ENSG00000188338

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
ENST00000417121 ENSG00000188338 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC38A3 protein_coding retained_intron 5.035328 4.911951 5.465679 0.1862773 0.6100447 0.1538075 0.50382667 0.20415659 0.4985915 0.07916388 0.16446445 1.247841 0.09849583 0.04226667 0.08883333 0.04656667 3.864753e-01 5.177247e-07   FALSE
ENST00000417851 ENSG00000188338 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC38A3 protein_coding retained_intron 5.035328 4.911951 5.465679 0.1862773 0.6100447 0.1538075 0.18800590 0.06278503 0.4111373 0.06278503 0.17736413 2.532577 0.03536250 0.01333333 0.07493333 0.06160000 1.858170e-01 5.177247e-07   FALSE
ENST00000610458 ENSG00000188338 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC38A3 protein_coding protein_coding 5.035328 4.911951 5.465679 0.1862773 0.6100447 0.1538075 0.39498090 0.28542901 0.7868336 0.14649743 0.22238349 1.431467 0.07511250 0.05610000 0.13936667 0.08326667 1.703233e-01 5.177247e-07 FALSE FALSE
ENST00000614032 ENSG00000188338 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC38A3 protein_coding protein_coding 5.035328 4.911951 5.465679 0.1862773 0.6100447 0.1538075 3.40589586 4.35958086 3.1528056 0.11522045 0.13567306 -0.466290 0.68840417 0.88830000 0.58690000 -0.30140000 5.177247e-07 5.177247e-07 FALSE TRUE
ENST00000620404 ENSG00000188338 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC38A3 protein_coding retained_intron 5.035328 4.911951 5.465679 0.1862773 0.6100447 0.1538075 0.07418394 0.00000000 0.2693738 0.00000000 0.04158806 4.804125 0.01292917 0.00000000 0.05206667 0.05206667 1.582527e-04 5.177247e-07 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
ENSG00000188338 E001 2.8161043 0.0538364101 8.436628e-02 1.663988e-01 3 50205246 50205267 22 + 0.734 0.435 -1.361
ENSG00000188338 E002 2.8161043 0.0538364101 8.436628e-02 1.663988e-01 3 50205268 50205270 3 + 0.734 0.435 -1.361
ENSG00000188338 E003 3.4480885 0.1164336308 8.856364e-02 1.729293e-01 3 50205271 50205278 8 + 0.816 0.478 -1.467
ENSG00000188338 E004 7.3263675 0.0758678793 9.351867e-02 1.806218e-01 3 50205279 50205285 7 + 1.055 0.775 -1.061
ENSG00000188338 E005 16.2194674 0.0018626764 5.543238e-01 6.833258e-01 3 50205286 50205348 63 + 1.244 1.204 -0.144
ENSG00000188338 E006 1.3275556 0.0107009081 2.835360e-01 4.236737e-01 3 50207336 50207477 142 + 0.453 0.271 -1.090
ENSG00000188338 E007 0.1472490 0.0429737493 3.813847e-01   3 50207683 50207967 285 + 0.136 0.000 -10.101
ENSG00000188338 E008 33.4989989 0.0061193087 1.521464e-01 2.646024e-01 3 50214149 50214300 152 + 1.573 1.485 -0.303
ENSG00000188338 E009 27.3911292 0.0007539041 2.262221e-02 5.696582e-02 3 50214402 50214483 82 + 1.519 1.381 -0.475
ENSG00000188338 E010 31.9118534 0.0009039323 9.644423e-03 2.789008e-02 3 50214653 50214768 116 + 1.590 1.444 -0.502
ENSG00000188338 E011 0.7728905 0.0153787590 9.716579e-02 1.861476e-01 3 50214769 50214914 146 + 0.393 0.110 -2.354
ENSG00000188338 E012 0.4502799 0.0237540575 5.106594e-02 1.110721e-01 3 50215267 50215385 119 + 0.323 0.000 -11.777
ENSG00000188338 E013 32.0181884 0.0006430534 2.403002e-02 5.987813e-02 3 50215386 50215459 74 + 1.582 1.457 -0.428
ENSG00000188338 E014 33.2234103 0.0007202428 7.378962e-02 1.495792e-01 3 50215544 50215636 93 + 1.582 1.486 -0.326
ENSG00000188338 E015 30.1957115 0.0055110748 6.714268e-01 7.776522e-01 3 50215740 50215821 82 + 1.499 1.481 -0.060
ENSG00000188338 E016 27.3142978 0.0013758099 8.382350e-01 8.988521e-01 3 50217238 50217320 83 + 1.451 1.448 -0.011
ENSG00000188338 E017 20.6976223 0.0009588479 5.727762e-01 6.988462e-01 3 50217415 50217473 59 + 1.296 1.348 0.183
ENSG00000188338 E018 22.7534622 0.0009006728 1.114393e-01 2.076604e-01 3 50217676 50217735 60 + 1.279 1.406 0.441
ENSG00000188338 E019 27.0449871 0.0009194719 4.664181e-01 6.059449e-01 3 50217736 50217840 105 + 1.403 1.461 0.201
ENSG00000188338 E020 1.1135859 0.0114267529 2.143420e-02 5.450383e-02 3 50217841 50217916 76 + 0.506 0.110 -2.938
ENSG00000188338 E021 32.9569494 0.0006957140 2.608323e-01 3.984097e-01 3 50217917 50217996 80 + 1.473 1.551 0.267
ENSG00000188338 E022 35.3089424 0.0006306965 3.819157e-01 5.261752e-01 3 50218270 50218370 101 + 1.514 1.575 0.208
ENSG00000188338 E023 3.6909628 0.0731017624 2.213335e-01 3.520268e-01 3 50218371 50218592 222 + 0.789 0.583 -0.866
ENSG00000188338 E024 34.6899258 0.0070383657 2.535896e-01 3.901270e-01 3 50218593 50218717 125 + 1.478 1.568 0.307
ENSG00000188338 E025 42.0348547 0.0129367724 6.680482e-01 7.751361e-01 3 50218804 50218948 145 + 1.629 1.610 -0.067
ENSG00000188338 E026 38.9702678 0.0006726789 8.311650e-01 8.941710e-01 3 50219881 50219984 104 + 1.590 1.588 -0.007
ENSG00000188338 E027 145.0023431 0.0048697422 1.334888e-05 8.613144e-05 3 50220073 50221486 1414 + 2.038 2.218 0.601