ENSG00000008516

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
ENST00000336577 ENSG00000008516 HEK293_OSMI2_6hA HEK293_TMG_6hB MMP25 protein_coding protein_coding 0.4356762 0.3695266 0.6930983 0.07446206 0.4865933 0.8895253 0.28377408 0.2354840 0.04751665 0.05264284 0.04751665 -2.093578 0.73370833 0.6305667 0.3333333 -0.2972333 0.628233101 0.004840279 FALSE TRUE
ENST00000575441 ENSG00000008516 HEK293_OSMI2_6hA HEK293_TMG_6hB MMP25 protein_coding retained_intron 0.4356762 0.3695266 0.6930983 0.07446206 0.4865933 0.8895253 0.04298254 0.0000000 0.28140670 0.00000000 0.28140670 4.864962 0.04652500 0.0000000 0.1691667 0.1691667 0.755390598 0.004840279 FALSE FALSE
ENST00000612971 ENSG00000008516 HEK293_OSMI2_6hA HEK293_TMG_6hB MMP25 protein_coding nonsense_mediated_decay 0.4356762 0.3695266 0.6930983 0.07446206 0.4865933 0.8895253 0.05955634 0.1268383 0.01383071 0.02637542 0.01383071 -2.521579 0.14204167 0.3486000 0.0083000 -0.3403000 0.004840279 0.004840279 TRUE TRUE
MSTRG.11909.3 ENSG00000008516 HEK293_OSMI2_6hA HEK293_TMG_6hB MMP25 protein_coding   0.4356762 0.3695266 0.6930983 0.07446206 0.4865933 0.8895253 0.01448797 0.0000000 0.10261146 0.00000000 0.10261146 3.493282 0.01295833 0.0000000 0.0617000 0.0617000 0.684877372 0.004840279 TRUE TRUE
MSTRG.11909.6 ENSG00000008516 HEK293_OSMI2_6hA HEK293_TMG_6hB MMP25 protein_coding   0.4356762 0.3695266 0.6930983 0.07446206 0.4865933 0.8895253 0.01925598 0.0000000 0.15404788 0.00000000 0.07759146 4.036045 0.04307083 0.0000000 0.3445667 0.3445667 0.511307442 0.004840279 TRUE 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
ENSG00000008516 E001 2.2361425 0.012198908 0.195889442 0.42443712 16 3046062 3046560 499 + 0.321 0.516 1.058
ENSG00000008516 E002 1.8083087 0.018325687 0.008902693 0.05338189 16 3046561 3047016 456 + 0.000 0.515 13.653
ENSG00000008516 E003 0.0000000       16 3047083 3047414 332 +      
ENSG00000008516 E004 1.3915740 0.013926903 0.664024053 0.81238649 16 3047415 3047530 116 + 0.321 0.367 0.282
ENSG00000008516 E005 1.2248092 0.016867073 0.580459397   16 3047531 3047547 17 + 0.422 0.290 -0.792
ENSG00000008516 E006 2.3484899 0.013100458 0.685811534 0.82635828 16 3050009 3050144 136 + 0.573 0.462 -0.531
ENSG00000008516 E007 0.0000000       16 3050250 3050253 4 +      
ENSG00000008516 E008 5.4661656 0.007216152 0.635006685 0.79356712 16 3050254 3050546 293 + 0.847 0.730 -0.465
ENSG00000008516 E009 0.6368449 0.020303256 0.217014132   16 3055830 3056078 249 + 0.000 0.246 12.075
ENSG00000008516 E010 0.0000000       16 3056079 3056162 84 +      
ENSG00000008516 E011 1.4238707 1.214037103 0.153630789 0.36749927 16 3056794 3057032 239 + 0.761 0.000 -16.280
ENSG00000008516 E012 2.7624481 0.010402300 0.239561210 0.47611461 16 3057033 3057209 177 + 0.422 0.585 0.792
ENSG00000008516 E013 0.1614157 0.043721516 0.195011586   16 3057210 3057227 18 + 0.189 0.000 -13.157
ENSG00000008516 E014 0.0000000       16 3057228 3057309 82 +      
ENSG00000008516 E015 1.3686612 0.019218147 0.215816262   16 3057310 3057394 85 + 0.190 0.401 1.469
ENSG00000008516 E016 0.1779838 0.031963947 0.195416447   16 3057395 3057530 136 + 0.190 0.000 -13.158
ENSG00000008516 E017 0.9289411 0.019387492 0.093330601   16 3057531 3057613 83 + 0.000 0.330 12.657
ENSG00000008516 E018 0.0000000       16 3057614 3058180 567 +      
ENSG00000008516 E019 0.7087110 0.033462181 0.213929536   16 3058181 3058333 153 + 0.000 0.246 12.081
ENSG00000008516 E020 0.2027342 0.069934979 1.000000000   16 3058334 3058411 78 + 0.000 0.076 10.083
ENSG00000008516 E021 1.5788376 0.102631115 0.216971309 0.44984281 16 3058412 3058669 258 + 0.190 0.407 1.502
ENSG00000008516 E022 0.0000000       16 3058670 3058826 157 +      
ENSG00000008516 E023 15.0393666 0.231356405 0.279024057 0.51910806 16 3058827 3060726 1900 + 1.279 1.096 -0.648