ENSG00000166949

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
ENST00000327367 ENSG00000166949 HEK293_OSMI2_2hA HEK293_TMG_2hB SMAD3 protein_coding protein_coding 7.156657 9.230831 6.241549 0.1977233 0.1635815 -0.5638089 2.6251447 2.2312749 2.9385435 0.2469168 0.18699182 0.3956829 0.38393750 0.2427667 0.47196667 0.22920000 1.742402e-03 1.290653e-16 FALSE TRUE
ENST00000439724 ENSG00000166949 HEK293_OSMI2_2hA HEK293_TMG_2hB SMAD3 protein_coding protein_coding 7.156657 9.230831 6.241549 0.1977233 0.1635815 -0.5638089 0.4595933 0.4736256 0.5452238 0.4736256 0.27261233 0.1991789 0.06763750 0.0495000 0.08513333 0.03563333 5.797591e-01 1.290653e-16 FALSE TRUE
ENST00000560402 ENSG00000166949 HEK293_OSMI2_2hA HEK293_TMG_2hB SMAD3 protein_coding retained_intron 7.156657 9.230831 6.241549 0.1977233 0.1635815 -0.5638089 0.7711909 2.6902190 0.0000000 0.4349605 0.00000000 -8.0769326 0.08915417 0.2904667 0.00000000 -0.29046667 1.290653e-16 1.290653e-16 FALSE FALSE
ENST00000679624 ENSG00000166949 HEK293_OSMI2_2hA HEK293_TMG_2hB SMAD3 protein_coding protein_coding 7.156657 9.230831 6.241549 0.1977233 0.1635815 -0.5638089 1.7383826 2.5617383 0.9033604 0.5973611 0.18345282 -1.4934877 0.23571667 0.2797333 0.14440000 -0.13533333 2.844114e-01 1.290653e-16 FALSE TRUE
MSTRG.11093.3 ENSG00000166949 HEK293_OSMI2_2hA HEK293_TMG_2hB SMAD3 protein_coding   7.156657 9.230831 6.241549 0.1977233 0.1635815 -0.5638089 1.1855354 1.1610556 1.4058480 0.3220030 0.07244373 0.2738568 0.16970417 0.1253000 0.22580000 0.10050000 2.031310e-01 1.290653e-16 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
ENSG00000166949 E001 0.1482932 0.0414043397 6.672162e-01   15 67063763 67063944 182 + 0.000 0.108 9.385
ENSG00000166949 E002 20.5184841 0.0033827779 3.726719e-04 1.668200e-03 15 67065602 67066113 512 + 1.451 1.205 -0.859
ENSG00000166949 E003 43.0588010 0.0037396281 1.616877e-02 4.309646e-02 15 67066114 67066360 247 + 1.692 1.582 -0.373
ENSG00000166949 E004 0.0000000       15 67067785 67067913 129 +      
ENSG00000166949 E005 0.0000000       15 67077986 67078041 56 +      
ENSG00000166949 E006 0.0000000       15 67098582 67098678 97 +      
ENSG00000166949 E007 0.0000000       15 67098679 67098768 90 +      
ENSG00000166949 E008 0.4439371 0.0215610460 4.230771e-02 9.528589e-02 15 67098769 67099024 256 + 0.327 0.000 -14.332
ENSG00000166949 E009 0.0000000       15 67125716 67125984 269 +      
ENSG00000166949 E010 0.0000000       15 67128103 67128151 49 +      
ENSG00000166949 E011 0.0000000       15 67138001 67138100 100 +      
ENSG00000166949 E012 0.0000000       15 67138235 67138522 288 +      
ENSG00000166949 E013 0.0000000       15 67139566 67139722 157 +      
ENSG00000166949 E014 55.8338848 0.0004466875 1.528901e-03 5.730545e-03 15 67164895 67165088 194 + 1.807 1.694 -0.382
ENSG00000166949 E015 48.2834473 0.0005206609 2.767594e-01 4.162464e-01 15 67165253 67165384 132 + 1.692 1.671 -0.070
ENSG00000166949 E016 0.0000000       15 67166019 67166193 175 +      
ENSG00000166949 E017 0.1482932 0.0414043397 6.672162e-01   15 67166531 67166691 161 + 0.000 0.108 11.204
ENSG00000166949 E018 0.4782907 0.0214784349 1.547675e-01 2.681099e-01 15 67166692 67166778 87 + 0.000 0.267 12.993
ENSG00000166949 E019 46.6995059 0.0049462842 8.247588e-01 8.896029e-01 15 67166779 67166853 75 + 1.632 1.679 0.159
ENSG00000166949 E020 40.9060615 0.0006065256 3.882682e-01 5.323750e-01 15 67170554 67170604 51 + 1.553 1.636 0.281
ENSG00000166949 E021 0.1515154 0.0425414657 3.502129e-01   15 67170605 67170675 71 + 0.138 0.000 -12.469
ENSG00000166949 E022 0.1451727 0.0430334507 3.507036e-01   15 67174303 67174584 282 + 0.138 0.000 -12.463
ENSG00000166949 E023 0.5848540 0.0470854048 1.566838e-01 2.706871e-01 15 67180880 67181240 361 + 0.000 0.268 12.725
ENSG00000166949 E024 75.4986166 0.0004570377 9.424571e-02 1.817628e-01 15 67181241 67181453 213 + 1.890 1.856 -0.113
ENSG00000166949 E025 42.0442348 0.0005676508 7.600511e-05 4.090957e-04 15 67184727 67184774 48 + 1.721 1.544 -0.601
ENSG00000166949 E026 55.0251291 0.0004468521 1.388871e-03 5.270149e-03 15 67184775 67184864 90 + 1.802 1.687 -0.390
ENSG00000166949 E027 1.5437153 0.1256202326 8.401113e-01 9.001559e-01 15 67186662 67187019 358 + 0.397 0.387 -0.060
ENSG00000166949 E028 0.3030308 0.3539878470 1.903959e-01   15 67187020 67187130 111 + 0.243 0.000 -12.482
ENSG00000166949 E029 1.7047826 0.0937508037 3.152158e-01 4.579607e-01 15 67187131 67187364 234 + 0.511 0.332 -0.966
ENSG00000166949 E030 60.1739701 0.0063097333 7.610060e-02 1.532677e-01 15 67187365 67187509 145 + 1.812 1.742 -0.236
ENSG00000166949 E031 55.7289735 0.0008237015 4.489246e-02 1.000064e-01 15 67190413 67190550 138 + 1.776 1.714 -0.209
ENSG00000166949 E032 175.7976162 0.0002344088 9.108271e-01 9.473412e-01 15 67190551 67191625 1075 + 2.218 2.250 0.107
ENSG00000166949 E033 193.7214160 0.0031135420 4.944367e-03 1.577672e-02 15 67191626 67192872 1247 + 2.314 2.256 -0.196
ENSG00000166949 E034 507.6611182 0.0031932934 1.165427e-11 2.399595e-10 15 67192873 67195260 2388 + 2.568 2.760 0.640