ENSG00000099904

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
ENST00000320602 ENSG00000099904 HEK293_OSMI2_2hA HEK293_TMG_2hB ZDHHC8 protein_coding protein_coding 28.60339 31.49147 22.5313 4.022782 0.9817512 -0.4828485 2.3054017 4.455503 1.4991842 0.4102206 0.2553213 -1.5650539 0.08016667 0.1452667 0.06583333 -0.07943333 0.008109542 0.005345528 FALSE TRUE
ENST00000436518 ENSG00000099904 HEK293_OSMI2_2hA HEK293_TMG_2hB ZDHHC8 protein_coding protein_coding 28.60339 31.49147 22.5313 4.022782 0.9817512 -0.4828485 1.1231239 0.000000 1.6852851 0.0000000 0.8627515 7.4053841 0.04423333 0.0000000 0.07453333 0.07453333 0.154370508 0.005345528 FALSE FALSE
ENST00000469212 ENSG00000099904 HEK293_OSMI2_2hA HEK293_TMG_2hB ZDHHC8 protein_coding retained_intron 28.60339 31.49147 22.5313 4.022782 0.9817512 -0.4828485 0.4653905 0.000000 1.2401119 0.0000000 0.6207431 6.9659134 0.01798333 0.0000000 0.05316667 0.05316667 0.147770769 0.005345528 FALSE FALSE
ENST00000472497 ENSG00000099904 HEK293_OSMI2_2hA HEK293_TMG_2hB ZDHHC8 protein_coding retained_intron 28.60339 31.49147 22.5313 4.022782 0.9817512 -0.4828485 6.2196576 4.900552 6.0909412 1.1524960 0.2060785 0.3131466 0.21709583 0.1509667 0.27106667 0.12010000 0.005345528 0.005345528 FALSE FALSE
MSTRG.21655.3 ENSG00000099904 HEK293_OSMI2_2hA HEK293_TMG_2hB ZDHHC8 protein_coding   28.60339 31.49147 22.5313 4.022782 0.9817512 -0.4828485 2.2680664 4.062353 0.2007182 1.0414873 0.2007182 -4.2724759 0.07253333 0.1247667 0.00890000 -0.11586667 0.025889339 0.005345528 FALSE TRUE
MSTRG.21655.4 ENSG00000099904 HEK293_OSMI2_2hA HEK293_TMG_2hB ZDHHC8 protein_coding   28.60339 31.49147 22.5313 4.022782 0.9817512 -0.4828485 3.5571137 4.968073 1.8142517 0.6692574 0.2963001 -1.4482826 0.12453750 0.1595333 0.08053333 -0.07900000 0.025829793 0.005345528 FALSE TRUE
MSTRG.21655.6 ENSG00000099904 HEK293_OSMI2_2hA HEK293_TMG_2hB ZDHHC8 protein_coding   28.60339 31.49147 22.5313 4.022782 0.9817512 -0.4828485 10.2096395 9.485202 7.8715360 1.8330205 0.1692660 -0.2687219 0.35915417 0.2969667 0.35133333 0.05436667 0.471521624 0.005345528 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
ENSG00000099904 E001 0.1451727 0.0433323808 2.850099e-01   22 20129456 20129542 87 + 0.150 0.000 -10.086
ENSG00000099904 E002 16.9850757 0.0010612275 3.850835e-04 1.717119e-03 22 20131804 20131947 144 + 1.382 1.124 -0.908
ENSG00000099904 E003 37.0655458 0.0035968714 3.217968e-03 1.090873e-02 22 20131948 20131994 47 + 1.643 1.490 -0.520
ENSG00000099904 E004 68.0811519 0.0093642630 5.974160e-04 2.524225e-03 22 20131995 20132051 57 + 1.922 1.744 -0.599
ENSG00000099904 E005 154.3653212 0.0003095987 3.133531e-09 4.236137e-08 22 20139194 20139315 122 + 2.248 2.109 -0.464
ENSG00000099904 E006 154.2895907 0.0002538408 1.324761e-04 6.697585e-04 22 20139478 20139543 66 + 2.208 2.131 -0.259
ENSG00000099904 E007 92.9219075 0.0003379602 2.184968e-01 3.485926e-01 22 20139544 20139551 8 + 1.947 1.935 -0.041
ENSG00000099904 E008 151.4025505 0.0002733189 7.986701e-03 2.374502e-02 22 20139552 20139635 84 + 2.178 2.134 -0.148
ENSG00000099904 E009 164.2273640 0.0013978851 1.156628e-01 2.137774e-01 22 20139720 20139815 96 + 2.194 2.180 -0.045
ENSG00000099904 E010 125.2313235 0.0002711831 4.729398e-03 1.517616e-02 22 20139816 20139892 77 + 2.105 2.047 -0.193
ENSG00000099904 E011 47.8182679 0.0020799645 2.037033e-06 1.582051e-05 22 20139893 20139936 44 + 1.790 1.566 -0.761
ENSG00000099904 E012 81.2582962 0.0029051230 2.957584e-12 6.721515e-11 22 20139937 20140114 178 + 2.049 1.763 -0.964
ENSG00000099904 E013 151.9035242 0.0003168620 3.550674e-02 8.262723e-02 22 20140115 20140217 103 + 2.171 2.143 -0.094
ENSG00000099904 E014 71.1898249 0.0003847618 1.226349e-20 8.460604e-19 22 20140405 20140616 212 + 2.028 1.672 -1.201
ENSG00000099904 E015 201.2467071 0.0001896037 1.179414e-01 2.169848e-01 22 20140617 20140708 92 + 2.278 2.272 -0.018
ENSG00000099904 E016 130.3827233 0.0002389773 6.271400e-01 7.429698e-01 22 20140871 20140904 34 + 2.074 2.094 0.065
ENSG00000099904 E017 230.4923068 0.0002129700 5.557780e-01 6.845935e-01 22 20140905 20141012 108 + 2.317 2.338 0.071
ENSG00000099904 E018 234.3154424 0.0001811125 7.836480e-01 8.611788e-01 22 20141217 20141337 121 + 2.321 2.350 0.096
ENSG00000099904 E019 218.6376221 0.0001925381 9.972205e-02 1.900512e-01 22 20141421 20141530 110 + 2.313 2.307 -0.019
ENSG00000099904 E020 5.2978893 0.0404606312 1.355207e-02 3.719980e-02 22 20141531 20141532 2 + 0.967 0.614 -1.410
ENSG00000099904 E021 741.0622482 0.0012045825 5.380486e-03 1.696148e-02 22 20142756 20143756 1001 + 2.775 2.872 0.324
ENSG00000099904 E022 309.6776025 0.0002800355 4.882630e-10 7.657281e-09 22 20145229 20145487 259 + 2.335 2.513 0.592
ENSG00000099904 E023 865.5977365 0.0057993274 5.980230e-08 6.343786e-07 22 20145488 20147020 1533 + 2.754 2.977 0.741
ENSG00000099904 E024 16.7273368 0.0101071616 9.070717e-01 9.450053e-01 22 20147021 20148007 987 + 1.189 1.236 0.166