ENSG00000140455

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
ENST00000380324 ENSG00000140455 No_inf pgKDN_inf USP3 protein_coding protein_coding 42.77952 43.97669 46.46164 1.700736 4.374101 0.0792835 4.126831 4.703593 5.039867 0.4985701 0.2329711 0.09941823 0.09673333 0.107175 0.110300 0.003125 0.99743894 0.01332122 FALSE TRUE
ENST00000558218 ENSG00000140455 No_inf pgKDN_inf USP3 protein_coding protein_coding_CDS_not_defined 42.77952 43.97669 46.46164 1.700736 4.374101 0.0792835 3.002784 5.615280 2.280829 1.5188540 2.2808290 -1.29605512 0.06911667 0.125950 0.051375 -0.074575 0.11855148 0.01332122 FALSE TRUE
ENST00000558285 ENSG00000140455 No_inf pgKDN_inf USP3 protein_coding protein_coding 42.77952 43.97669 46.46164 1.700736 4.374101 0.0792835 6.012267 0.000000 7.439740 0.0000000 2.6699803 9.54104620 0.14925000 0.000000 0.176800 0.176800 0.01332122 0.01332122 FALSE TRUE
ENST00000559711 ENSG00000140455 No_inf pgKDN_inf USP3 protein_coding protein_coding 42.77952 43.97669 46.46164 1.700736 4.374101 0.0792835 16.228422 19.357537 17.420572 1.0292688 2.1538710 -0.15202060 0.38130000 0.442500 0.379900 -0.062600 0.82215538 0.01332122 FALSE TRUE
ENST00000559718 ENSG00000140455 No_inf pgKDN_inf USP3 protein_coding retained_intron 42.77952 43.97669 46.46164 1.700736 4.374101 0.0792835 4.194151 4.328762 6.018939 1.4558356 3.6637937 0.47462070 0.09285833 0.101625 0.114525 0.012900 0.85353486 0.01332122   FALSE
ENST00000560070 ENSG00000140455 No_inf pgKDN_inf USP3 protein_coding protein_coding 42.77952 43.97669 46.46164 1.700736 4.374101 0.0792835 2.174714 0.000000 2.387342 0.0000000 1.3886572 7.90529163 0.05072500 0.000000 0.045150 0.045150 0.43693500 0.01332122 FALSE FALSE
ENST00000560202 ENSG00000140455 No_inf pgKDN_inf USP3 protein_coding nonsense_mediated_decay 42.77952 43.97669 46.46164 1.700736 4.374101 0.0792835 1.812678 2.691147 0.000000 1.5946727 0.0000000 -8.07742849 0.04340833 0.060775 0.000000 -0.060775 0.48442869 0.01332122 TRUE FALSE
  • 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
ENSG00000140455 E001 0.2372762 0.1986164312 0.2415408746   15 63504511 63504592 82 + 0.181 0.000 -10.700
ENSG00000140455 E002 0.0000000       15 63504593 63504593 1 +      
ENSG00000140455 E003 0.0000000       15 63504594 63504594 1 +      
ENSG00000140455 E004 0.1268540 0.0123044991 0.6111484486   15 63504595 63504611 17 + 0.000 0.090 11.246
ENSG00000140455 E005 1.0803724 0.0112449389 0.0595269802 0.24466306 15 63504612 63504634 23 + 0.449 0.165 -1.971
ENSG00000140455 E006 1.7992603 0.0077225299 0.0088458774 0.07407135 15 63504635 63504655 21 + 0.614 0.229 -2.164
ENSG00000140455 E007 2.5160682 0.0057623309 0.0013909152 0.01929962 15 63504656 63504673 18 + 0.733 0.284 -2.251
ENSG00000140455 E008 4.4936625 0.0030593688 0.0619433668 0.25004517 15 63504674 63504733 60 + 0.843 0.627 -0.880
ENSG00000140455 E009 6.0605500 0.0024160678 0.0147555309 0.10387632 15 63504734 63504830 97 + 0.968 0.713 -0.994
ENSG00000140455 E010 0.0000000       15 63515446 63515500 55 +      
ENSG00000140455 E011 0.3727544 0.0165920823 0.6665661525   15 63527833 63528140 308 + 0.100 0.165 0.836
ENSG00000140455 E012 1.1061192 0.0246604981 0.8889164510 0.96299300 15 63529014 63529141 128 + 0.309 0.334 0.158
