ENSG00000066557

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
ENST00000370952 ENSG00000066557 HEK293_OSMI2_2hA HEK293_TMG_2hB LRRC40 protein_coding protein_coding 21.41599 3.796623 41.93426 0.4582484 1.472013 3.46189 12.568931 3.762917 24.28619 0.4919067 0.4717305 2.686978 0.7366417 0.9883 0.5813667 -0.4069333 1.593863e-16 2.448241e-20 FALSE TRUE
MSTRG.1403.3 ENSG00000066557 HEK293_OSMI2_2hA HEK293_TMG_2hB LRRC40 protein_coding   21.41599 3.796623 41.93426 0.4582484 1.472013 3.46189 8.132959 0.000000 16.04959 0.0000000 1.9726638 10.649220 0.2417792 0.0000 0.3804000 0.3804000 2.448241e-20 2.448241e-20 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
ENSG00000066557 E001 148.01933 0.0241252090 1.618034e-10 2.755836e-09 1 70144805 70145272 468 - 1.848 2.439 1.979
ENSG00000066557 E002 92.91635 0.0203930589 7.971752e-15 2.661658e-13 1 70145273 70145509 237 - 1.615 2.308 2.331
ENSG00000066557 E003 243.68375 0.0003857733 1.339227e-09 1.938512e-08 1 70145510 70145905 396 - 2.142 2.399 0.860
ENSG00000066557 E004 246.42115 0.0001646541 9.293692e-01 9.595778e-01 1 70148487 70148672 186 - 2.172 2.241 0.232
ENSG00000066557 E005 144.30862 0.0002275438 2.631452e-01 4.010134e-01 1 70151128 70151205 78 - 1.935 2.051 0.388
ENSG00000066557 E006 144.28818 0.0002470070 1.788043e-01 2.996475e-01 1 70152433 70152543 111 - 1.933 2.059 0.420
ENSG00000066557 E007 134.14444 0.0002391758 6.933825e-02 1.422637e-01 1 70155689 70155796 108 - 1.921 1.896 -0.084
ENSG00000066557 E008 143.32221 0.0004341885 1.659142e-02 4.403961e-02 1 70159330 70159438 109 - 1.950 1.896 -0.180
ENSG00000066557 E009 109.83603 0.0164008447 1.267939e-02 3.515553e-02 1 70173465 70173510 46 - 1.844 1.699 -0.489
ENSG00000066557 E010 111.58069 0.0021090074 2.122273e-02 5.405971e-02 1 70173622 70173709 88 - 1.844 1.770 -0.250
ENSG00000066557 E011 199.53472 0.0011384346 6.602788e-05 3.609414e-04 1 70175810 70175982 173 - 2.099 1.981 -0.395
ENSG00000066557 E012 193.30516 0.0004626671 7.582494e-10 1.149552e-08 1 70178851 70178993 143 - 2.094 1.866 -0.767
ENSG00000066557 E013 146.90590 0.0002226841 2.621578e-05 1.581602e-04 1 70181086 70181209 124 - 1.971 1.820 -0.507
ENSG00000066557 E014 161.82998 0.0002690504 1.673487e-09 2.378372e-08 1 70184785 70184914 130 - 2.019 1.769 -0.840
ENSG00000066557 E015 115.45195 0.0017141947 3.808731e-05 2.206718e-04 1 70187265 70187338 74 - 1.870 1.674 -0.660
ENSG00000066557 E016 194.45528 0.0007413716 2.870482e-06 2.156991e-05 1 70189092 70189273 182 - 2.091 1.940 -0.505
ENSG00000066557 E017 148.53588 0.0004898039 1.772957e-08 2.087386e-07 1 70205390 70205579 190 - 1.981 1.737 -0.823