ENSG00000139350

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
ENST00000266742 ENSG00000139350 No_inf pgKDN_inf NEDD1 protein_coding protein_coding 6.237772 5.032279 7.093234 0.442342 0.7202632 0.4944001 2.2897402 0.0000000 3.6526383 0.0000000 0.6010155 8.5167394 0.33745000 0.000000 0.521875 0.521875 2.216010e-06 2.21601e-06 FALSE TRUE
ENST00000411739 ENSG00000139350 No_inf pgKDN_inf NEDD1 protein_coding protein_coding 6.237772 5.032279 7.093234 0.442342 0.7202632 0.4944001 1.7030775 1.5316599 1.1563085 0.6692221 0.7154090 -0.4025351 0.28751667 0.319100 0.157850 -0.161250 8.244885e-01 2.21601e-06 FALSE TRUE
ENST00000429527 ENSG00000139350 No_inf pgKDN_inf NEDD1 protein_coding protein_coding 6.237772 5.032279 7.093234 0.442342 0.7202632 0.4944001 0.9615264 2.1722670 0.7123122 1.2549036 0.7123122 -1.5951331 0.18402500 0.423275 0.128800 -0.294475 8.464415e-01 2.21601e-06 FALSE TRUE
ENST00000457368 ENSG00000139350 No_inf pgKDN_inf NEDD1 protein_coding protein_coding 6.237772 5.032279 7.093234 0.442342 0.7202632 0.4944001 0.3326495 0.3054010 0.6925476 0.3054010 0.6925476 1.1554089 0.05158333 0.072975 0.081775 0.008800 1.000000e+00 2.21601e-06 FALSE TRUE
ENST00000557644 ENSG00000139350 No_inf pgKDN_inf NEDD1 protein_coding protein_coding 6.237772 5.032279 7.093234 0.442342 0.7202632 0.4944001 0.2582692 0.7748075 0.0000000 0.7748075 0.0000000 -6.2942670 0.04802500 0.144075 0.000000 -0.144075 8.354474e-01 2.21601e-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 pgKDN.inf No.inf log2fold_No.inf_pgKDN.inf
ENSG00000139350 E001 0.0000000       12 96907224 96907229 6 +      
ENSG00000139350 E002 0.0000000       12 96907230 96907232 3 +      
ENSG00000139350 E003 0.0000000       12 96907233 96907237 5 +      
ENSG00000139350 E004 0.0000000       12 96907238 96907256 19 +      
ENSG00000139350 E005 0.7154869 0.0134402316 0.156559333 0.42289132 12 96907257 96907300 44 + 0.321 0.105 -2.004
ENSG00000139350 E006 0.0000000       12 96907301 96907322 22 +      
ENSG00000139350 E007 0.1186381 0.0120469339 0.668987859   12 96907466 96907603 138 + 0.086 0.000 -9.171
ENSG00000139350 E008 0.8341250 0.0126591125 0.092270722 0.31546995 12 96907604 96907624 21 + 0.365 0.105 -2.267
ENSG00000139350 E009 1.1867711 0.0111022744 0.018722702 0.12142739 12 96907625 96907701 77 + 0.473 0.105 -2.852
ENSG00000139350 E010 1.4592361 0.0092674872 0.853968869 0.94842063 12 96907702 96907856 155 + 0.404 0.374 -0.167
ENSG00000139350 E011 1.8039793 0.0075181631 0.159761979 0.42726249 12 96909752 96909895 144 + 0.533 0.321 -1.141
ENSG00000139350 E012 0.0000000       12 96912576 96912722 147 +      
ENSG00000139350 E013 2.6559519 0.0051807210 0.231984937 0.52073551 12 96912723 96912817 95 + 0.632 0.464 -0.782
ENSG00000139350 E014 3.4259449 0.0051452835 0.547567229 0.79303558 12 96917621 96917737 117 + 0.610 0.684 0.318
ENSG00000139350 E015 2.7021513 0.0054082518 0.340972587 0.63264429 12 96919985 96920125 141 + 0.504 0.631 0.581
ENSG00000139350 E016 0.3627758 0.0170616936 0.731418070   12 96924833 96924906 74 + 0.158 0.105 -0.682
ENSG00000139350 E017 0.3724075 0.0170075808 0.453908608   12 96924907 96924937 31 + 0.086 0.189 1.318
ENSG00000139350 E018 0.1186381 0.0120469339 0.668987859   12 96924938 96924942 5 + 0.086 0.000 -9.171
ENSG00000139350 E019 1.9659882 0.0073205263 0.342606703 0.63402517 12 96934976 96934986 11 + 0.404 0.539 0.681
ENSG00000139350 E020 7.6629233 0.0095636637 0.634054620 0.84362300 12 96934987 96935205 219 + 0.960 0.909 -0.191
ENSG00000139350 E021 2.9225941 0.0053304803 0.788677499 0.91890468 12 96936611 96936658 48 + 0.610 0.572 -0.167
ENSG00000139350 E022 6.8178074 0.0021809463 0.819823592 0.93450438 12 96936659 96936812 154 + 0.904 0.878 -0.097
ENSG00000139350 E023 8.2409796 0.0017032385 0.197315552 0.47857251 12 96937198 96937393 196 + 1.018 0.894 -0.464
ENSG00000139350 E024 5.7137319 0.0062812954 0.398416414 0.68232212 12 96940409 96940537 129 + 0.867 0.772 -0.370
ENSG00000139350 E025 3.8736266 0.0042250414 0.250861725 0.54197270 12 96942577 96942624 48 + 0.748 0.603 -0.615
ENSG00000139350 E026 8.3698783 0.0017057255 0.253616810 0.54518011 12 96943560 96943762 203 + 1.018 0.909 -0.408
ENSG00000139350 E027 8.0380182 0.0241241050 0.761853022 0.90714478 12 96944639 96944795 157 + 0.970 0.937 -0.122
ENSG00000139350 E028 8.5697697 0.0019778376 0.337226957 0.62907987 12 96945693 96945849 157 + 0.938 1.024 0.318
ENSG00000139350 E029 8.1789209 0.0018363541 0.749246143 0.90117785 12 96951432 96951498 67 + 0.949 0.976 0.102
ENSG00000139350 E030 54.3412844 0.0003396608 0.005506674 0.05309205 12 96951949 96953780 1832 + 1.700 1.786 0.292

Help

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