ENSG00000049245

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
ENST00000054666 ENSG00000049245 HEK293_OSMI2_2hA HEK293_TMG_2hB VAMP3 protein_coding protein_coding 75.17535 77.25572 81.92831 5.882609 3.975088 0.08470959 63.199972 70.777991 64.22752 5.9296014 1.831530 -0.1400884 0.84133750 0.91530000 0.7855000 -0.12980000 1.623153e-05 1.623153e-05 FALSE FALSE
MSTRG.211.1 ENSG00000049245 HEK293_OSMI2_2hA HEK293_TMG_2hB VAMP3 protein_coding   75.17535 77.25572 81.92831 5.882609 3.975088 0.08470959 6.627563 3.310708 11.46153 0.5417664 1.956705 1.7884947 0.08771667 0.04393333 0.1386667 0.09473333 1.080077e-03 1.623153e-05 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.

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_2hB HEK293_OSMI2_2hA log2fold_HEK293_OSMI2_2hA_HEK293_TMG_2hB
ENSG00000049245 E001 19.018208 0.0068609702 7.986569e-02 1.593520e-01 1 7771275 7771295 21 + 1.323 1.280 -0.151
ENSG00000049245 E002 313.249389 0.0032633843 6.052724e-06 4.229227e-05 1 7771296 7771385 90 + 2.518 2.477 -0.137
ENSG00000049245 E003 44.795473 0.0007633210 3.858148e-07 3.488186e-06 1 7772707 7773198 492 + 1.732 1.577 -0.526
ENSG00000049245 E004 433.524041 0.0031253482 7.945527e-07 6.742469e-06 1 7773442 7773511 70 + 2.659 2.618 -0.137
ENSG00000049245 E005 6.890347 0.0023925932 1.515097e-02 4.082879e-02 1 7777097 7777159 63 + 0.986 0.800 -0.710
ENSG00000049245 E006 662.962446 0.0020320905 8.896724e-11 1.583035e-09 1 7777160 7777318 159 + 2.844 2.802 -0.141
ENSG00000049245 E007 342.559347 0.0001557472 1.327966e-12 3.191819e-11 1 7778118 7778169 52 + 2.548 2.530 -0.062
ENSG00000049245 E008 3.478239 0.0063019402 1.847026e-02 4.816429e-02 1 7778727 7778914 188 + 0.763 0.495 -1.173
ENSG00000049245 E009 3415.487494 0.0043258763 1.606752e-11 3.233765e-10 1 7779626 7781432 1807 + 3.424 3.619 0.648