ENSG00000011007

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
ENST00000487554 ENSG00000011007 HEK293_OSMI2_2hA HEK293_TMG_2hB ELOA protein_coding processed_transcript 33.90213 25.29971 49.29084 0.8675565 0.8469559 0.9619209 6.769885 0.4903448 11.59135 0.3563760 0.09379089 4.5352258 0.1616875 0.01883333 0.2353333 0.2165000 0.0004501534 0.0004501534 FALSE TRUE
ENST00000613537 ENSG00000011007 HEK293_OSMI2_2hA HEK293_TMG_2hB ELOA protein_coding protein_coding 33.90213 25.29971 49.29084 0.8675565 0.8469559 0.9619209 26.091441 24.4273826 35.99216 0.8166265 0.93852940 0.5589935 0.8061042 0.96583333 0.7300000 -0.2358333 0.0004964981 0.0004501534 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
ENSG00000011007 E001 8.333064 0.0020311293 1.375235e-03 5.226048e-03 1 23743448 23743470 23 + 1.105 0.714 -1.489
ENSG00000011007 E002 130.637886 0.0099694188 1.745816e-04 8.551988e-04 1 23743471 23743578 108 + 2.211 1.981 -0.770
ENSG00000011007 E003 1.757661 0.0378423410 7.391716e-01 8.288723e-01 1 23744034 23744270 237 + 0.470 0.401 -0.361
ENSG00000011007 E004 149.761513 0.0055256043 9.204967e-05 4.846191e-04 1 23749021 23749077 57 + 2.257 2.063 -0.649
ENSG00000011007 E005 260.038582 0.0052930260 2.597631e-04 1.215906e-03 1 23749842 23749948 107 + 2.484 2.322 -0.541
ENSG00000011007 E006 1560.553931 0.0023035424 1.065547e-07 1.076956e-06 1 23750845 23752030 1186 + 3.244 3.127 -0.391
ENSG00000011007 E007 360.251907 0.0001798023 7.275193e-01 8.201850e-01 1 23752407 23752518 112 + 2.566 2.550 -0.053
ENSG00000011007 E008 200.250266 0.0002250628 9.123347e-01 9.484403e-01 1 23754100 23754116 17 + 2.308 2.302 -0.020
ENSG00000011007 E009 399.362619 0.0001523899 8.400386e-01 9.001086e-01 1 23754117 23754255 139 + 2.609 2.596 -0.043
ENSG00000011007 E010 315.668368 0.0002765598 2.672919e-01 4.055912e-01 1 23754363 23754460 98 + 2.495 2.509 0.046
ENSG00000011007 E011 463.670402 0.0001665747 6.113862e-04 2.574810e-03 1 23755843 23756023 181 + 2.645 2.694 0.162
ENSG00000011007 E012 6.190586 0.0027028098 1.112164e-02 3.145658e-02 1 23756024 23756273 250 + 0.985 0.645 -1.341
ENSG00000011007 E013 388.872208 0.0001581604 1.154553e-08 1.407598e-07 1 23756274 23756385 112 + 2.546 2.641 0.316
ENSG00000011007 E014 507.565315 0.0034100706 2.531037e-04 1.188183e-03 1 23756953 23757125 173 + 2.654 2.758 0.345
ENSG00000011007 E015 1590.178517 0.0024710376 5.344044e-05 2.989379e-04 1 23759512 23762059 2548 + 3.166 3.238 0.240