ENSG00000176890

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
ENST00000323274 ENSG00000176890 HEK293_OSMI2_6hA HEK293_TMG_6hB TYMS protein_coding protein_coding 142.1265 112.181 130.4981 12.86415 5.371923 0.2181817 123.17085 103.22295 103.55072 11.594503 4.545580 0.004573378 0.8667333 0.92073333 0.7934000 -0.1273333 3.891308e-11 3.891308e-11 FALSE TRUE
ENST00000581920 ENSG00000176890 HEK293_OSMI2_6hA HEK293_TMG_6hB TYMS protein_coding processed_transcript 142.1265 112.181 130.4981 12.86415 5.371923 0.2181817 11.51677 4.04381 19.46443 2.129218 1.054149 2.264230429 0.0807000 0.03223333 0.1495333 0.1173000 5.449345e-01 3.891308e-11 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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000176890 E001 1.517641 0.01242389 5.149217e-01 7.116047e-01 18 657599 657603 5 + 0.410 0.378 -0.181
ENSG00000176890 E002 10.036239 0.05563516 2.150109e-02 1.009752e-01 18 657604 657652 49 + 0.890 1.047 0.586
ENSG00000176890 E003 13.921250 0.04749602 3.083401e-03 2.391821e-02 18 657653 657664 12 + 0.969 1.187 0.794
ENSG00000176890 E004 83.638070 0.01575640 5.095094e-16 8.892746e-14 18 657665 657742 78 + 1.539 1.959 1.421
ENSG00000176890 E005 430.422282 1.03714621 3.539359e-01 5.907808e-01 18 657743 657947 205 + 2.653 2.555 -0.327
ENSG00000176890 E006 1.102123 0.01505978 5.438431e-01   18 657948 658169 222 + 0.311 0.299 -0.081
ENSG00000176890 E007 1.874893 0.10282855 6.638975e-01 8.123312e-01 18 658264 658748 485 + 0.560 0.344 -1.125
ENSG00000176890 E008 557.021801 0.04662637 1.540298e-01 3.680465e-01 18 659641 659714 74 + 2.894 2.590 -1.013
ENSG00000176890 E009 1070.641587 0.17296662 2.446988e-01 4.818474e-01 18 662146 662320 175 + 3.185 2.867 -1.057
ENSG00000176890 E010 1.113270 0.01405820 5.396085e-01   18 667721 667752 32 + 0.311 0.299 -0.080
ENSG00000176890 E011 874.769885 0.07582534 2.955591e-01 5.360707e-01 18 669072 669173 102 + 3.071 2.800 -0.901
ENSG00000176890 E012 34.631417 0.27977189 5.888125e-02 2.002241e-01 18 669174 669464 291 + 1.846 1.243 -2.065
ENSG00000176890 E013 1140.673251 1.48339942 5.160914e-01 7.123175e-01 18 670692 670867 176 + 3.141 2.943 -0.657
ENSG00000176890 E014 832.371085 1.36826891 5.197103e-01 7.148195e-01 18 671380 671451 72 + 3.014 2.801 -0.710
ENSG00000176890 E015 13.005219 0.19877687 6.599503e-01 8.099583e-01 18 671799 671906 108 + 1.197 1.064 -0.479
ENSG00000176890 E016 1771.073486 1.67110644 5.650250e-01 7.468144e-01 18 672860 673578 719 + 3.345 3.126 -0.726