ENSG00000153989

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
ENST00000368494 ENSG00000153989 HEK293_OSMI2_2hA HEK293_TMG_2hB NUS1 protein_coding protein_coding 38.86636 14.77998 64.56975 1.202381 3.368764 2.126462 27.05189 6.613923 51.55875 0.3306525 0.7544012 2.9607395 0.6371708 0.4518333 0.8037000 0.3518667 0.001322025 0.001284911 FALSE TRUE
MSTRG.28865.3 ENSG00000153989 HEK293_OSMI2_2hA HEK293_TMG_2hB NUS1 protein_coding   38.86636 14.77998 64.56975 1.202381 3.368764 2.126462 11.40923 8.144914 12.47242 1.1125661 3.8429459 0.6141566 0.3552125 0.5466667 0.1879667 -0.3587000 0.001284911 0.001284911 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
ENSG00000153989 E001 0.0000000       6 117675469 117675473 5 +      
ENSG00000153989 E002 0.0000000       6 117675474 117675482 9 +      
ENSG00000153989 E003 1.6243469 0.0415342408 7.011987e-02 1.435642e-01 6 117675483 117675522 40 + 0.409 0.000 -10.927
ENSG00000153989 E004 154.1392114 0.0019467038 9.456779e-09 1.171872e-07 6 117675523 117676085 563 + 2.109 1.949 -0.538
ENSG00000153989 E005 0.5869198 0.1963703028 5.100330e-01 6.452886e-01 6 117689751 117689843 93 + 0.195 0.000 -9.464
ENSG00000153989 E006 0.2924217 0.0275811955 1.000000e+00   6 117691730 117691777 48 + 0.109 0.000 -8.466
ENSG00000153989 E007 244.5311075 0.0001885781 6.026613e-10 9.314111e-09 6 117693042 117693167 126 + 2.299 2.211 -0.295
ENSG00000153989 E008 454.0723281 0.0002307132 7.635766e-08 7.932512e-07 6 117694031 117694180 150 + 2.555 2.537 -0.059
ENSG00000153989 E009 367.9458194 0.0009538537 1.917119e-03 6.968256e-03 6 117703605 117703704 100 + 2.457 2.469 0.040
ENSG00000153989 E010 2202.2561923 0.0042420820 1.126702e-07 1.133806e-06 6 117706925 117710727 3803 + 3.202 3.358 0.519