ENSG00000163961

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
ENST00000318037 ENSG00000163961 HEK293_OSMI2_2hA HEK293_TMG_2hB RNF168 protein_coding protein_coding 4.566484 3.364887 5.917468 0.2306742 0.2466884 0.8125769 3.9467584 3.364887 4.951280 0.2306742 0.2258451 0.5558733 0.8862583 1 0.83643333 -0.16356667 7.064902e-13 7.064902e-13 FALSE TRUE
MSTRG.24342.4 ENSG00000163961 HEK293_OSMI2_2hA HEK293_TMG_2hB RNF168 protein_coding   4.566484 3.364887 5.917468 0.2306742 0.2466884 0.8125769 0.3607778 0.000000 0.443582 0.0000000 0.2335605 5.5032915 0.0691000 0 0.07746667 0.07746667 2.815981e-01 7.064902e-13 TRUE 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
ENSG00000163961 E001 0.2924217 0.0272844114 3.572574e-01   3 196444072 196444175 104 - 0.173 0.000 -8.988
ENSG00000163961 E002 180.1516563 0.0138583799 3.176154e-14 9.708178e-13 3 196468783 196470037 1255 - 2.015 2.462 1.495
ENSG00000163961 E003 30.1764780 0.0007767843 6.247181e-02 1.308035e-01 3 196470038 196470117 80 - 1.414 1.583 0.580
ENSG00000163961 E004 44.4683496 0.0005626769 1.033626e-02 2.959790e-02 3 196470118 196470453 336 - 1.681 1.597 -0.283
ENSG00000163961 E005 38.4105151 0.0387155819 7.905623e-02 1.580015e-01 3 196470454 196470617 164 - 1.637 1.511 -0.432
ENSG00000163961 E006 104.9277267 0.0023366961 5.465157e-01 6.766866e-01 3 196470618 196471717 1100 - 1.986 2.062 0.253
ENSG00000163961 E007 13.7346794 0.0013617022 1.641770e-01 2.806026e-01 3 196471718 196471759 42 - 1.088 1.263 0.624
ENSG00000163961 E008 40.0888199 0.0059432899 7.341535e-01 8.251843e-01 3 196471760 196471978 219 - 1.595 1.624 0.099
ENSG00000163961 E009 71.6417120 0.0167276579 1.156466e-02 3.250049e-02 3 196471979 196472426 448 - 1.903 1.765 -0.464
ENSG00000163961 E010 57.2028182 0.0097574204 2.604112e-03 9.076949e-03 3 196472427 196472772 346 - 1.810 1.661 -0.502
ENSG00000163961 E011 25.6665576 0.0289086113 7.026630e-02 1.438065e-01 3 196475231 196475312 82 - 1.474 1.321 -0.531
ENSG00000163961 E012 28.4409504 0.0297186397 4.445045e-01 5.860595e-01 3 196483770 196483891 122 - 1.477 1.443 -0.119
ENSG00000163961 E013 33.5227349 0.0086904208 3.039778e-05 1.806106e-04 3 196487399 196487578 180 - 1.621 1.348 -0.940
ENSG00000163961 E014 21.2252236 0.0411080463 1.342817e-03 5.119081e-03 3 196488607 196488683 77 - 1.449 1.092 -1.254
ENSG00000163961 E015 41.6990777 0.0005670204 5.658467e-04 2.405861e-03 3 196502873 196503050 178 - 1.674 1.536 -0.469
ENSG00000163961 E016 56.1066107 0.0114642411 1.534065e-02 4.126073e-02 3 196503051 196503665 615 - 1.793 1.673 -0.407
ENSG00000163961 E017 5.4220713 0.0092884472 7.824416e-01 8.603139e-01 3 196503666 196503768 103 - 0.788 0.793 0.023