ENSG00000122958

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
ENST00000263559 ENSG00000122958 HEK293_OSMI2_2hA HEK293_TMG_2hB VPS26A protein_coding protein_coding 37.53054 13.98469 66.81207 0.6439992 2.801352 2.255445 17.08411 11.279319 28.22266 0.7267515 1.5753976 1.322407 0.5701833 0.8099333 0.4221333 -0.3878000 8.300999e-03 2.732711e-46 FALSE TRUE
ENST00000489656 ENSG00000122958 HEK293_OSMI2_2hA HEK293_TMG_2hB VPS26A protein_coding nonsense_mediated_decay 37.53054 13.98469 66.81207 0.6439992 2.801352 2.255445 11.68075 1.939022 19.13055 1.0420585 1.0895402 3.295810 0.2621458 0.1344333 0.2860667 0.1516333 6.178455e-01 2.732711e-46 FALSE FALSE
ENST00000497564 ENSG00000122958 HEK293_OSMI2_2hA HEK293_TMG_2hB VPS26A protein_coding processed_transcript 37.53054 13.98469 66.81207 0.6439992 2.801352 2.255445 7.36747 0.000000 17.23704 0.0000000 0.9935564 10.752133 0.1252875 0.0000000 0.2582667 0.2582667 2.732711e-46 2.732711e-46 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.

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
ENSG00000122958 E001 1.1782197 0.0111084602 5.000907e-02 1.091921e-01 10 69123512 69123546 35 + 0.380 0.000 -10.615
ENSG00000122958 E002 3.1837427 0.0049353751 7.352865e-01 8.260756e-01 10 69123660 69124151 492 + 0.580 0.605 0.111
ENSG00000122958 E003 0.4470576 0.0218637571 8.055293e-01 8.763559e-01 10 69124152 69124155 4 + 0.130 0.205 0.788
ENSG00000122958 E004 1.5187126 0.0154629604 6.095754e-01 7.290573e-01 10 69124156 69124177 22 + 0.380 0.344 -0.211
ENSG00000122958 E005 3.6599332 0.0055435758 2.351323e-01 3.685085e-01 10 69124178 69124185 8 + 0.653 0.534 -0.532
ENSG00000122958 E006 21.0177366 0.0013859015 1.152624e-02 3.240982e-02 10 69124186 69124211 26 + 1.314 1.191 -0.431
ENSG00000122958 E007 62.5463573 0.0079238117 3.646736e-05 2.122272e-04 10 69124212 69124245 34 + 1.785 1.601 -0.624
ENSG00000122958 E008 122.3499928 0.0080163351 6.250729e-05 3.437592e-04 10 69124246 69124280 35 + 2.063 1.935 -0.427
ENSG00000122958 E009 310.9655791 0.0008938654 2.144716e-13 5.815229e-12 10 69132898 69133047 150 + 2.457 2.369 -0.296
ENSG00000122958 E010 266.9447813 0.0001899690 5.212185e-14 1.544070e-12 10 69155812 69155887 76 + 2.390 2.307 -0.278
ENSG00000122958 E011 365.5064698 0.0001421455 2.920244e-14 8.967929e-13 10 69157007 69157163 157 + 2.520 2.467 -0.177
ENSG00000122958 E012 291.3728616 0.0002140122 5.028644e-03 1.601031e-02 10 69158047 69158211 165 + 2.397 2.439 0.139
ENSG00000122958 E013 226.1254201 0.0048377050 2.360808e-01 3.696326e-01 10 69162406 69162512 107 + 2.252 2.405 0.509
ENSG00000122958 E014 250.7309380 0.0048888545 6.925903e-01 7.937974e-01 10 69166042 69166110 69 + 2.318 2.405 0.292
ENSG00000122958 E015 364.7376493 0.0030220983 9.862980e-02 1.884074e-01 10 69168489 69168631 143 + 2.490 2.543 0.174
ENSG00000122958 E016 4.6712077 0.0196652641 3.945397e-01 5.383606e-01 10 69170034 69170369 336 + 0.716 0.666 -0.209
ENSG00000122958 E017 1527.4905742 0.0095742713 1.543771e-06 1.230283e-05 10 69171156 69174412 3257 + 3.048 3.297 0.826