ENSG00000087448

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
ENST00000381271 ENSG00000087448 HEK293_OSMI2_2hA HEK293_TMG_2hB KLHL42 protein_coding protein_coding 12.00512 9.291489 12.8949 0.641464 0.4603469 0.4723853 4.757601 3.380135 7.226111 0.24259376 0.30695957 1.0938719 0.3958542 0.3704333 0.5605333 0.190100000 0.03070674 0.03070674 FALSE TRUE
ENST00000539176 ENSG00000087448 HEK293_OSMI2_2hA HEK293_TMG_2hB KLHL42 protein_coding nonsense_mediated_decay 12.00512 9.291489 12.8949 0.641464 0.4603469 0.4723853 1.327574 1.212044 1.261108 0.06662509 0.16040825 0.0567895 0.1121917 0.1318333 0.0980000 -0.033833333 0.45950836 0.03070674 TRUE TRUE
ENST00000543254 ENSG00000087448 HEK293_OSMI2_2hA HEK293_TMG_2hB KLHL42 protein_coding protein_coding 12.00512 9.291489 12.8949 0.641464 0.4603469 0.4723853 3.685742 3.479245 2.873245 0.82036607 0.08912576 -0.2752215 0.3089583 0.3674333 0.2235667 -0.143866667 0.21228457 0.03070674 FALSE TRUE
MSTRG.7019.2 ENSG00000087448 HEK293_OSMI2_2hA HEK293_TMG_2hB KLHL42 protein_coding   12.00512 9.291489 12.8949 0.641464 0.4603469 0.4723853 2.000089 1.139585 1.474311 0.29496705 0.24666599 0.3686811 0.1645500 0.1213333 0.1134000 -0.007933333 0.96865764 0.03070674   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
ENSG00000087448 E001 6.486352 0.0127802679 1.200159e-01 2.200115e-01 12 27780048 27780199 152 + 1.024 0.676 -1.355
ENSG00000087448 E002 4.513475 0.0747097728 1.313566e-01 2.360366e-01 12 27780200 27780232 33 + 0.913 0.506 -1.702
ENSG00000087448 E003 15.081672 0.0424850636 2.795612e-01 4.193324e-01 12 27780233 27780286 54 + 1.205 1.196 -0.031
ENSG00000087448 E004 36.059716 0.0205751129 8.788569e-02 1.719049e-01 12 27780287 27780381 95 + 1.567 1.560 -0.024
ENSG00000087448 E005 131.994488 0.0083582752 9.620892e-06 6.421170e-05 12 27780382 27780866 485 + 2.082 2.143 0.204
ENSG00000087448 E006 170.079342 0.0051978840 7.214071e-09 9.123392e-08 12 27780867 27781202 336 + 2.185 2.257 0.241
ENSG00000087448 E007 2.410774 0.1481059039 2.985910e-01 4.400470e-01 12 27787635 27788208 574 + 0.485 0.573 0.412
ENSG00000087448 E008 149.518457 0.0003144665 2.691623e-18 1.405900e-16 12 27791708 27791901 194 + 2.120 2.207 0.291
ENSG00000087448 E009 11.639204 0.0015393871 9.279594e-05 4.881817e-04 12 27791902 27792143 242 + 1.325 0.775 -2.022
ENSG00000087448 E010 34.680921 0.0006940207 3.042245e-08 3.420631e-07 12 27797247 27797349 103 + 1.447 1.619 0.589
ENSG00000087448 E011 13.350420 0.0021553932 7.029789e-01 8.017172e-01 12 27797350 27797443 94 + 1.223 1.106 -0.417
ENSG00000087448 E012 873.609959 0.0171283595 2.274803e-07 2.157686e-06 12 27797715 27803040 5326 + 3.085 2.781 -1.009