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 pgwt_inf YBX3 protein_coding protein_coding 60.13996 58.61636 58.20792 5.715092 1.9296 -0.01008615 18.801425 2.227232 28.963134 2.227232 3.5708504 3.6949288 0.31535833 0.044550 0.503675 0.459125 3.980916e-02 4.358608e-06 FALSE TRUE
ENST00000279550 ENSG00000060138 No_inf pgwt_inf YBX3 protein_coding protein_coding 60.13996 58.61636 58.20792 5.715092 1.9296 -0.01008615 24.142274 30.732280 18.606745 3.067866 2.2788544 -0.7236233 0.40484167 0.529625 0.317125 -0.212500 8.884245e-01 4.358608e-06 FALSE TRUE
ENST00000544501 ENSG00000060138 No_inf pgwt_inf YBX3 protein_coding protein_coding_CDS_not_defined 60.13996 58.61636 58.20792 5.715092 1.9296 -0.01008615 1.998160 5.994481 0.000000 5.994481 0.0000000 -9.2298957 0.02656667 0.079700 0.000000 -0.079700 9.928472e-01 4.358608e-06   FALSE
MSTRG.6030.3 ENSG00000060138 No_inf pgwt_inf YBX3 protein_coding   60.13996 58.61636 58.20792 5.715092 1.9296 -0.01008615 8.079348 13.689248 0.000000 2.981270 0.0000000 -10.4198810 0.13115833 0.235275 0.000000 -0.235275 4.358608e-06 4.358608e-06 FALSE TRUE
MSTRG.6030.4 ENSG00000060138 No_inf pgwt_inf YBX3 protein_coding   60.13996 58.61636 58.20792 5.715092 1.9296 -0.01008615 2.028502 1.341318 4.744187 1.341318 3.0922796 1.8148318 0.03511667 0.026825 0.078525 0.051700 9.928472e-01 4.358608e-06 FALSE TRUE
MSTRG.6030.5 ENSG00000060138 No_inf pgwt_inf YBX3 protein_coding   60.13996 58.61636 58.20792 5.715092 1.9296 -0.01008615 1.781082 0.000000 3.249068 0.000000 0.9722556 8.3483158 0.02985000 0.000000 0.055200 0.055200 6.097270e-03 4.358608e-06 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 pgwt.inf No.inf log2fold_No.inf_pgwt.inf
ENSG00000060138 E001 20.7692875 0.0008374618 0.0079108708 0.079522152 12 10699089 10699226 138 - 1.246 1.418 0.601
ENSG00000060138 E002 29.6980508 0.0004593121 0.7986798033 0.930750542 12 10699227 10699316 90 - 1.493 1.481 -0.042
ENSG00000060138 E003 52.1347561 0.0006491694 0.0472951733 0.239785219 12 10699317 10699426 110 - 1.683 1.766 0.284
ENSG00000060138 E004 45.8677150 0.0037578103 0.3636479947 0.683010807 12 10699427 10699477 51 - 1.647 1.694 0.160
ENSG00000060138 E005 87.7909844 0.0004065748 0.2101728949 0.531246467 12 10699478 10699609 132 - 1.928 1.969 0.138
ENSG00000060138 E006 44.0107040 0.0006598523 0.4122257395 0.720390048 12 10699610 10699654 45 - 1.634 1.672 0.130
ENSG00000060138 E007 0.1308632 0.0122468517 0.4408875763   12 10701253 10701253 1 - 0.000 0.104 12.508
ENSG00000060138 E008 29.0781801 0.0005059682 0.1438962412 0.438713293 12 10701254 10701273 20 - 1.437 1.518 0.278
ENSG00000060138 E009 21.8333484 0.0006219034 0.0219500424 0.152663366 12 10701274 10701274 1 - 1.282 1.427 0.503
ENSG00000060138 E010 45.7477667 0.0003148658 0.0758562612 0.313117494 12 10701275 10701353 79 - 1.630 1.708 0.267
ENSG00000060138 E011 46.0631732 0.0092620508 0.5800355026 0.826592035 12 10701960 10702009 50 - 1.656 1.690 0.114
ENSG00000060138 E012 72.5323858 0.0025428740 0.9030248695 0.971348238 12 10702010 10702131 122 - 1.863 1.870 0.023
ENSG00000060138 E013 29.6589678 0.0004701223 0.1399636334 0.433040532 12 10702132 10702134 3 - 1.523 1.444 -0.270
ENSG00000060138 E014 0.2291896 0.2738410354 0.3846721758   12 10702135 10702258 124 - 0.159 0.000 -13.129
ENSG00000060138 E015 0.1145948 0.0112625816 0.6542822669   12 10702259 10702411 153 - 0.087 0.000 -12.129
