ENSG00000178538

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
ENST00000317995 ENSG00000178538 HEK293_OSMI2_6hA HEK293_TMG_6hB CA8 protein_coding protein_coding 16.7279 11.08952 18.52584 2.030625 0.8028136 0.7398199 1.544726 0.5031408 2.443031 0.1213600 0.09708078 2.2571391 0.0881125 0.04416667 0.1326333 0.088466667 0.000327138 0.000327138 FALSE TRUE
ENST00000524872 ENSG00000178538 HEK293_OSMI2_6hA HEK293_TMG_6hB CA8 protein_coding retained_intron 16.7279 11.08952 18.52584 2.030625 0.8028136 0.7398199 9.828201 7.1702130 10.207904 1.3853405 0.20338248 0.5090007 0.5864458 0.64353333 0.5522333 -0.091300000 0.315666607 0.000327138 FALSE TRUE
MSTRG.31541.2 ENSG00000178538 HEK293_OSMI2_6hA HEK293_TMG_6hB CA8 protein_coding   16.7279 11.08952 18.52584 2.030625 0.8028136 0.7398199 5.132563 3.4073989 5.874906 0.5757955 0.69204306 0.7841207 0.3101500 0.31106667 0.3151333 0.004066667 1.000000000 0.000327138 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
ENSG00000178538 E001 132.9590313 0.0016499296 2.219626e-26 1.290902e-23 8 60185412 60189482 4071 - 2.236 1.834 -1.345
ENSG00000178538 E002 94.5553333 0.0004362748 4.454695e-05 7.543974e-04 8 60189483 60189985 503 - 2.025 1.876 -0.501
ENSG00000178538 E003 99.3902522 0.0088206541 5.047752e-02 1.807823e-01 8 60208071 60208749 679 - 1.944 2.059 0.385
ENSG00000178538 E004 145.7524554 0.0003126849 3.277841e-02 1.354353e-01 8 60208750 60208919 170 - 2.130 2.195 0.217
ENSG00000178538 E005 124.6256497 0.0018607557 4.631431e-03 3.264260e-02 8 60222649 60222761 113 - 2.043 2.149 0.354
ENSG00000178538 E006 102.2366172 0.0004940099 1.445386e-01 3.542192e-01 8 60224537 60224585 49 - 1.979 2.034 0.185
ENSG00000178538 E007 106.9130002 0.0019878376 3.968417e-01 6.258053e-01 8 60226873 60226935 63 - 2.032 2.002 -0.099
ENSG00000178538 E008 110.7566223 0.0003987932 5.283521e-01 7.208691e-01 8 60232284 60232379 96 - 2.046 2.029 -0.058
ENSG00000178538 E009 0.4756169 0.1307040927 4.392220e-02   8 60232485 60232673 189 - 0.000 0.344 12.637
ENSG00000178538 E010 0.1723744 0.0526267266 3.166004e-01   8 60264822 60265924 1103 - 0.000 0.147 11.057
ENSG00000178538 E011 158.7243530 0.0003643084 9.322552e-01 9.682666e-01 8 60265925 60266049 125 - 2.190 2.196 0.019
ENSG00000178538 E012 154.3452339 0.0094101566 4.881518e-01 6.927656e-01 8 60279689 60279880 192 - 2.167 2.199 0.109
ENSG00000178538 E013 95.9708875 0.0008499040 1.724256e-09 9.632179e-08 8 60281048 60281400 353 - 1.873 2.096 0.750