ENSG00000060138

1 Isoform Switch

Summary Plot

Only the isoforms with fraction > 5% are shown below.

  • Note:

    • About the Coding Potential: Please check the spreadsheet in the “Results” tag to confirm the coding potential. The above figure only show the predicted coding potential. The “gene_biotype” in the result spreadsheet is from the database record. Therefore, if you find conflicts between “gene_biotype” and “codingPotential”, please trust the “gene_biotype”.

    • 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
ENST00000228251 ENSG00000060138 No_inf pgKDN_inf YBX3 protein_coding protein_coding 60.13996 58.61636 63.59559 5.715092 3.117983 0.1176041 18.801425 2.227232 25.21391 2.227232 1.731876 3.4950049 0.31535833 0.044550 0.397850 0.353300 0.001288841 0.001288841 FALSE TRUE
ENST00000279550 ENSG00000060138 No_inf pgKDN_inf YBX3 protein_coding protein_coding 60.13996 58.61636 63.59559 5.715092 3.117983 0.1176041 24.142274 30.732280 23.08780 3.067866 1.893543 -0.4124689 0.40484167 0.529625 0.367775 -0.161850 0.304611036 0.001288841 FALSE TRUE
ENST00000544501 ENSG00000060138 No_inf pgKDN_inf YBX3 protein_coding protein_coding_CDS_not_defined 60.13996 58.61636 63.59559 5.715092 3.117983 0.1176041 1.998160 5.994481 0.00000 5.994481 0.000000 -9.2298957 0.02656667 0.079700 0.000000 -0.079700 0.840924727 0.001288841   FALSE
MSTRG.6030.3 ENSG00000060138 No_inf pgKDN_inf YBX3 protein_coding   60.13996 58.61636 63.59559 5.715092 3.117983 0.1176041 8.079348 13.689248 10.54880 2.981270 4.270727 -0.3756514 0.13115833 0.235275 0.158200 -0.077075 0.824020795 0.001288841 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.

Help

Please Click HERE to learn more details about the results of IsoformSwitchAnalyzeR.