ENSG00000060138 E016 1.8492920 0.0159283590 0.5314181690 0.799649987 12 10702412 10703522 1111 - 0.406 0.501 0.483
ENSG00000060138 E017 0.2454652 0.0165318039 0.8775391334   12 10703523 10703619 97 - 0.087 0.104 0.291
ENSG00000060138 E018 0.7016150 0.0150947469 0.1474432048 0.444157877 12 10703620 10704022 403 - 0.324 0.104 -2.031
ENSG00000060138 E019 0.1145948 0.0112625816 0.6542822669   12 10704023 10704050 28 - 0.087 0.000 -12.129
ENSG00000060138 E020 29.8789039 0.0004765661 0.4505540874 0.748198003 12 10704051 10704059 9 - 1.508 1.469 -0.135
ENSG00000060138 E021 50.2157161 0.0010739205 0.4933306738 0.776198937 12 10704060 10704148 89 - 1.723 1.694 -0.096
ENSG00000060138 E022 0.1138060 0.0113173303 0.6541546537   12 10704149 10704438 290 - 0.087 0.000 -12.129
ENSG00000060138 E023 39.8605384 0.0003624720 0.0015586647 0.025134652 12 10709908 10710114 207 - 1.677 1.528 -0.505
ENSG00000060138 E024 2.7359012 0.0075392049 0.1952013900 0.511827570 12 10710115 10710350 236 - 0.476 0.655 0.821
ENSG00000060138 E025 3.2098155 0.1040733729 0.5220125437 0.794008963 12 10710351 10710533 183 - 0.563 0.681 0.513
ENSG00000060138 E026 1.7385099 0.7137277763 0.7197417148 0.897135643 12 10710534 10710653 120 - 0.367 0.501 0.708
ENSG00000060138 E027 1.2270412 0.0103050585 0.7569123339 0.913650791 12 10710654 10710788 135 - 0.324 0.372 0.291
ENSG00000060138 E028 15.7742783 0.0143307037 0.0086671685 0.084415267 12 10710789 10713210 2422 - 1.097 1.328 0.819
ENSG00000060138 E029 21.2833908 0.0009419498 0.4879968273 0.773422886 12 10713211 10713228 18 - 1.325 1.371 0.158
ENSG00000060138 E030 48.4857140 0.0005578054 0.9696212079 0.993942716 12 10713229 10713333 105 - 1.694 1.694 0.000
ENSG00000060138 E031 17.2280885 0.0008113074 0.0534933951 0.258182596 12 10715694 10715694 1 - 1.321 1.186 -0.473
ENSG00000060138 E032 34.3745324 0.0004139832 0.0007623316 0.014583473 12 10715695 10715783 89 - 1.623 1.453 -0.583
ENSG00000060138 E033 0.8682777 0.0128601415 0.5262593685 0.796439413 12 10715784 10716148 365 - 0.221 0.319 0.706
ENSG00000060138 E034 0.3928752 0.0254453899 0.0716750578   12 10717713 10717777 65 - 0.000 0.258 14.093
ENSG00000060138 E035 0.3769858 0.0167728710 0.4683088939   12 10717808 10718012 205 - 0.087 0.188 1.291
ENSG00000060138 E036 0.2458369 0.0165917285 0.8775879937   12 10718013 10718087 75 - 0.087 0.104 0.291
ENSG00000060138 E037 15.6818582 0.0009306221 0.0908556208 0.346168197 12 10718088 10718116 29 - 1.277 1.154 -0.434
ENSG00000060138 E038 12.6109532 0.0012129582 0.4492283122 0.747367018 12 10718117 10718121 5 - 1.161 1.102 -0.214
ENSG00000060138 E039 0.0000000       12 10718362 10718430 69 -      
ENSG00000060138 E040 19.1830955 0.0008985136 0.5038072097 0.782948020 12 10719080 10719143 64 - 1.325 1.282 -0.151
ENSG00000060138 E041 0.1316618 0.0123842450 0.4407679043   12 10720791 10720932 142 - 0.000 0.104 12.508
ENSG00000060138 E042 0.1141751 0.0112295818 0.6542835038   12 10721918 10722046 129 - 0.087 0.000 -12.129
ENSG00000060138 E043 0.3417870 0.0419863514 0.1511508847   12 10722060 10722654 595 - 0.221 0.000 -13.713
ENSG00000060138 E044 0.3423510 0.0157560422 0.1470698381   12 10722655 10722849 195 - 0.221 0.000 -13.713
ENSG00000060138 E045 66.8126907 0.0002234770 0.0003406256 0.007810995 12 10722850 10723365 516 - 1.889 1.760 -0.432

Help

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