ENSG00000142039

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
ENST00000269967 ENSG00000142039 HEK293_OSMI2_2hA HEK293_TMG_2hB CCDC97 protein_coding protein_coding 36.65165 57.45943 25.09055 3.134628 0.2749072 -1.195076 30.2168003 49.53692 20.107355 2.6923957 0.2375162 -1.300355 0.8156042 0.8622 0.8015667 -0.06063333 0.01969451 0.01969451 FALSE  
MSTRG.17205.2 ENSG00000142039 HEK293_OSMI2_2hA HEK293_TMG_2hB CCDC97 protein_coding   36.65165 57.45943 25.09055 3.134628 0.2749072 -1.195076 4.2380385 5.22824 2.461107 0.4029463 0.8024954 -1.083925 0.1234500 0.0912 0.0977000 0.00650000 1.00000000 0.01969451 FALSE  
MSTRG.17205.3 ENSG00000142039 HEK293_OSMI2_2hA HEK293_TMG_2hB CCDC97 protein_coding   36.65165 57.45943 25.09055 3.134628 0.2749072 -1.195076 0.5228089 0.00000 1.736445 0.0000000 0.8877597 7.448277 0.0187250 0.0000 0.0693000 0.06930000 0.11738653 0.01969451 FALSE  
  • 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
ENSG00000142039 E001 189.86061 0.0068359518 5.160347e-01 6.506355e-01 19 41310172 41310356 185 + 2.213 2.232 0.064
ENSG00000142039 E002 28.07261 0.0279866770 2.416918e-02 6.015605e-02 19 41310703 41310751 49 + 1.550 1.354 -0.678
ENSG00000142039 E003 28.45652 0.0009505698 8.461661e-05 4.499120e-04 19 41310752 41310800 49 + 1.569 1.348 -0.758
ENSG00000142039 E004 50.93486 0.0039340527 7.323739e-07 6.263930e-06 19 41310801 41311015 215 + 1.828 1.587 -0.816
ENSG00000142039 E005 457.33515 0.0060986687 3.445618e-02 8.063370e-02 19 41316384 41316839 456 + 2.630 2.600 -0.102
ENSG00000142039 E006 248.69104 0.0038708941 8.226675e-03 2.435871e-02 19 41319574 41319732 159 + 2.379 2.329 -0.167
ENSG00000142039 E007 285.28909 0.0002144820 1.492293e-02 4.031463e-02 19 41319733 41319852 120 + 2.409 2.398 -0.036
ENSG00000142039 E008 330.17976 0.0001733584 1.474257e-01 2.581916e-01 19 41320341 41320470 130 + 2.453 2.468 0.049
ENSG00000142039 E009 18.73695 0.0009975124 5.628532e-03 1.762756e-02 19 41320471 41320754 284 + 0.990 1.304 1.127
ENSG00000142039 E010 144.49875 0.0004069145 1.808350e-02 4.730883e-02 19 41322595 41322599 5 + 2.129 2.097 -0.107
ENSG00000142039 E011 2995.93398 0.0033726575 9.336902e-05 4.907961e-04 19 41322600 41324936 2337 + 3.351 3.449 0.324