ENSG00000140455 E013 0.7340524 0.0144081762 0.8760498414 0.95788980 15 63529142 63529166 25 + 0.250 0.229 -0.164
ENSG00000140455 E014 0.0000000       15 63530498 63530589 92 +      
ENSG00000140455 E015 0.0000000       15 63530590 63530590 1 +      
ENSG00000140455 E016 0.2537694 0.0159873617 0.2898118987   15 63532506 63532646 141 + 0.000 0.165 12.173
ENSG00000140455 E017 7.2422536 0.0022438724 0.0007873209 0.01245625 15 63532647 63532707 61 + 1.065 0.732 -1.274
ENSG00000140455 E018 1.3530259 0.0403522328 0.9324504548 0.98036537 15 63533803 63533918 116 + 0.361 0.378 0.099
ENSG00000140455 E019 10.4302206 0.0013745263 0.0027682770 0.03249984 15 63537025 63537104 80 + 1.176 0.924 -0.919
ENSG00000140455 E020 3.5563535 0.0039566950 0.8730301361 0.95664070 15 63537105 63537137 33 + 0.665 0.650 -0.064
ENSG00000140455 E021 0.9712400 0.0120967144 0.3774721820 0.66446636 15 63537138 63537156 19 + 0.361 0.229 -0.901
ENSG00000140455 E022 0.7229099 0.3806682879 0.4573267317 0.72925110 15 63542055 63542192 138 + 0.309 0.165 -1.163
ENSG00000140455 E023 3.0891664 0.0186310552 0.3011870833 0.59420854 15 63544625 63544728 104 + 0.523 0.672 0.666
ENSG00000140455 E024 0.0000000       15 63553333 63553714 382 +      
ENSG00000140455 E025 0.0000000       15 63553715 63553798 84 +      
ENSG00000140455 E026 0.0000000       15 63556667 63556748 82 +      
ENSG00000140455 E027 8.0895102 0.0019248732 0.7808545279 0.91561458 15 63558106 63558188 83 + 0.968 0.948 -0.077
ENSG00000140455 E028 24.2909176 0.0006467172 0.7261011771 0.89033854 15 63559857 63559970 114 + 1.408 1.395 -0.047
ENSG00000140455 E029 23.7137415 0.0006657140 0.8505090234 0.94699217 15 63562895 63563008 114 + 1.381 1.399 0.061
ENSG00000140455 E030 25.4184614 0.0027635331 0.9113317402 0.97178698 15 63570433 63570579 147 + 1.413 1.426 0.045
ENSG00000140455 E031 29.7939302 0.0005915659 0.5620912042 0.80211570 15 63574046 63574152 107 + 1.499 1.476 -0.081
ENSG00000140455 E032 11.6815715 0.0033890029 0.7711626411 0.91183000 15 63574323 63574403 81 + 1.084 1.115 0.110
ENSG00000140455 E033 1.6420431 0.0080960035 0.0021734265 0.02716835 15 63586608 63586758 151 + 0.100 0.577 3.421
ENSG00000140455 E034 0.0000000       15 63587970 63588304 335 +      
ENSG00000140455 E035 0.0000000       15 63588305 63588423 119 +      
ENSG00000140455 E036 0.0000000       15 63588520 63588701 182 +      
ENSG00000140455 E037 0.0000000       15 63588702 63588728 27 +      
ENSG00000140455 E038 0.0000000       15 63588729 63588815 87 +      
ENSG00000140455 E039 0.0000000       15 63588944 63589011 68 +      
ENSG00000140455 E040 49.5769298 0.0003344072 0.8266665512 0.93720038 15 63590661 63591373 713 + 1.703 1.701 -0.007
ENSG00000140455 E041 63.5445874 0.0052213952 0.0618392050 0.24981168 15 63591374 63593781 2408 + 1.760 1.845 0.287
ENSG00000140455 E042 1.7079963 0.0089280708 0.4418471531 0.71722006 15 63593782 63593915 134 + 0.488 0.378 -0.579
ENSG00000140455 E043 23.1628667 0.0095444718 0.0026783108 0.03168502 15 63593916 63594428 513 + 1.245 1.469 0.779
ENSG00000140455 E044 6.7281604 0.0079530341 0.0024109080 0.02931242 15 63594429 63594640 212 + 0.665 1.011 1.351

Help

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