ENSG00000135953

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
ENST00000258436 ENSG00000135953 HEK293_OSMI2_6hA HEK293_TMG_6hB MFSD9 protein_coding protein_coding 9.505611 10.86586 8.110157 1.086161 0.2504559 -0.42155 3.071822 1.9975429 3.4520509 0.04472742 0.22297444 0.7861961 0.33632917 0.18770000 0.42776667 0.2400667 0.002333265 0.002333265 FALSE TRUE
ENST00000437075 ENSG00000135953 HEK293_OSMI2_6hA HEK293_TMG_6hB MFSD9 protein_coding nonsense_mediated_decay 9.505611 10.86586 8.110157 1.086161 0.2504559 -0.42155 1.177763 1.6722204 0.3756856 0.25173716 0.19224773 -2.1248696 0.11861667 0.15556667 0.04493333 -0.1106333 0.418321418 0.002333265 FALSE TRUE
ENST00000438943 ENSG00000135953 HEK293_OSMI2_6hA HEK293_TMG_6hB MFSD9 protein_coding nonsense_mediated_decay 9.505611 10.86586 8.110157 1.086161 0.2504559 -0.42155 0.674212 0.7239368 0.8172981 0.18306254 0.41176615 0.1727514 0.07342917 0.06446667 0.10256667 0.0381000 1.000000000 0.002333265 FALSE TRUE
ENST00000496253 ENSG00000135953 HEK293_OSMI2_6hA HEK293_TMG_6hB MFSD9 protein_coding processed_transcript 9.505611 10.86586 8.110157 1.086161 0.2504559 -0.42155 0.874015 1.1439339 0.7543866 0.20837203 0.05876356 -0.5941862 0.09140417 0.10333333 0.09273333 -0.0106000 0.926406956 0.002333265 TRUE FALSE
MSTRG.18953.5 ENSG00000135953 HEK293_OSMI2_6hA HEK293_TMG_6hB MFSD9 protein_coding   9.505611 10.86586 8.110157 1.086161 0.2504559 -0.42155 2.410945 4.3895381 1.6312813 0.79789109 0.16341569 -1.4225295 0.24520833 0.39650000 0.20096667 -0.1955333 0.027222274 0.002333265 TRUE 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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000135953 E001 65.7273440 0.0040169038 6.095396e-04 6.663695e-03 2 102714630 102715839 1210 - 1.910 1.736 -0.589
ENSG00000135953 E002 35.6656671 0.0019338327 1.167180e-05 2.395625e-04 2 102715840 102716041 202 - 1.690 1.429 -0.892
ENSG00000135953 E003 89.5508685 0.0037883076 3.439395e-10 2.181062e-08 2 102716042 102717037 996 - 2.087 1.802 -0.957
ENSG00000135953 E004 48.8276309 0.0010486219 2.536519e-03 2.057210e-02 2 102717038 102717570 533 - 1.768 1.617 -0.513
ENSG00000135953 E005 85.2985432 0.0056802411 3.984498e-04 4.716712e-03 2 102717571 102718189 619 - 2.021 1.843 -0.597
ENSG00000135953 E006 123.4750205 0.0035747043 6.303517e-01 7.906657e-01 2 102718190 102718813 624 - 2.082 2.102 0.066
ENSG00000135953 E007 65.9800140 0.0092442086 9.223468e-03 5.481756e-02 2 102718814 102719003 190 - 1.727 1.894 0.564
ENSG00000135953 E008 82.4438631 0.0006236843 1.683877e-05 3.298283e-04 2 102719004 102719207 204 - 1.818 1.988 0.572
ENSG00000135953 E009 84.3920836 0.0034221307 3.201998e-03 2.461517e-02 2 102723700 102723878 179 - 1.849 1.986 0.462
ENSG00000135953 E010 37.4418817 0.0011167998 8.054892e-02 2.459422e-01 2 102723879 102723909 31 - 1.526 1.628 0.349
ENSG00000135953 E011 56.9094146 0.0077700175 6.814146e-02 2.209027e-01 2 102726845 102726917 73 - 1.694 1.811 0.396
ENSG00000135953 E012 49.6200117 0.0060173092 4.809809e-01 6.877539e-01 2 102726918 102726974 57 - 1.674 1.718 0.149
ENSG00000135953 E013 42.9548397 0.0009304723 1.749802e-01 3.971293e-01 2 102731025 102731068 44 - 1.595 1.669 0.252
ENSG00000135953 E014 11.6656276 0.0031108113 4.546185e-01 6.692341e-01 2 102732024 102732138 115 - 1.056 1.130 0.268
ENSG00000135953 E015 0.3503582 0.0298859065 8.791434e-01   2 102732286 102732321 36 - 0.133 0.111 -0.302
ENSG00000135953 E016 44.4587884 0.0077863228 1.952287e-01 4.236365e-01 2 102732322 102732392 71 - 1.602 1.685 0.284
ENSG00000135953 E017 27.3181823 0.0160989715 1.881185e-01 4.145604e-01 2 102732393 102732409 17 - 1.377 1.492 0.394
ENSG00000135953 E018 2.0234974 0.0194813647 8.216324e-01 9.089102e-01 2 102732410 102732426 17 - 0.445 0.483 0.192
ENSG00000135953 E019 3.3582822 0.0118861705 3.849561e-01 6.164836e-01 2 102736530 102736645 116 - 0.545 0.680 0.597
ENSG00000135953 E020 53.0261681 0.0123225021 4.516327e-02 1.680281e-01 2 102736646 102736888 243 - 1.648 1.785 0.465