ENSG00000135119

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
ENST00000257575 ENSG00000135119 HEK293_OSMI2_2hA HEK293_TMG_2hB RNFT2 protein_coding protein_coding 3.098526 5.350298 1.269429 0.5887384 0.1275447 -2.066813 1.29547316 1.69359748 0.4305572 0.06741912 0.01734758 -1.9511831 0.44067083 0.324533333 0.34340000 0.01886667 9.181855e-01 3.523384e-05 FALSE TRUE
ENST00000392549 ENSG00000135119 HEK293_OSMI2_2hA HEK293_TMG_2hB RNFT2 protein_coding protein_coding 3.098526 5.350298 1.269429 0.5887384 0.1275447 -2.066813 0.17375336 0.01192524 0.1335631 0.01192524 0.13356305 2.7110202 0.09714583 0.001833333 0.10910000 0.10726667 7.215371e-01 3.523384e-05 FALSE TRUE
ENST00000407967 ENSG00000135119 HEK293_OSMI2_2hA HEK293_TMG_2hB RNFT2 protein_coding protein_coding 3.098526 5.350298 1.269429 0.5887384 0.1275447 -2.066813 0.12908603 0.14333691 0.2496394 0.07192409 0.12589178 0.7598046 0.07555417 0.025400000 0.21916667 0.19376667 4.472629e-01 3.523384e-05 FALSE TRUE
ENST00000551251 ENSG00000135119 HEK293_OSMI2_2hA HEK293_TMG_2hB RNFT2 protein_coding processed_transcript 3.098526 5.350298 1.269429 0.5887384 0.1275447 -2.066813 1.17214784 3.10799368 0.1235500 0.47526711 0.06785995 -4.5451660 0.26151667 0.576700000 0.09406667 -0.48263333 3.523384e-05 3.523384e-05 FALSE FALSE
MSTRG.8093.5 ENSG00000135119 HEK293_OSMI2_2hA HEK293_TMG_2hB RNFT2 protein_coding   3.098526 5.350298 1.269429 0.5887384 0.1275447 -2.066813 0.08131866 0.00000000 0.2534503 0.00000000 0.20450803 4.7194589 0.03793750 0.000000000 0.17703333 0.17703333 9.098498e-02 3.523384e-05 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
ENSG00000135119 E001 0.1482932 0.0412889658 1.000000e+00   12 116738178 116738290 113 + 0.000 0.073 7.449
ENSG00000135119 E002 0.5869318 0.3328158119 3.263427e-01 4.697885e-01 12 116738291 116738314 24 + 0.333 0.132 -1.697
ENSG00000135119 E003 0.5869318 0.3328158119 3.263427e-01 4.697885e-01 12 116738315 116738315 1 + 0.333 0.132 -1.697
ENSG00000135119 E004 4.6060010 0.0765878645 6.844415e-02 1.407968e-01 12 116738316 116738337 22 + 0.899 0.593 -1.243
ENSG00000135119 E005 6.8817176 0.0025845182 6.053906e-02 1.275390e-01 12 116738338 116738370 33 + 0.985 0.761 -0.862
ENSG00000135119 E006 0.9244034 0.0137190266 8.641289e-01 9.163847e-01 12 116738473 116738694 222 + 0.198 0.239 0.346
ENSG00000135119 E007 14.6514958 0.0056130657 1.577688e-03 5.886412e-03 12 116740345 116740521 177 + 1.315 1.024 -1.038
ENSG00000135119 E008 0.4782907 0.0215640616 4.771656e-01 6.157785e-01 12 116740522 116740839 318 + 0.000 0.190 11.072
ENSG00000135119 E009 13.5548472 0.0076095143 6.501511e-02 1.350598e-01 12 116741036 116741094 59 + 1.205 1.024 -0.648
ENSG00000135119 E010 0.0000000       12 116748662 116748744 83 +      
ENSG00000135119 E011 23.4648662 0.0208519802 6.022970e-04 2.541727e-03 12 116749841 116750307 467 + 1.523 1.207 -1.099
ENSG00000135119 E012 10.9364536 0.0400668912 3.775436e-02 8.687749e-02 12 116753984 116754060 77 + 1.189 0.923 -0.972
ENSG00000135119 E013 0.0000000       12 116759935 116760621 687 +      
ENSG00000135119 E014 14.8578443 0.0056776221 8.727085e-04 3.518675e-03 12 116766814 116766914 101 + 1.338 1.037 -1.071
ENSG00000135119 E015 20.2880675 0.0046961395 1.091461e-04 5.641549e-04 12 116779195 116779348 154 + 1.467 1.163 -1.063
ENSG00000135119 E016 2.9828132 0.0055604331 2.240531e-01 3.552517e-01 12 116810074 116810520 447 + 0.333 0.574 1.251
ENSG00000135119 E017 14.5711874 0.0013643542 6.264693e-04 2.630263e-03 12 116833792 116833941 150 + 1.327 1.030 -1.057
ENSG00000135119 E018 7.6191071 0.0049418505 6.709369e-03 2.046811e-02 12 116835960 116835996 37 + 1.078 0.761 -1.201
ENSG00000135119 E019 7.4655310 0.0289254814 1.722783e-03 6.354180e-03 12 116835997 116836025 29 + 1.137 0.719 -1.583
ENSG00000135119 E020 10.5740414 0.0020904142 4.555704e-06 3.273648e-05 12 116836181 116836282 102 + 1.290 0.837 -1.655
ENSG00000135119 E021 5.5135750 0.1223647203 9.616854e-01 9.798553e-01 12 116849314 116849484 171 + 0.703 0.733 0.122
ENSG00000135119 E022 90.7544164 0.0003578404 1.988621e-04 9.589146e-04 12 116849485 116852337 2853 + 1.729 1.905 0.595
ENSG00000135119 E023 49.9392620 0.0005232156 5.553726e-06 3.912598e-05 12 116852338 116852580 243 + 1.361 1.670 1.062
ENSG00000135119 E024 29.4337562 0.0007949652 6.814917e-04 2.831284e-03 12 116852581 116852649 69 + 1.137 1.441 1.065
ENSG00000135119 E025 97.4589297 0.0132321875 6.578520e-09 8.391898e-08 12 116852650 116853631 982 + 1.552 1.966 1.398