ENSG00000139998

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
ENST00000267512 ENSG00000139998 HEK293_OSMI2_2hA HEK293_TMG_2hB RAB15 protein_coding protein_coding 11.04694 18.21824 9.320676 0.9512201 0.2157575 -0.9661215 0.6352777 1.0772043 0.6571933 0.5393593 0.3309472 -0.70444636 0.05307917 0.06046667 0.07216667 0.01170000 9.950702e-01 3.456651e-26 FALSE TRUE
ENST00000426039 ENSG00000139998 HEK293_OSMI2_2hA HEK293_TMG_2hB RAB15 protein_coding protein_coding 11.04694 18.21824 9.320676 0.9512201 0.2157575 -0.9661215 4.2813592 7.1093323 3.8815371 0.5420229 0.9120195 -0.87140182 0.41797500 0.39036667 0.41520000 0.02483333 9.693831e-01 3.456651e-26 FALSE TRUE
ENST00000533601 ENSG00000139998 HEK293_OSMI2_2hA HEK293_TMG_2hB RAB15 protein_coding protein_coding 11.04694 18.21824 9.320676 0.9512201 0.2157575 -0.9661215 2.6544440 3.6534889 3.6894483 0.9209242 0.6917263 0.01409187 0.22710833 0.19686667 0.39586667 0.19900000 1.518033e-01 3.456651e-26 FALSE TRUE
ENST00000554593 ENSG00000139998 HEK293_OSMI2_2hA HEK293_TMG_2hB RAB15 protein_coding protein_coding 11.04694 18.21824 9.320676 0.9512201 0.2157575 -0.9661215 2.0131453 5.0479076 0.0000000 0.2752390 0.0000000 -8.98239687 0.14007500 0.28016667 0.00000000 -0.28016667 3.456651e-26 3.456651e-26 FALSE TRUE
ENST00000555256 ENSG00000139998 HEK293_OSMI2_2hA HEK293_TMG_2hB RAB15 protein_coding retained_intron 11.04694 18.21824 9.320676 0.9512201 0.2157575 -0.9661215 0.5337447 0.2507742 0.5230470 0.1273593 0.1359069 1.03146192 0.06288750 0.01306667 0.05670000 0.04363333 2.181450e-01 3.456651e-26   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
ENSG00000139998 E001 0.0000000       14 64945187 64945813 627 -      
ENSG00000139998 E002 0.1451727 0.0426235870 2.223928e-01   14 64945814 64945815 2 - 0.169 0.000 -10.729
ENSG00000139998 E003 6.0505334 0.0054556607 2.926520e-02 7.051453e-02 14 64945816 64945826 11 - 0.528 0.874 1.448
ENSG00000139998 E004 6.0505334 0.0054556607 2.926520e-02 7.051453e-02 14 64945827 64945827 1 - 0.528 0.874 1.448
ENSG00000139998 E005 6.7502693 0.0046010061 1.080524e-02 3.069916e-02 14 64945828 64945838 11 - 0.528 0.923 1.634
ENSG00000139998 E006 718.7836988 0.0011992197 1.123841e-07 1.131167e-06 14 64945839 64947241 1403 - 2.737 2.835 0.327
ENSG00000139998 E007 436.9224823 0.0007989284 4.108360e-01 5.544090e-01 14 64947242 64948512 1271 - 2.592 2.592 0.001
ENSG00000139998 E008 42.2639865 0.0024224019 4.284158e-01 5.711858e-01 14 64948668 64948676 9 - 1.534 1.599 0.222
ENSG00000139998 E009 66.5055696 0.0003845905 7.652156e-01 8.480427e-01 14 64948677 64948733 57 - 1.777 1.778 0.002
ENSG00000139998 E010 79.0258188 0.0003482253 3.887366e-01 5.328176e-01 14 64950325 64950414 90 - 1.867 1.845 -0.074
ENSG00000139998 E011 5.8045333 0.0759152050 4.800660e-02 1.056480e-01 14 64950415 64950578 164 - 1.002 0.664 -1.324
ENSG00000139998 E012 10.4416705 0.0025521725 1.508970e-04 7.510437e-04 14 64950579 64950942 364 - 1.246 0.873 -1.360
ENSG00000139998 E013 13.6854781 0.0013529017 2.123527e-01 3.413076e-01 14 64950943 64951073 131 - 1.196 1.093 -0.371
ENSG00000139998 E014 82.5161122 0.0003733618 5.566996e-02 1.191305e-01 14 64951074 64951151 78 - 1.915 1.851 -0.216
ENSG00000139998 E015 71.0417833 0.0005113807 4.940874e-02 1.081070e-01 14 64951603 64951663 61 - 1.856 1.783 -0.246
ENSG00000139998 E016 66.3580241 0.0003881512 8.834801e-04 3.556429e-03 14 64952511 64952571 61 - 1.870 1.735 -0.454
ENSG00000139998 E017 4.4252387 0.0078503677 7.228134e-01 8.168386e-01 14 64957940 64958159 220 - 0.722 0.681 -0.171
ENSG00000139998 E018 0.0000000       14 64971808 64971952 145 -      
ENSG00000139998 E019 57.8257973 0.0004718099 1.414168e-05 9.070927e-05 14 64971953 64972100 148 - 1.847 1.655 -0.649
ENSG00000139998 E020 13.2879230 0.0014268994 2.311855e-05 1.412555e-04 14 64972101 64972336 236 - 1.340 0.967 -1.338
ENSG00000139998 E021 0.0000000       14 64972695 64972709 15 -      
ENSG00000139998 E022 0.2214452 0.0376500964 1.000000e+00   14 64972710 64972736 27 - 0.000 0.088 10.441
ENSG00000139998 E023 0.0000000       14 64972737 64972816 80 -      
ENSG00000139998 E024 0.0000000       14 64972817 64973283 467 -