ENSG00000126243

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
ENST00000246529 ENSG00000126243 HEK293_OSMI2_2hA HEK293_TMG_2hB LRFN3 protein_coding protein_coding 9.634962 11.84544 7.395595 1.136009 0.4514063 -0.6788613 1.7942637 2.2372034 0.8364207 0.5756092 0.33660783 -1.4086839 0.1789208 0.1832333 0.11920000 -0.06403333 6.317068e-01 3.144195e-05 FALSE TRUE
ENST00000587257 ENSG00000126243 HEK293_OSMI2_2hA HEK293_TMG_2hB LRFN3 protein_coding processed_transcript 9.634962 11.84544 7.395595 1.136009 0.4514063 -0.6788613 2.5631224 1.8279894 3.1555715 0.2233641 0.51338190 0.7843375 0.2823292 0.1556667 0.42123333 0.26556667 3.144195e-05 3.144195e-05 FALSE TRUE
ENST00000588831 ENSG00000126243 HEK293_OSMI2_2hA HEK293_TMG_2hB LRFN3 protein_coding protein_coding 9.634962 11.84544 7.395595 1.136009 0.4514063 -0.6788613 0.2083192 0.8445521 0.2231744 0.4289244 0.22317436 -1.8737592 0.0237250 0.0785000 0.02743333 -0.05106667 6.107400e-01 3.144195e-05 FALSE TRUE
MSTRG.17001.2 ENSG00000126243 HEK293_OSMI2_2hA HEK293_TMG_2hB LRFN3 protein_coding   9.634962 11.84544 7.395595 1.136009 0.4514063 -0.6788613 5.0403666 6.8686906 3.1219500 0.8792857 0.04752047 -1.1350728 0.5119708 0.5772667 0.42460000 -0.15266667 1.759487e-02 3.144195e-05 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
ENSG00000126243 E001 0.0000000       19 35935358 35935549 192 +      
ENSG00000126243 E002 0.0000000       19 35935550 35935692 143 +      
ENSG00000126243 E003 0.3332198 0.0283031102 5.169403e-01   19 35935693 35935782 90 + 0.179 0.082 -1.289
ENSG00000126243 E004 4.9980041 0.0173709867 2.656035e-02 6.507397e-02 19 35936374 35936587 214 + 0.936 0.616 -1.287
ENSG00000126243 E005 10.3489164 0.0215714275 2.987830e-01 4.402547e-01 19 35936588 35936659 72 + 1.087 0.953 -0.491
ENSG00000126243 E006 27.5979053 0.0007416022 7.325932e-06 5.019806e-05 19 35936660 35936750 91 + 1.593 1.291 -1.041
ENSG00000126243 E007 259.1595865 0.0002894288 1.731571e-08 2.042850e-07 19 35936751 35937555 805 + 2.434 2.316 -0.392
ENSG00000126243 E008 422.6147116 0.0001761692 5.307000e-03 1.676693e-02 19 35939410 35940840 1431 + 2.529 2.569 0.135
ENSG00000126243 E009 96.7795582 0.0003675822 1.297053e-05 8.390169e-05 19 35944548 35944782 235 + 1.778 1.959 0.610
ENSG00000126243 E010 84.6248021 0.0003963422 2.770276e-04 1.286136e-03 19 35944783 35946359 1577 + 1.744 1.903 0.536
ENSG00000126243 E011 5.7506136 0.0034025825 5.335679e-01 6.657418e-01 19 35946360 35946624 265 + 0.705 0.793 0.356