ENSG00000104388

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
ENST00000262646 ENSG00000104388 HEK293_OSMI2_2hA HEK293_TMG_2hB RAB2A protein_coding protein_coding 28.49763 14.545 47.61816 1.139987 2.925741 1.7103 14.498853 8.552439 24.473291 2.3778384 0.9499765 1.5157038 0.5075500 0.5772000 0.51590000 -0.06130000 8.478264e-01 2.638786e-56 FALSE TRUE
ENST00000429861 ENSG00000104388 HEK293_OSMI2_2hA HEK293_TMG_2hB RAB2A protein_coding retained_intron 28.49763 14.545 47.61816 1.139987 2.925741 1.7103 9.531261 0.000000 18.570236 0.0000000 1.9648464 10.8595531 0.2316292 0.0000000 0.38783333 0.38783333 2.638786e-56 2.638786e-56 FALSE TRUE
ENST00000525529 ENSG00000104388 HEK293_OSMI2_2hA HEK293_TMG_2hB RAB2A protein_coding retained_intron 28.49763 14.545 47.61816 1.139987 2.925741 1.7103 1.873822 3.325608 0.000000 1.8207692 0.0000000 -8.3818061 0.1588667 0.2383333 0.00000000 -0.23833333 1.083524e-01 2.638786e-56 FALSE FALSE
ENST00000531289 ENSG00000104388 HEK293_OSMI2_2hA HEK293_TMG_2hB RAB2A protein_coding protein_coding 28.49763 14.545 47.61816 1.139987 2.925741 1.7103 2.332573 2.319942 4.168805 0.2069042 0.3182438 0.8427965 0.0919000 0.1598000 0.08796667 -0.07183333 1.661735e-03 2.638786e-56 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
ENSG00000104388 E001 27.8848309 0.0267792608 8.884111e-01 9.326544e-01 8 60516936 60516986 51 + 1.417 1.449 0.110
ENSG00000104388 E002 150.2907395 0.0073038882 1.992085e-02 5.132228e-02 8 60516987 60517175 189 + 2.178 2.082 -0.319
ENSG00000104388 E003 70.2904448 0.0051486237 2.040458e-01 3.312385e-01 8 60517176 60517180 5 + 1.836 1.798 -0.127
ENSG00000104388 E004 125.1547963 0.0090167006 2.650710e-02 6.496282e-02 8 60517181 60517223 43 + 2.101 1.999 -0.341
ENSG00000104388 E005 124.2372411 0.0016629056 9.525296e-05 4.997338e-04 8 60517224 60517235 12 + 2.103 1.983 -0.402
ENSG00000104388 E006 144.3964388 0.0013181951 2.024082e-07 1.937431e-06 8 60517236 60517253 18 + 2.176 2.020 -0.525
ENSG00000104388 E007 0.4031496 0.0476820249 5.197270e-02 1.126819e-01 8 60558408 60558851 444 + 0.000 0.313 11.950
ENSG00000104388 E008 192.6535067 0.0036188309 9.441876e-08 9.628835e-07 8 60558852 60558923 72 + 2.308 2.122 -0.622
ENSG00000104388 E009 2.1163527 0.0179889586 5.016554e-01 6.377987e-01 8 60558924 60559279 356 + 0.417 0.560 0.711
ENSG00000104388 E010 0.1515154 0.0441189154 1.000000e+00   8 60569929 60569954 26 + 0.080 0.000 -8.442
ENSG00000104388 E011 0.6299079 0.0275422788 8.845288e-01 9.301767e-01 8 60569955 60570057 103 + 0.205 0.184 -0.196
ENSG00000104388 E012 227.5962870 0.0007300831 5.609232e-07 4.915817e-06 8 60572046 60572113 68 + 2.360 2.256 -0.346
ENSG00000104388 E013 0.0000000       8 60576234 60576297 64 +      
ENSG00000104388 E014 0.5212538 0.0202444587 1.884045e-01 3.117181e-01 8 60584044 60584077 34 + 0.080 0.312 2.389
ENSG00000104388 E015 277.6865397 0.0018398797 3.807066e-02 8.748231e-02 8 60584208 60584290 83 + 2.424 2.396 -0.093
ENSG00000104388 E016 290.7509479 0.0024233654 8.056403e-01 8.764414e-01 8 60584723 60584815 93 + 2.423 2.464 0.137
ENSG00000104388 E017 0.5138669 0.0214472123 8.912983e-01 9.345616e-01 8 60591690 60591857 168 + 0.147 0.184 0.391
ENSG00000104388 E018 307.7688314 0.0015482107 4.414393e-03 1.430417e-02 8 60591858 60591969 112 + 2.423 2.537 0.379
ENSG00000104388 E019 0.6224193 0.0169934112 3.979311e-01 5.416734e-01 8 60591970 60592117 148 + 0.147 0.312 1.388
ENSG00000104388 E020 239.8605340 0.0001749473 2.102543e-10 3.509741e-09 8 60618580 60618648 69 + 2.286 2.476 0.634
ENSG00000104388 E021 1.2846811 0.0108568312 7.800050e-01 8.585666e-01 8 60618649 60619111 463 + 0.344 0.313 -0.195
ENSG00000104388 E022 1292.0042963 0.0109883753 6.107543e-02 1.284461e-01 8 60620674 60623644 2971 + 3.045 3.150 0.350