ENSG00000111254

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
ENST00000228850 ENSG00000111254 HEK293_OSMI2_2hA HEK293_TMG_2hB AKAP3 protein_coding protein_coding 1.289053 0.8705299 1.921865 0.1462867 0.2126919 1.13355 0.4593853 0.1587492 0.6494522 0.09277276 0.32473052 1.9663878 0.3694042 0.2292333 0.3064667 0.07723333 0.90534958 0.02886315 FALSE TRUE
ENST00000540967 ENSG00000111254 HEK293_OSMI2_2hA HEK293_TMG_2hB AKAP3 protein_coding protein_coding 1.289053 0.8705299 1.921865 0.1462867 0.2126919 1.13355 0.1008029 0.0000000 0.2032947 0.00000000 0.07092861 4.4147760 0.0600250 0.0000000 0.1025667 0.10256667 0.02886315 0.02886315 FALSE FALSE
ENST00000544636 ENSG00000111254 HEK293_OSMI2_2hA HEK293_TMG_2hB AKAP3 protein_coding processed_transcript 1.289053 0.8705299 1.921865 0.1462867 0.2126919 1.13355 0.4827480 0.3446803 0.7479015 0.04331846 0.17511193 1.0954912 0.3587667 0.4037667 0.3791000 -0.02466667 0.95243596 0.02886315   FALSE
ENST00000545990 ENSG00000111254 HEK293_OSMI2_2hA HEK293_TMG_2hB AKAP3 protein_coding protein_coding 1.289053 0.8705299 1.921865 0.1462867 0.2126919 1.13355 0.2461171 0.3671005 0.3212162 0.18511551 0.32121621 -0.1871756 0.2118208 0.3670000 0.2118667 -0.15513333 0.49699462 0.02886315 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
ENSG00000111254 E001 0.6600969 0.028334315 0.687095623 0.78950110 12 4615508 4615517 10 - 0.183 0.257 0.625
ENSG00000111254 E002 10.4440186 0.010619162 0.001738255 0.00640252 12 4615518 4615894 377 - 0.893 1.222 1.200
ENSG00000111254 E003 46.2800903 0.009676551 0.945175336 0.96961105 12 4626496 4628416 1921 - 1.673 1.680 0.022
ENSG00000111254 E004 5.7520093 0.005853664 0.798078944 0.87113697 12 4628417 4628611 195 - 0.847 0.823 -0.095
ENSG00000111254 E005 6.9524768 0.039173032 0.738847300 0.82862643 12 4628612 4628805 194 - 0.922 0.871 -0.191
ENSG00000111254 E006 4.8811530 0.003615506 0.029174001 0.07033772 12 4638101 4638196 96 - 0.878 0.583 -1.214
ENSG00000111254 E007 2.5108703 0.007120160 0.842825796 0.90207973 12 4641899 4641985 87 - 0.559 0.534 -0.114
ENSG00000111254 E008 1.6219518 0.110430784 0.560210798 0.68822795 12 4641986 4642004 19 - 0.364 0.479 0.620
ENSG00000111254 E009 0.1482932 0.041928404 0.324603549   12 4642005 4642033 29 - 0.000 0.147 9.884
ENSG00000111254 E010 2.3971342 0.007786358 0.287170086 0.42764341 12 4645055 4645192 138 - 0.589 0.418 -0.835
ENSG00000111254 E011 0.0000000       12 4645193 4645200 8 -      
ENSG00000111254 E012 5.5930924 0.003229720 0.983067211 0.99347143 12 4648454 4648744 291 - 0.813 0.823 0.039
ENSG00000111254 E013 3.9928959 0.190848322 0.464806085 0.60449505 12 4648745 4648766 22 - 0.643 0.745 0.428
ENSG00000111254 E014 7.2529017 0.002706566 0.046697283 0.10329453 12 4648767 4649051 285 - 0.996 0.767 -0.878