ENSG00000104643

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
ENST00000221086 ENSG00000104643 HEK293_OSMI2_2hA HEK293_TMG_2hB MTMR9 protein_coding protein_coding 2.80749 1.104341 4.75861 0.1576146 0.1194324 2.097378 2.66473598 1.104341 4.2674719 0.1576146 0.06598470 1.940567 0.9694208 1 0.8985 -0.1015 0.01166415 0.01166415 FALSE TRUE
ENST00000530200 ENSG00000104643 HEK293_OSMI2_2hA HEK293_TMG_2hB MTMR9 protein_coding nonsense_mediated_decay 2.80749 1.104341 4.75861 0.1576146 0.1194324 2.097378 0.05699517 0.000000 0.2567339 0.0000000 0.09883943 4.737329 0.0120375 0 0.0530 0.0530 0.08952164 0.01166415 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
ENSG00000104643 E001 3.1044475 0.0373841343 0.65804723 0.76726883 8 11284816 11284826 11 + 0.537 0.608 0.324
ENSG00000104643 E002 22.6334740 0.0008865147 0.32595390 0.46939650 8 11284827 11285070 244 + 1.338 1.255 -0.290
ENSG00000104643 E003 0.1515154 0.0434866705 1.00000000   8 11285094 11285316 223 + 0.070 0.000 -8.650
ENSG00000104643 E004 0.2987644 0.0272471479 1.00000000   8 11294775 11295193 419 + 0.130 0.000 -9.780
ENSG00000104643 E005 22.9127990 0.0008633926 0.26459902 0.40256542 8 11295194 11295302 109 + 1.348 1.255 -0.327
ENSG00000104643 E006 1.3275450 0.0096765512 0.06794160 0.13995447 8 11297900 11297951 52 + 0.410 0.000 -12.038
ENSG00000104643 E007 26.0879678 0.0007731338 0.36703959 0.51140755 8 11300023 11300148 126 + 1.393 1.323 -0.246
ENSG00000104643 E008 2.8288679 0.0105576723 0.04211852 0.09494107 8 11300149 11300777 629 + 0.617 0.206 -2.374
ENSG00000104643 E009 31.3436337 0.0007244104 0.25364077 0.39020247 8 11304841 11305014 174 + 1.474 1.392 -0.284
ENSG00000104643 E010 36.6795609 0.0006245311 0.10279450 0.19475273 8 11306190 11306407 218 + 1.551 1.442 -0.374
ENSG00000104643 E011 37.8289570 0.0005948928 0.18131125 0.30288675 8 11309527 11309688 162 + 1.557 1.470 -0.300
ENSG00000104643 E012 35.9881323 0.0006363068 0.92923433 0.95950592 8 11314923 11315064 142 + 1.518 1.512 -0.019
ENSG00000104643 E013 38.5462135 0.0006487601 0.31465560 0.45738874 8 11316673 11316893 221 + 1.525 1.587 0.212
ENSG00000104643 E014 26.2970471 0.0058520340 0.17290473 0.29196630 8 11319687 11319838 152 + 1.352 1.460 0.376
ENSG00000104643 E015 353.0094034 0.0002578616 0.02263384 0.05698981 8 11322625 11328146 5522 + 2.486 2.519 0.112