ENSG00000169136

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
ENST00000423777 ENSG00000169136 HEK293_OSMI2_2hA HEK293_TMG_2hB ATF5 protein_coding protein_coding 69.37681 136.0719 47.82278 1.075318 0.9818352 -1.508404 37.397438 71.508264 24.811013 3.1147670 0.8442760 -1.5267498 0.55238750 0.52566667 0.5186333 -0.007033333 9.573131e-01 1.842673e-05 FALSE  
ENST00000578027 ENSG00000169136 HEK293_OSMI2_2hA HEK293_TMG_2hB ATF5 protein_coding miRNA 69.37681 136.0719 47.82278 1.075318 0.9818352 -1.508404 27.835984 58.897786 18.004613 3.3833172 0.1896996 -1.7092907 0.37930417 0.43273333 0.3769333 -0.055800000 3.611313e-01 1.842673e-05    
ENST00000600336 ENSG00000169136 HEK293_OSMI2_2hA HEK293_TMG_2hB ATF5 protein_coding protein_coding 69.37681 136.0719 47.82278 1.075318 0.9818352 -1.508404 3.270178 4.173881 4.533935 0.5452567 0.6229509 0.1191003 0.05546667 0.03063333 0.0944000 0.063766667 1.842673e-05 1.842673e-05 FALSE  
  • 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
ENSG00000169136 E001 13.611856 0.0019655212 1.206796e-01 2.209375e-01 19 49928702 49929006 305 + 1.188 1.045 -0.515
ENSG00000169136 E002 37.343681 0.0066079223 5.265322e-01 6.597563e-01 19 49929205 49929216 12 + 1.515 1.481 -0.118
ENSG00000169136 E003 158.222652 0.0002593873 1.233777e-08 1.496194e-07 19 49929217 49929221 5 + 2.235 2.070 -0.552
ENSG00000169136 E004 299.900396 0.0001711121 1.763218e-03 6.482494e-03 19 49929222 49929242 21 + 2.433 2.374 -0.197
ENSG00000169136 E005 600.756423 0.0011089986 5.787455e-03 1.805424e-02 19 49929243 49929400 158 + 2.721 2.677 -0.145
ENSG00000169136 E006 1.439328 0.0382075438 9.288529e-01 9.592486e-01 19 49929701 49929865 165 + 0.333 0.323 -0.063
ENSG00000169136 E007 1.257508 0.0989709072 1.336308e-01 2.391930e-01 19 49930219 49930432 214 + 0.001 0.358 9.410
ENSG00000169136 E008 689.430077 0.0003815326 7.090520e-01 8.065409e-01 19 49930732 49931028 297 + 2.730 2.751 0.072
ENSG00000169136 E009 11.122171 0.0016035714 1.249841e-02 3.473050e-02 19 49931029 49931229 201 + 1.188 0.940 -0.905
ENSG00000169136 E010 998.158310 0.0004342765 8.549002e-02 1.681950e-01 19 49932422 49933063 642 + 2.875 2.916 0.136
ENSG00000169136 E011 2127.380467 0.0015933989 1.523006e-02 4.100752e-02 19 49933064 49933935 872 + 3.198 3.247 0.165