ENSG00000178741

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
ENST00000564811 ENSG00000178741 HEK293_OSMI2_6hA HEK293_TMG_6hB COX5A protein_coding protein_coding 539.0258 624.3054 333.9582 122.4633 8.792666 -0.9025641 91.30646 137.92091 20.966225 24.30678 10.847233 -2.7171188 0.17646250 0.22420000 0.06453333 -0.15966667 0.10719379 0.00279295 FALSE TRUE
ENST00000567270 ENSG00000178741 HEK293_OSMI2_6hA HEK293_TMG_6hB COX5A protein_coding protein_coding 539.0258 624.3054 333.9582 122.4633 8.792666 -0.9025641 41.43519 51.94539 18.767711 11.96351 1.176543 -1.4682522 0.07012917 0.08173333 0.05610000 -0.02563333 0.05030930 0.00279295 FALSE TRUE
MSTRG.11214.2 ENSG00000178741 HEK293_OSMI2_6hA HEK293_TMG_6hB COX5A protein_coding   539.0258 624.3054 333.9582 122.4633 8.792666 -0.9025641 344.87359 371.23407 265.867325 75.43533 15.687847 -0.4816072 0.63970833 0.59336667 0.79480000 0.20143333 0.00279295 0.00279295 TRUE TRUE
MSTRG.11214.7 ENSG00000178741 HEK293_OSMI2_6hA HEK293_TMG_6hB COX5A protein_coding   539.0258 624.3054 333.9582 122.4633 8.792666 -0.9025641 27.97955 28.18725 9.865803 6.38511 2.073269 -1.5135846 0.05423333 0.04453333 0.02926667 -0.01526667 0.49320259 0.00279295 TRUE 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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000178741 E001 1.8251323 0.4386871429 6.631886e-01 8.118874e-01 15 74918812 74918833 22 - 0.462 0.412 -0.264
ENSG00000178741 E002 3.8484421 0.1265672099 8.824463e-01 9.425729e-01 15 74918834 74918943 110 - 0.676 0.645 -0.132
ENSG00000178741 E003 102.0177489 0.0004253333 7.403921e-06 1.616139e-04 15 74919791 74920270 480 - 2.081 1.927 -0.516
ENSG00000178741 E004 29.9730307 0.0012402948 2.326412e-02 1.067981e-01 15 74920271 74920274 4 - 1.552 1.413 -0.478
ENSG00000178741 E005 55.2791250 0.0033214301 1.247657e-02 6.834654e-02 15 74920275 74920279 5 - 1.610 1.769 0.538
ENSG00000178741 E006 80.3084400 0.0014212763 2.589044e-01 4.977408e-01 15 74920280 74920311 32 - 1.838 1.902 0.214
ENSG00000178741 E007 74.7899607 0.0032608921 4.610577e-01 6.738865e-01 15 74920312 74920317 6 - 1.816 1.868 0.174
ENSG00000178741 E008 2194.8161771 0.0014560065 2.005119e-04 2.681435e-03 15 74920318 74920442 125 - 3.347 3.292 -0.183
ENSG00000178741 E009 6.5627153 0.0070381346 3.940907e-02 1.532532e-01 15 74923594 74923647 54 - 1.016 0.769 -0.942
ENSG00000178741 E010 3751.2367465 0.0009059794 1.769779e-08 7.863664e-07 15 74923648 74923770 123 - 3.583 3.522 -0.202
ENSG00000178741 E011 3742.5101261 0.0002470870 5.662296e-04 6.276684e-03 15 74926766 74926887 122 - 3.553 3.535 -0.058
ENSG00000178741 E012 3263.4376331 0.0004848834 4.166509e-05 7.123418e-04 15 74929116 74929232 117 - 3.445 3.498 0.177
ENSG00000178741 E013 5.0692917 0.0057858078 2.722032e-01 5.120729e-01 15 74937688 74937914 227 - 0.631 0.802 0.703
ENSG00000178741 E014 2108.2381267 0.0049683676 1.116949e-06 3.125451e-05 15 74937915 74938036 122 - 3.175 3.338 0.544
ENSG00000178741 E015 328.5275931 0.0110069537 2.046069e-09 1.125590e-07 15 74938037 74938126 90 - 2.218 2.571 1.178
ENSG00000178741 E016 6.9156627 0.0042158018 2.715678e-01 5.114351e-01 15 74938400 74938720 321 - 0.755 0.909 0.603
ENSG00000178741 E017 0.5115862 0.0217681645 9.540166e-01   15 74938804 74939088 285 - 0.167 0.160 -0.077
ENSG00000178741 E018 0.0000000       15 74939250 74939292 43 -