ENSG00000188859

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
ENST00000338353 ENSG00000188859 HEK293_OSMI2_2hA HEK293_TMG_2hB FAM78B protein_coding protein_coding 0.7672352 1.202608 0.6176638 0.2004325 0.06918142 -0.9500498 0.32000795 0.68437064 0.17935536 0.34763879 0.02354304 -1.8746097 0.3405000 0.487966667 0.2971000 -0.19086667 0.81946742 0.01671793 FALSE TRUE
ENST00000354422 ENSG00000188859 HEK293_OSMI2_2hA HEK293_TMG_2hB FAM78B protein_coding protein_coding 0.7672352 1.202608 0.6176638 0.2004325 0.06918142 -0.9500498 0.12866168 0.15821347 0.00000000 0.10284261 0.00000000 -4.0722213 0.1759667 0.175466667 0.0000000 -0.17546667 0.44835184 0.01671793 FALSE TRUE
ENST00000435676 ENSG00000188859 HEK293_OSMI2_2hA HEK293_TMG_2hB FAM78B protein_coding nonsense_mediated_decay 0.7672352 1.202608 0.6176638 0.2004325 0.06918142 -0.9500498 0.23039013 0.34889112 0.23292394 0.05551417 0.04995548 -0.5630416 0.3344208 0.329000000 0.3951333 0.06613333 0.84877044 0.01671793 TRUE TRUE
ENST00000441649 ENSG00000188859 HEK293_OSMI2_2hA HEK293_TMG_2hB FAM78B protein_coding nonsense_mediated_decay 0.7672352 1.202608 0.6176638 0.2004325 0.06918142 -0.9500498 0.02496252 0.01113316 0.08320571 0.01113316 0.01308281 2.1409098 0.0389625 0.007566667 0.1383667 0.13080000 0.01671793 0.01671793 TRUE TRUE
ENST00000456900 ENSG00000188859 HEK293_OSMI2_2hA HEK293_TMG_2hB FAM78B protein_coding nonsense_mediated_decay 0.7672352 1.202608 0.6176638 0.2004325 0.06918142 -0.9500498 0.06321291 0.00000000 0.12217878 0.00000000 0.12217878 3.7244187 0.1101458 0.000000000 0.1694333 0.16943333 0.70777168 0.01671793 TRUE 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
ENSG00000188859 E001 20.3015517 0.052907989 0.827412683 0.89148079 1 166057426 166059688 2263 - 1.289 1.301 0.042
ENSG00000188859 E002 2.8066385 0.009981548 0.131661900 0.23645746 1 166059689 166059900 212 - 0.687 0.474 -0.965
ENSG00000188859 E003 7.0566079 0.010037754 0.000838317 0.00339596 1 166059901 166060663 763 - 1.085 0.717 -1.405
ENSG00000188859 E004 0.4428904 0.517052285 0.562321816 0.68996231 1 166069299 166069511 213 - 0.000 0.183 9.280
ENSG00000188859 E005 1.1468953 0.011354209 0.232405908 0.36530377 1 166069512 166069831 320 - 0.434 0.241 -1.210
ENSG00000188859 E006 0.2998086 0.028693156 0.646124582   1 166069832 166069834 3 - 0.155 0.096 -0.799
ENSG00000188859 E007 3.7514530 0.010222456 0.396736048 0.54050939 1 166069835 166070019 185 - 0.723 0.624 -0.418
ENSG00000188859 E008 36.1313234 0.024153450 0.033737945 0.07923085 1 166070020 166070763 744 - 1.420 1.595 0.600
ENSG00000188859 E009 12.4612621 0.001547306 0.520168448 0.65417556 1 166165986 166166719 734 - 1.036 1.126 0.325
ENSG00000188859 E010 0.9932890 0.221840566 0.525910488 0.65922192 1 166166720 166166850 131 - 0.155 0.307 1.263
ENSG00000188859 E011 0.4762024 0.026956212 0.269533304 0.40802490 1 166166851 166167001 151 - 0.269 0.096 -1.795