ENSG00000172878

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
ENST00000315796 ENSG00000172878 HEK293_OSMI2_2hA HEK293_TMG_2hB METAP1D protein_coding protein_coding 6.525369 5.47709 6.818786 0.1691773 0.2219434 0.3155878 4.1036994 4.2075550 4.1628142 0.23585096 0.12999047 -0.01538617 0.64761667 0.76706667 0.61170000 -0.15536667 1.186106e-02 6.127026e-06 FALSE TRUE
ENST00000493035 ENSG00000172878 HEK293_OSMI2_2hA HEK293_TMG_2hB METAP1D protein_coding processed_transcript 6.525369 5.47709 6.818786 0.1691773 0.2219434 0.3155878 1.1040617 0.3887911 1.6709047 0.09509487 0.07320982 2.07553278 0.15742917 0.07210000 0.24490000 0.17280000 6.127026e-06 6.127026e-06 FALSE FALSE
MSTRG.19493.3 ENSG00000172878 HEK293_OSMI2_2hA HEK293_TMG_2hB METAP1D protein_coding   6.525369 5.47709 6.818786 0.1691773 0.2219434 0.3155878 0.5013082 0.4364598 0.4006695 0.09713382 0.12722496 -0.12055235 0.07850417 0.08086667 0.05773333 -0.02313333 7.206735e-01 6.127026e-06 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
ENSG00000172878 E001 0.3729606 0.0263038639 1.000000e+00 1.000000e+00 2 171999943 171999948 6 + 0.121 0.124 0.049
ENSG00000172878 E002 0.5181333 0.0214481996 5.692427e-01 6.958313e-01 2 171999949 171999952 4 + 0.215 0.124 -0.951
ENSG00000172878 E003 1.3285866 0.0103618316 9.985943e-01 1.000000e+00 2 171999953 171999954 2 + 0.358 0.366 0.047
ENSG00000172878 E004 16.3449669 0.0045657706 8.519047e-03 2.508483e-02 2 171999955 172000009 55 + 1.339 1.122 -0.765
ENSG00000172878 E005 0.3268771 0.0271571777 1.000000e+00   2 172021799 172021867 69 + 0.121 0.124 0.047
ENSG00000172878 E006 32.2308502 0.0008169324 8.784393e-02 1.718445e-01 2 172061498 172061572 75 + 1.563 1.474 -0.304
ENSG00000172878 E007 36.0576453 0.0009124389 1.595461e-01 2.745155e-01 2 172061573 172061655 83 + 1.599 1.533 -0.228
ENSG00000172878 E008 0.0000000       2 172061656 172061994 339 +      
ENSG00000172878 E009 51.0321793 0.0005023675 1.342336e-01 2.400453e-01 2 172063711 172063860 150 + 1.744 1.687 -0.193
ENSG00000172878 E010 6.1989124 0.0030486642 2.647564e-01 4.027437e-01 2 172063861 172063946 86 + 0.922 0.799 -0.478
ENSG00000172878 E011 12.3933317 0.0015813645 3.315246e-07 3.039556e-06 2 172063947 172064414 468 + 1.326 0.842 -1.762
ENSG00000172878 E012 45.6339363 0.0005667172 2.465078e-01 3.818680e-01 2 172065604 172065752 149 + 1.693 1.650 -0.148
ENSG00000172878 E013 31.8958719 0.0006896280 9.848724e-02 1.881921e-01 2 172066264 172066306 43 + 1.559 1.474 -0.292
ENSG00000172878 E014 2.0098792 0.0167697992 1.298771e-03 4.972179e-03 2 172070663 172070906 244 + 0.685 0.124 -3.538
ENSG00000172878 E015 55.4393093 0.0005156304 3.746521e-01 5.190680e-01 2 172070907 172071070 164 + 1.761 1.735 -0.090
ENSG00000172878 E016 0.2987644 0.0271230742 2.011751e-01   2 172072351 172072454 104 + 0.215 0.000 -10.142
ENSG00000172878 E017 42.8700655 0.0005952506 4.515993e-01 5.925417e-01 2 172077797 172077894 98 + 1.652 1.627 -0.086
ENSG00000172878 E018 34.4681816 0.0006203652 7.871281e-01 8.636685e-01 2 172079215 172079262 48 + 1.531 1.561 0.101
ENSG00000172878 E019 35.1858889 0.0005941689 6.393391e-01 7.527431e-01 2 172080128 172080206 79 + 1.535 1.576 0.140
ENSG00000172878 E020 3.2845858 0.0105292168 2.789576e-02 6.780472e-02 2 172080207 172080327 121 + 0.415 0.774 1.627
ENSG00000172878 E021 271.6724264 0.0017586808 1.057270e-07 1.069335e-06 2 172080328 172082430 2103 + 2.364 2.490 0.420