ENSG00000072954

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
ENST00000187762 ENSG00000072954 HEK293_OSMI2_2hA HEK293_TMG_2hB TMEM38A protein_coding protein_coding 7.385697 10.87228 5.563174 0.4011933 0.21909 -0.9654095 4.377423 5.053055 4.040482 0.3473367 0.1711016 -0.3219145 0.6067333 0.4682333 0.7264667 0.2582333 8.676701e-04 1.258951e-06 FALSE TRUE
ENST00000595452 ENSG00000072954 HEK293_OSMI2_2hA HEK293_TMG_2hB TMEM38A protein_coding retained_intron 7.385697 10.87228 5.563174 0.4011933 0.21909 -0.9654095 2.947970 5.336796 1.522692 0.2717253 0.1155427 -1.8026066 0.3881000 0.4904333 0.2735333 -0.2169000 1.258951e-06 1.258951e-06 FALSE 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
ENSG00000072954 E001 17.34734 0.0012208213 6.805586e-01 7.844257e-01 19 16661139 16661241 103 + 1.256 1.212 -0.158
ENSG00000072954 E002 18.14409 0.0012115903 8.107478e-01 8.799450e-01 19 16661242 16661260 19 + 1.267 1.237 -0.106
ENSG00000072954 E003 30.72960 0.0006556798 5.378906e-01 6.693803e-01 19 16661261 16661341 81 + 1.449 1.478 0.102
ENSG00000072954 E004 54.28885 0.0004993049 1.195743e-01 2.193548e-01 19 16679984 16680140 157 + 1.663 1.729 0.225
ENSG00000072954 E005 51.64830 0.0005134818 6.720797e-02 1.387102e-01 19 16680397 16680484 88 + 1.629 1.711 0.280
ENSG00000072954 E006 49.37014 0.0005667172 7.571908e-01 8.420902e-01 19 16680485 16680581 97 + 1.663 1.668 0.018
ENSG00000072954 E007 52.74469 0.0050633718 1.790408e-08 2.106100e-07 19 16680582 16680937 356 + 1.435 1.787 1.200
ENSG00000072954 E008 33.79561 0.0006294494 1.124649e-02 3.175283e-02 19 16682421 16682508 88 + 1.610 1.449 -0.551
ENSG00000072954 E009 41.58880 0.0013628988 2.771480e-02 6.745229e-02 19 16686288 16686405 118 + 1.679 1.547 -0.451
ENSG00000072954 E010 110.65941 0.0096769273 4.570562e-03 1.473937e-02 19 16688144 16688922 779 + 2.113 1.961 -0.512
ENSG00000072954 E011 153.64379 0.0024404272 7.912127e-01 8.664779e-01 19 16688923 16690023 1101 + 2.161 2.159 -0.004