ENSG00000003989

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
ENST00000494857 ENSG00000003989 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC7A2 protein_coding protein_coding 6.506065 1.703902 8.682673 0.3715837 0.05460133 2.342515 3.0710485 0.4984916 5.2805889 0.4501523 0.7550630 3.3791323 0.40663333 0.3467667 0.6078000 0.26103333 0.543969185 0.002468779 FALSE TRUE
ENST00000522656 ENSG00000003989 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC7A2 protein_coding protein_coding 6.506065 1.703902 8.682673 0.3715837 0.05460133 2.342515 0.8009403 0.1051171 1.0936779 0.1051171 0.8710572 3.2611451 0.11014167 0.0827000 0.1272333 0.04453333 0.822788625 0.002468779 FALSE TRUE
ENST00000640220 ENSG00000003989 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC7A2 protein_coding protein_coding 6.506065 1.703902 8.682673 0.3715837 0.05460133 2.342515 0.6373160 0.7816788 0.0000000 0.7816788 0.0000000 -6.3068433 0.18450000 0.3199000 0.0000000 -0.31990000 0.340305294 0.002468779 FALSE TRUE
MSTRG.31200.1 ENSG00000003989 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC7A2 protein_coding   6.506065 1.703902 8.682673 0.3715837 0.05460133 2.342515 0.3453565 0.0000000 1.3590518 0.0000000 0.5473903 7.0970332 0.03929583 0.0000000 0.1562667 0.15626667 0.002468779 0.002468779 FALSE TRUE
MSTRG.31200.5 ENSG00000003989 HEK293_OSMI2_2hA HEK293_TMG_2hB SLC7A2 protein_coding   6.506065 1.703902 8.682673 0.3715837 0.05460133 2.342515 1.5853764 0.3186149 0.5902993 0.3186149 0.5902993 0.8692839 0.25116250 0.2506333 0.0675000 -0.18313333 0.873315262 0.002468779 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
ENSG00000003989 E001 0.8942170 0.0134323495 3.265446e-01 4.699707e-01 8 17497080 17497087 8 + 0.201 0.000 -17.673
ENSG00000003989 E002 0.8942170 0.0134323495 3.265446e-01 4.699707e-01 8 17497088 17497090 3 + 0.201 0.000 -17.671
ENSG00000003989 E003 10.0912009 0.0020906886 8.742799e-03 2.564221e-02 8 17497091 17497214 124 + 0.857 0.725 -0.525
ENSG00000003989 E004 7.4312396 0.0475922169 5.795472e-02 1.231284e-01 8 17497215 17497237 23 + 0.749 0.626 -0.517
ENSG00000003989 E005 0.8450104 0.0167076025 2.143290e-01 3.436443e-01 8 17501325 17501381 57 + 0.112 0.499 2.869
ENSG00000003989 E006 6.3679005 0.0993823920 6.469008e-01 7.586896e-01 8 17502257 17502259 3 + 0.666 0.807 0.574
ENSG00000003989 E007 12.7815735 0.0969924274 3.995114e-01 5.432585e-01 8 17502260 17502302 43 + 0.923 1.034 0.410
ENSG00000003989 E008 0.7384352 0.0169649876 4.344820e-01 5.768500e-01 8 17538777 17538869 93 + 0.174 0.000 -17.407
ENSG00000003989 E009 0.7341688 0.2704030914 5.741486e-01 7.000124e-01 8 17538870 17538922 53 + 0.173 0.000 -17.404
ENSG00000003989 E010 53.6752140 0.0017201331 5.023652e-10 7.858276e-09 8 17543318 17543715 398 + 1.536 1.353 -0.631
ENSG00000003989 E011 35.0157511 0.0006063057 1.946618e-05 1.211063e-04 8 17544451 17544606 156 + 1.349 1.286 -0.222
ENSG00000003989 E012 35.2922045 0.0005901381 4.531305e-05 2.580151e-04 8 17548678 17548843 166 + 1.349 1.309 -0.140
ENSG00000003989 E013 36.0709322 0.0005628549 6.581915e-05 3.599561e-04 8 17550301 17550434 134 + 1.357 1.331 -0.088
ENSG00000003989 E014 47.5391786 0.0061577898 1.462770e-04 7.310955e-04 8 17551764 17551986 223 + 1.469 1.463 -0.020
ENSG00000003989 E015 45.4914010 0.0020529700 3.478122e-05 2.034645e-04 8 17554560 17554699 140 + 1.453 1.446 -0.024
ENSG00000003989 E016 0.7384352 0.0169649876 4.344820e-01 5.768500e-01 8 17554946 17555082 137 + 0.174 0.000 -17.407
ENSG00000003989 E017 38.7144817 0.0005910221 6.214458e-04 2.611718e-03 8 17558295 17558397 103 + 1.381 1.429 0.166
ENSG00000003989 E018 51.2554507 0.0007437414 1.195180e-07 1.196939e-06 8 17560328 17560533 206 + 1.509 1.429 -0.276
ENSG00000003989 E019 46.8133254 0.0038456019 3.345760e-10 5.399569e-09 8 17561944 17562110 167 + 1.484 1.206 -0.970
ENSG00000003989 E020 36.8595843 0.0009239965 4.862141e-08 5.256623e-07 8 17563603 17563711 109 + 1.381 1.176 -0.718
ENSG00000003989 E021 737.2212904 0.0255821844 4.612848e-10 7.266674e-09 8 17564950 17570573 5624 + 2.564 3.054 1.630