5.592205e-01 0.7427305476 14 57399828 57399883 56 + 1.692 1.717 0.084
ENSG00000139977 E010 725.5134280 0.0005047382 1.919282e-06 0.0000503224 14 57409379 57415906 6528 + 2.802 2.752 -0.168