ENSG00000163960

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
ENST00000296328 ENSG00000163960 HEK293_OSMI2_2hA HEK293_TMG_2hB UBXN7 protein_coding protein_coding 5.992642 2.223607 9.366413 0.2415299 0.07041715 2.069661 4.9995242 1.9476260 7.8378193 0.17715659 0.23337032 2.0031866 0.86808333 0.8800667 0.83683333 -0.04323333 6.718868e-01 4.281447e-05 FALSE TRUE
ENST00000429160 ENSG00000163960 HEK293_OSMI2_2hA HEK293_TMG_2hB UBXN7 protein_coding nonsense_mediated_decay 5.992642 2.223607 9.366413 0.2415299 0.07041715 2.069661 0.6712628 0.0130512 0.9267503 0.01305120 0.08270155 5.3447509 0.07545417 0.0075000 0.09893333 0.09143333 4.281447e-05 4.281447e-05 FALSE TRUE
ENST00000493566 ENSG00000163960 HEK293_OSMI2_2hA HEK293_TMG_2hB UBXN7 protein_coding retained_intron 5.992642 2.223607 9.366413 0.2415299 0.07041715 2.069661 0.2245821 0.2183428 0.3833987 0.05505892 0.08615340 0.7847907 0.04250833 0.0947000 0.04083333 -0.05386667 1.099428e-01 4.281447e-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
ENSG00000163960 E001 880.358942 0.0032889111 1.251484e-06 1.018165e-05 3 196347662 196354876 7215 - 2.836 2.960 0.414
ENSG00000163960 E002 231.028604 0.0003812651 8.511228e-01 9.076879e-01 3 196354877 196356565 1689 - 2.277 2.323 0.155
ENSG00000163960 E003 27.817807 0.0010711582 7.898339e-01 8.655583e-01 3 196356566 196356617 52 - 1.380 1.410 0.103
ENSG00000163960 E004 26.239685 0.0008248631 9.444622e-01 9.691767e-01 3 196356618 196356661 44 - 1.354 1.398 0.156
ENSG00000163960 E005 49.134104 0.0023363973 3.947723e-02 9.006313e-02 3 196356662 196356846 185 - 1.643 1.560 -0.282
ENSG00000163960 E006 38.935024 0.0085209824 2.997931e-02 7.192050e-02 3 196361844 196361923 80 - 1.551 1.421 -0.447
ENSG00000163960 E007 66.377582 0.0005783402 1.692478e-03 6.259305e-03 3 196362294 196362544 251 - 1.775 1.654 -0.409
ENSG00000163960 E008 42.802795 0.0012432828 4.875796e-02 1.069561e-01 3 196362545 196362687 143 - 1.583 1.501 -0.280
ENSG00000163960 E009 36.558402 0.0005618869 8.807149e-03 2.580242e-02 3 196368028 196368155 128 - 1.527 1.387 -0.484
ENSG00000163960 E010 29.117803 0.0006814708 6.916240e-03 2.100787e-02 3 196369421 196369511 91 - 1.437 1.264 -0.601
ENSG00000163960 E011 39.317535 0.0007196053 1.010326e-05 6.706253e-05 3 196371896 196372042 147 - 1.579 1.294 -0.983
ENSG00000163960 E012 17.626334 0.0010246629 7.644350e-02 1.538117e-01 3 196391813 196391837 25 - 1.223 1.092 -0.468
ENSG00000163960 E013 33.917444 0.0006334175 1.627482e-02 4.333281e-02 3 196391838 196391925 88 - 1.493 1.362 -0.452
ENSG00000163960 E014 25.673950 0.0008573646 1.241755e-02 3.454127e-02 3 196393554 196393580 27 - 1.383 1.214 -0.592
ENSG00000163960 E015 29.276650 0.0006737964 3.435909e-02 8.044533e-02 3 196393581 196393619 39 - 1.429 1.309 -0.417
ENSG00000163960 E016 7.035453 0.0028833119 3.225662e-05 1.903713e-04 3 196400129 196400732 604 - 0.652 1.195 2.073
ENSG00000163960 E017 36.902667 0.0005878242 3.289224e-02 7.758621e-02 3 196402952 196403019 68 - 1.523 1.421 -0.351
ENSG00000163960 E018 42.098297 0.0005422016 5.619651e-01 6.896727e-01 3 196407246 196407393 148 - 1.555 1.569 0.047
ENSG00000163960 E019 0.147249 0.0444755489 1.000000e+00   3 196414645 196414684 40 - 0.064 0.000 -7.395
ENSG00000163960 E020 0.000000       3 196416157 196416235 79 -      
ENSG00000163960 E021 21.894519 0.0039328807 4.469418e-01 5.883871e-01 3 196432327 196432566 240 - 1.258 1.374 0.405