ENSG00000137404

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
ENST00000376421 ENSG00000137404 HEK293_OSMI2_2hA HEK293_TMG_2hB NRM protein_coding protein_coding 19.72024 30.1831 15.89487 0.1665991 0.8255515 -0.9247508 7.430951 11.170553 5.082279 0.9080099 0.5196036 -1.1346082 0.38055833 0.37046667 0.31880000 -0.05166667 0.619045687 0.002862514 FALSE TRUE
ENST00000444096 ENSG00000137404 HEK293_OSMI2_2hA HEK293_TMG_2hB NRM protein_coding protein_coding 19.72024 30.1831 15.89487 0.1665991 0.8255515 -0.9247508 7.153747 9.757148 6.719643 0.7691738 0.6840588 -0.5374073 0.36828333 0.32300000 0.42263333 0.09963333 0.258651569 0.002862514 FALSE TRUE
ENST00000474864 ENSG00000137404 HEK293_OSMI2_2hA HEK293_TMG_2hB NRM protein_coding processed_transcript 19.72024 30.1831 15.89487 0.1665991 0.8255515 -0.9247508 1.132427 1.708621 1.345991 0.2588077 0.1967012 -0.3419033 0.05536667 0.05663333 0.08406667 0.02743333 0.324754978 0.002862514 FALSE FALSE
ENST00000495946 ENSG00000137404 HEK293_OSMI2_2hA HEK293_TMG_2hB NRM protein_coding processed_transcript 19.72024 30.1831 15.89487 0.1665991 0.8255515 -0.9247508 2.899764 6.500798 1.595667 0.5386475 0.2328486 -2.0196619 0.14311250 0.21526667 0.10090000 -0.11436667 0.002862514 0.002862514 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
ENSG00000137404 E001 0.3299976 0.0274424043 0.49664318   6 30688047 30688048 2 - 0.001 0.162 8.452
ENSG00000137404 E002 680.3681707 0.0021304654 0.04496709 0.10013494 6 30688049 30688942 894 - 2.761 2.800 0.132
ENSG00000137404 E003 161.6516521 0.0002791695 0.04028473 0.09156136 6 30689276 30689452 177 - 2.197 2.152 -0.151
ENSG00000137404 E004 5.7133561 0.0495863926 0.11425087 0.21173966 6 30690025 30690046 22 - 0.929 0.693 -0.933
ENSG00000137404 E005 148.4676821 0.0003005671 0.94012496 0.96638535 6 30690047 30690243 197 - 2.123 2.133 0.034
ENSG00000137404 E006 9.0187549 0.0312949268 0.32654612 0.46997070 6 30690244 30690353 110 - 1.035 0.910 -0.465
ENSG00000137404 E007 8.0546514 0.0197711375 0.08163683 0.16211586 6 30690593 30690723 131 - 1.053 0.840 -0.802
ENSG00000137404 E008 97.7289924 0.0009738563 0.40556770 0.54924945 6 30690842 30691281 440 - 1.963 1.943 -0.068
ENSG00000137404 E009 0.0000000       6 30691376 30691420 45 -