ENSG00000139173

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
ENST00000266534 ENSG00000139173 HEK293_OSMI2_2hA HEK293_TMG_2hB TMEM117 protein_coding protein_coding 3.591513 1.891669 6.175387 0.08130334 0.1516743 1.701598 2.23168955 0.64872797 3.6659911 0.33289342 0.07470240 2.4803786 0.61405000 0.35610000 0.5946667 0.23856667 0.666378388 0.003571856 FALSE TRUE
ENST00000546387 ENSG00000139173 HEK293_OSMI2_2hA HEK293_TMG_2hB TMEM117 protein_coding retained_intron 3.591513 1.891669 6.175387 0.08130334 0.1516743 1.701598 0.40841880 0.09810095 1.2457201 0.05132389 0.13803589 3.5380638 0.09275833 0.04980000 0.2008333 0.15103333 0.003571856 0.003571856   FALSE
ENST00000546868 ENSG00000139173 HEK293_OSMI2_2hA HEK293_TMG_2hB TMEM117 protein_coding nonsense_mediated_decay 3.591513 1.891669 6.175387 0.08130334 0.1516743 1.701598 0.57556109 0.46586004 0.8048981 0.04888464 0.02250214 0.7760823 0.14802500 0.24870000 0.1303667 -0.11833333 0.040619069 0.003571856 FALSE TRUE
ENST00000546978 ENSG00000139173 HEK293_OSMI2_2hA HEK293_TMG_2hB TMEM117 protein_coding processed_transcript 3.591513 1.891669 6.175387 0.08130334 0.1516743 1.701598 0.04293936 0.16395178 0.0000000 0.16395178 0.00000000 -4.1206155 0.05047500 0.08376667 0.0000000 -0.08376667 0.595298705 0.003571856 FALSE TRUE
MSTRG.7135.4 ENSG00000139173 HEK293_OSMI2_2hA HEK293_TMG_2hB TMEM117 protein_coding   3.591513 1.891669 6.175387 0.08130334 0.1516743 1.701598 0.17589631 0.44109526 0.0000000 0.44109526 0.00000000 -5.4953602 0.04560417 0.22193333 0.0000000 -0.22193333 0.632954955 0.003571856 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
ENSG00000139173 E001 4.5738187 0.0058612152 4.068460e-02 9.229467e-02 12 43835967 43836080 114 + 0.784 0.429 -1.592
ENSG00000139173 E002 2.3690085 0.0063889397 6.559913e-01 7.657532e-01 12 43836081 43836082 2 + 0.513 0.429 -0.422
ENSG00000139173 E003 8.2143875 0.0021064647 8.148796e-04 3.312374e-03 12 43836083 43836152 70 + 1.018 0.512 -2.066
ENSG00000139173 E004 8.6477301 0.0019284862 5.614475e-05 3.123958e-04 12 43836153 43836196 44 + 1.055 0.429 -2.619
ENSG00000139173 E005 9.0324577 0.0025062873 9.555974e-04 3.807179e-03 12 43844624 43844655 32 + 1.055 0.581 -1.882
ENSG00000139173 E006 21.0309904 0.0192323908 8.038604e-02 1.601642e-01 12 43844656 43844830 175 + 1.345 1.148 -0.692
ENSG00000139173 E007 11.1493580 0.0044962484 4.698661e-01 6.091012e-01 12 43844831 43844850 20 + 1.063 0.975 -0.321
ENSG00000139173 E008 20.3595132 0.0033552562 3.287910e-01 4.722867e-01 12 43844851 43844928 78 + 1.314 1.224 -0.315
ENSG00000139173 E009 0.2924217 0.0294156486 7.314426e-01   12 43844929 43844984 56 + 0.139 0.000 -11.670
ENSG00000139173 E010 30.6656945 0.0006789085 9.536811e-01 9.749876e-01 12 43944210 43944342 133 + 1.463 1.455 -0.027
ENSG00000139173 E011 0.1482932 0.0410520292 1.534100e-01   12 44073512 44073650 139 + 0.000 0.193 11.582
ENSG00000139173 E012 0.1482932 0.0410520292 1.534100e-01   12 44073651 44073832 182 + 0.000 0.193 11.582
ENSG00000139173 E013 0.5503986 0.0215244936 1.296365e-01 2.336394e-01 12 44083589 44083681 93 + 0.075 0.328 2.580
ENSG00000139173 E014 21.7719262 0.0008805096 4.067017e-01 5.503301e-01 12 44143525 44143624 100 + 1.337 1.265 -0.250
ENSG00000139173 E015 22.2523063 0.0010112702 7.108510e-01 8.079323e-01 12 44211290 44211387 98 + 1.337 1.303 -0.117
ENSG00000139173 E016 22.3058647 0.0189974317 6.088213e-01 7.284377e-01 12 44299580 44299739 160 + 1.344 1.290 -0.190
ENSG00000139173 E017 0.0000000       12 44318295 44318371 77 +      
ENSG00000139173 E018 21.3703059 0.0012267410 5.685215e-01 6.951918e-01 12 44376595 44376724 130 + 1.297 1.338 0.143
ENSG00000139173 E019 147.1471075 0.0002847364 1.774976e-08 2.089634e-07 12 44388026 44389762 1737 + 2.088 2.218 0.434