ENSG00000140006

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
ENST00000267522 ENSG00000140006 HEK293_OSMI2_6hA HEK293_TMG_6hB WDR89 protein_coding protein_coding 7.856474 2.121406 12.44899 0.4598217 0.448065 2.547309 0.5842749 0.0000000 1.768941 0.0000000 1.0418450 7.474875 0.0439750 0.0000 0.1446667 0.14466667 0.5614795035 0.0001382216 FALSE TRUE
ENST00000620954 ENSG00000140006 HEK293_OSMI2_6hA HEK293_TMG_6hB WDR89 protein_coding protein_coding 7.856474 2.121406 12.44899 0.4598217 0.448065 2.547309 4.3998352 1.9269648 6.475905 0.4970221 0.3390313 1.743510 0.6794667 0.8857 0.5210667 -0.36463333 0.1268764435 0.0001382216 FALSE TRUE
MSTRG.9690.1 ENSG00000140006 HEK293_OSMI2_6hA HEK293_TMG_6hB WDR89 protein_coding   7.856474 2.121406 12.44899 0.4598217 0.448065 2.547309 1.5040119 0.0000000 2.561500 0.0000000 0.7787405 8.006467 0.1128208 0.0000 0.2040667 0.20406667 0.0001382216 0.0001382216 FALSE TRUE
MSTRG.9690.4 ENSG00000140006 HEK293_OSMI2_6hA HEK293_TMG_6hB WDR89 protein_coding   7.856474 2.121406 12.44899 0.4598217 0.448065 2.547309 1.1413654 0.1944414 1.296459 0.0988770 0.2747082 2.675902 0.1422917 0.1143 0.1027667 -0.01153333 0.9662798852 0.0001382216 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
ENSG00000140006 E001 0.000000       14 63581842 63581898 57 -      
ENSG00000140006 E002 141.603197 0.0549264807 0.402722053 0.63055113 14 63597039 63598501 1463 - 2.024 2.181 0.525
ENSG00000140006 E003 52.597631 0.0007783393 0.723573709 0.85025919 14 63598502 63598755 254 - 1.635 1.677 0.144
ENSG00000140006 E004 105.666395 0.1810345486 0.481219699 0.68789983 14 63598756 63599262 507 - 1.915 2.007 0.311
ENSG00000140006 E005 132.171965 0.0004040635 0.002451091 0.02001599 14 63599263 63599973 711 - 2.043 2.005 -0.127
ENSG00000140006 E006 33.359143 0.0105718421 0.115316156 0.30799156 14 63624928 63625033 106 - 1.462 1.394 -0.234
ENSG00000140006 E007 7.187375 0.0056027315 0.055156603 0.19168460 14 63641299 63641407 109 - 0.871 0.627 -0.992
ENSG00000140006 E008 3.310107 0.0071050651 0.867546145 0.93459839 14 63641408 63641490 83 - 0.553 0.627 0.331
ENSG00000140006 E009 14.490879 0.0294353747 0.433534520 0.65391366 14 63641804 63641871 68 - 1.074 1.217 0.515