ENSG00000140104

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
ENST00000389964 ENSG00000140104 HEK293_OSMI2_2hA HEK293_TMG_2hB CLBA1 protein_coding nonsense_mediated_decay 9.022754 13.39324 4.240853 0.4494883 0.1589453 -1.656757 1.3048073 2.3674673 0.5008441 0.2472859 0.08620155 -2.218471 0.1453000 0.17770000 0.1182000 -0.05950000 3.527042e-01 3.591296e-05 TRUE  
ENST00000547315 ENSG00000140104 HEK293_OSMI2_2hA HEK293_TMG_2hB CLBA1 protein_coding protein_coding 9.022754 13.39324 4.240853 0.4494883 0.1589453 -1.656757 3.8346871 5.9314514 2.0533949 0.5858514 0.18436138 -1.525795 0.4225625 0.44160000 0.4839333 0.04233333 7.708954e-01 3.591296e-05 FALSE  
ENST00000549240 ENSG00000140104 HEK293_OSMI2_2hA HEK293_TMG_2hB CLBA1 protein_coding protein_coding 9.022754 13.39324 4.240853 0.4494883 0.1589453 -1.656757 1.3120848 1.5397049 0.5997606 0.1471952 0.03495153 -1.345679 0.1487917 0.11516667 0.1419000 0.02673333 6.136515e-01 3.591296e-05    
ENST00000549584 ENSG00000140104 HEK293_OSMI2_2hA HEK293_TMG_2hB CLBA1 protein_coding processed_transcript 9.022754 13.39324 4.240853 0.4494883 0.1589453 -1.656757 0.2233081 0.1536867 0.3626493 0.0353945 0.07436398 1.186881 0.0330625 0.01133333 0.0852000 0.07386667 3.591296e-05 3.591296e-05 FALSE  
ENST00000550614 ENSG00000140104 HEK293_OSMI2_2hA HEK293_TMG_2hB CLBA1 protein_coding protein_coding 9.022754 13.39324 4.240853 0.4494883 0.1589453 -1.656757 1.8551415 2.6649644 0.6860506 0.2611146 0.07550825 -1.942256 0.1991958 0.19826667 0.1614000 -0.03686667 5.963215e-01 3.591296e-05    
  • 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
ENSG00000140104 E001 0.8856962 0.0143932512 2.283529e-02 5.740092e-02 14 104985775 104985787 13 + 0.529 0.132 -2.746
ENSG00000140104 E002 0.8856962 0.0143932512 2.283529e-02 5.740092e-02 14 104985788 104985788 1 + 0.529 0.132 -2.746
ENSG00000140104 E003 10.4653069 0.0017152676 8.237641e-02 1.632611e-01 14 104985789 104985878 90 + 1.111 0.928 -0.674
ENSG00000140104 E004 50.5434094 0.0009016894 2.412579e-02 6.007254e-02 14 104985879 104986278 400 + 1.703 1.586 -0.397
ENSG00000140104 E005 27.4431149 0.0007938426 2.735232e-01 4.125748e-01 14 104986279 104986335 57 + 1.415 1.342 -0.253
ENSG00000140104 E006 89.3532260 0.0003386324 6.584665e-01 7.676018e-01 14 104986336 104986695 360 + 1.864 1.855 -0.030
ENSG00000140104 E007 65.9544662 0.0007107602 2.143247e-01 3.436403e-01 14 104986696 104986854 159 + 1.765 1.712 -0.178
ENSG00000140104 E008 29.0932292 0.0009021503 1.034276e-01 1.957095e-01 14 104988943 104988963 21 + 1.462 1.353 -0.379
ENSG00000140104 E009 58.4298480 0.0005000014 4.736868e-01 6.126156e-01 14 104988964 104989074 111 + 1.698 1.669 -0.096
ENSG00000140104 E010 29.7170561 0.0019108846 9.948532e-01 1.000000e+00 14 104989075 104989088 14 + 1.384 1.395 0.036
ENSG00000140104 E011 36.4586170 0.0008377755 9.228553e-01 9.553514e-01 14 104989089 104989631 543 + 1.471 1.475 0.012
ENSG00000140104 E012 24.8893331 0.0009759174 3.786575e-01 5.229719e-01 14 104989632 104989707 76 + 1.362 1.302 -0.211
ENSG00000140104 E013 4.5889867 0.0059742895 1.207794e-01 2.210624e-01 14 104989708 104989712 5 + 0.842 0.623 -0.897
ENSG00000140104 E014 57.7706930 0.0005607625 7.238839e-02 1.473157e-01 14 104989840 104991490 1651 + 1.732 1.648 -0.288
ENSG00000140104 E015 42.4547085 0.0012798918 7.978221e-01 8.709925e-01 14 104991491 104991521 31 + 1.513 1.540 0.093
ENSG00000140104 E016 62.1951521 0.0004112348 2.732588e-01 4.122613e-01 14 104991522 104991620 99 + 1.642 1.712 0.236
ENSG00000140104 E017 69.1282402 0.0004432720 6.702324e-01 7.767229e-01 14 104992948 104993064 117 + 1.723 1.755 0.108
ENSG00000140104 E018 244.0582416 0.0024861703 3.490958e-06 2.576159e-05 14 104994598 104995518 921 + 2.158 2.318 0.535
ENSG00000140104 E019 2.0680791 0.0069985099 2.935494e-03 1.007373e-02 14 104999221 104999527 307 + 0.761 0.276 -2.422
ENSG00000140104 E020 0.5169874 0.0203991814 6.542560e-01 7.644810e-01 14 105010234 105010482 249 + 0.203 0.132 -0.744