ENSG00000123545

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
ENST00000316149 ENSG00000123545 HEK293_OSMI2_6hA HEK293_TMG_6hB NDUFAF4 protein_coding protein_coding 63.42533 38.89551 72.73325 10.45477 4.27731 0.9028389 7.93512 2.632518 10.01758 0.7090078 0.4356921 1.9239876 0.1193500 0.0676000 0.1383333 0.07073333 8.422935e-05 8.422935e-05 FALSE TRUE
ENST00000478382 ENSG00000123545 HEK293_OSMI2_6hA HEK293_TMG_6hB NDUFAF4 protein_coding processed_transcript 63.42533 38.89551 72.73325 10.45477 4.27731 0.9028389 33.07371 20.861310 37.93975 5.9317601 1.5255591 0.8625692 0.5242833 0.5313000 0.5232000 -0.00810000 9.759257e-01 8.422935e-05   FALSE
ENST00000489477 ENSG00000123545 HEK293_OSMI2_6hA HEK293_TMG_6hB NDUFAF4 protein_coding processed_transcript 63.42533 38.89551 72.73325 10.45477 4.27731 0.9028389 22.41651 15.401681 24.77593 3.8602921 2.7804580 0.6854970 0.3563375 0.4010667 0.3384333 -0.06263333 5.392413e-01 8.422935e-05 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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000123545 E001 153.033131 0.0011930071 4.596899e-40 7.806592e-37 6 96889315 96891011 1697 - 2.298 1.804 -1.656
ENSG00000123545 E002 155.661727 0.0002805412 4.201061e-02 1.599562e-01 6 96891012 96891150 139 - 2.163 2.220 0.188
ENSG00000123545 E003 452.852240 0.0006882947 1.408785e-01 3.488744e-01 6 96891151 96891391 241 - 2.637 2.660 0.077
ENSG00000123545 E004 8.027192 0.0047970152 3.483818e-01 5.858203e-01 6 96896084 96896153 70 - 0.980 0.869 -0.420
ENSG00000123545 E005 317.063423 0.0002518875 4.394466e-03 3.134846e-02 6 96896744 96896847 104 - 2.473 2.525 0.175
ENSG00000123545 E006 6.524988 0.0078888426 9.484607e-01 9.764923e-01 6 96896848 96896918 71 - 0.879 0.868 -0.042
ENSG00000123545 E007 316.490918 0.0005714560 3.733974e-04 4.471895e-03 6 96897666 96897891 226 - 2.465 2.534 0.229