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 pgKDN.inf No.inf log2fold_No.inf_pgKDN.inf
ENSG00000060138 E001 22.6558174 0.0007285589 0.301022939 0.59407118 12 10699089 10699226 138 - 1.342 1.406 0.222
ENSG00000060138 E002 31.8611320 0.0011889333 0.094112790 0.31929793 12 10699227 10699316 90 - 1.557 1.468 -0.305
ENSG00000060138 E003 53.7958492 0.0003340369 0.461220639 0.73208112 12 10699317 10699426 110 - 1.724 1.754 0.102
ENSG00000060138 E004 45.2326787 0.0003559669 0.454161192 0.72688972 12 10699427 10699477 51 - 1.649 1.682 0.113
ENSG00000060138 E005 86.3222532 0.0002086576 0.348964655 0.63951953 12 10699478 10699609 132 - 1.926 1.956 0.101
ENSG00000060138 E006 43.5282169 0.0003576698 0.622069334 0.83713477 12 10699610 10699654 45 - 1.637 1.660 0.077
ENSG00000060138 E007 0.2441377 0.0165211790 0.912406649   12 10701253 10701253 1 - 0.089 0.101 0.207
ENSG00000060138 E008 29.9671220 0.0004779426 0.592120184 0.81991489 12 10701254 10701273 20 - 1.476 1.506 0.101
ENSG00000060138 E009 24.5656583 0.0005687874 0.818682156 0.93393975 12 10701274 10701274 1 - 1.401 1.415 0.049
ENSG00000060138 E010 48.8370986 0.0003373326 0.934685748 0.98118535 12 10701275 10701353 79 - 1.699 1.696 -0.010
ENSG00000060138 E011 43.5702111 0.0012458722 0.227410566 0.51579803 12 10701960 10702009 50 - 1.621 1.677 0.191
ENSG00000060138 E012 67.6482863 0.0002446888 0.253735113 0.54524020 12 10702010 10702131 122 - 1.816 1.857 0.139
ENSG00000060138 E013 25.8931994 0.0005791061 0.945493730 0.98519374 12 10702132 10702134 3 - 1.427 1.432 0.016
ENSG00000060138 E014 0.0000000       12 10702135 10702258 124 -      
ENSG00000060138 E015 0.0000000       12 10702259 10702411 153 -      
ENSG00000060138 E016 1.4887511 0.0088958271 0.163718953 0.43265123 12 10702412 10703522 1111 - 0.281 0.492 1.207
ENSG00000060138 E017 0.3644776 0.0168672480 0.674726681   12 10703523 10703619 97 - 0.163 0.101 -0.793
ENSG00000060138 E018 0.4814789 0.0154500804 0.391790244   12 10703620 10704022 403 - 0.226 0.101 -1.378
ENSG00000060138 E019 0.0000000       12 10704023 10704050 28 -      
ENSG00000060138 E020 26.6626579 0.0005291205 0.613779210 0.83208244 12 10704051 10704059 9 - 1.427 1.457 0.101
ENSG00000060138 E021 46.9242253 0.0034614485 0.967137989 0.99337266 12 10704060 10704148 89 - 1.679 1.682 0.011
ENSG00000060138 E022 0.0000000       12 10704149 10704438 290 -      
ENSG00000060138 E023 38.4838122 0.0004359427 0.002759853 0.03242946 12 10709908 10710114 207 - 1.659 1.516 -0.489
ENSG00000060138 E024 2.0052574 0.0489193976 0.008437860 0.07170121 12 10710115 10710350 236 - 0.226 0.645 2.322
ENSG00000060138 E025 2.4852918 0.1049202336 0.100360148 0.33085723 12 10710351 10710533 183 - 0.374 0.670 1.430
ENSG00000060138 E026 1.9630580 0.5347202266 0.500233118 0.76035208 12 10710534 10710653 120 - 0.451 0.492 0.208
ENSG00000060138 E027 1.4589812 0.0100668644 0.743654404 0.89860560 12 10710654 10710788 135 - 0.414 0.365 -0.279
ENSG00000060138 E028 15.5352425 0.0027705637 0.004479788 0.04589284 12 10710789 10713210 2422 - 1.101 1.316 0.763
ENSG00000060138 E029 20.3266954 0.0006736743 0.361697870 0.65110523 12 10713211 10713228 18 - 1.299 1.358 0.207
ENSG00000060138 E030 46.5533171 0.0003552887 0.837633329 0.94182388 12 10713229 10713333 105 - 1.672 1.682 0.032
ENSG00000060138 E031 16.2833511 0.0008390240 0.108407053 0.34535630 12 10715694 10715694 1 - 1.289 1.174 -0.405
ENSG00000060138 E032 30.7523430 0.0004584128 0.035352300 0.17998293 12 10715695 10715783 89 - 1.552 1.440 -0.383
ENSG00000060138 E033 0.6257986 0.0153329721 0.129447321 0.38167709 12 10715784 10716148 365 - 0.089 0.312 2.207
ENSG00000060138 E034 0.4985712 0.0263207384 0.259314168   12 10717713 10717777 65 - 0.089 0.253 1.792
ENSG00000060138 E035 0.2541163 0.0160567533 0.197840416   12 10717808 10718012 205 - 0.000 0.184 11.866
ENSG00000060138 E036 0.2442663 0.0165273541 0.911720279   12 10718013 10718087 75 - 0.089 0.101 0.207
ENSG00000060138 E037 14.8238392 0.0127532494 0.235990331 0.52528862 12 10718088 10718116 29 - 1.246 1.143 -0.368
ENSG00000060138 E038 12.1779414 0.0012453509 0.491343108 0.75363590 12 10718117 10718121 5 - 1.146 1.090 -0.200
ENSG00000060138 E039 0.0000000       12 10718362 10718430 69 -      
ENSG00000060138 E040 19.4673588 0.0013261415 0.249825702 0.54078197 12 10719080 10719143 64 - 1.346 1.270 -0.266
ENSG00000060138 E041 0.1272623 0.0124436498 0.467103029   12 10720791 10720932 142 - 0.000 0.101 10.866
ENSG00000060138 E042 0.1176306 0.0117790704 0.618617502   12 10721918 10722046 129 - 0.089 0.000 -10.558
ENSG00000060138 E043 0.0000000       12 10722060 10722654 595 -      
ENSG00000060138 E044 0.0000000       12 10722655 10722849 195 -      
ENSG00000060138 E045 62.1634142 0.0002836008 0.009841994 0.07944000 12 10722850 10723365 516 - 1.844 1.748 -0.324

Help

Please Click HERE to learn more details about the results from DEXseq.