ENSG00000140740

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
ENST00000268379 ENSG00000140740 No_inf pgKDN_inf UQCRC2 protein_coding protein_coding 147.5917 124.5438 170.3884 15.81832 13.42303 0.4521427 62.653414 52.307326 71.197057 1.3733430 2.8350540 0.4447314 0.43943333 0.444600 0.429450 -0.015150 0.98503620 0.01026181 FALSE  
ENST00000561798 ENSG00000140740 No_inf pgKDN_inf UQCRC2 protein_coding retained_intron 147.5917 124.5438 170.3884 15.81832 13.42303 0.4521427 9.054767 13.235624 5.552404 0.7718946 0.4010335 -1.2517354 0.06820833 0.112925 0.033375 -0.079550 0.01026181 0.01026181    
ENST00000567597 ENSG00000140740 No_inf pgKDN_inf UQCRC2 protein_coding retained_intron 147.5917 124.5438 170.3884 15.81832 13.42303 0.4521427 48.767202 30.434656 63.679830 17.5869645 12.9668093 1.0648740 0.30015000 0.200275 0.362675 0.162400 0.71803156 0.01026181 FALSE  
ENST00000630839 ENSG00000140740 No_inf pgKDN_inf UQCRC2 protein_coding protein_coding 147.5917 124.5438 170.3884 15.81832 13.42303 0.4521427 12.623920 8.681807 17.753699 1.4258299 2.3711127 1.0312039 0.08640000 0.075175 0.102850 0.027675 0.72169515 0.01026181 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
ENSG00000140740 E001 0.0000000       16 21953288 21953297 10 +      
ENSG00000140740 E002 3.6543170 0.0821025195 6.623044e-01 8.592289e-01 16 21953298 21953360 63 + 0.693 0.640 -0.223
ENSG00000140740 E003 4.8519772 0.0209633147 2.497204e-01 5.407050e-01 16 21953361 21953370 10 + 0.831 0.689 -0.573
ENSG00000140740 E004 12.0592182 0.0037641909 3.474272e-01 6.380679e-01 16 21953371 21953386 16 + 1.152 1.075 -0.276
ENSG00000140740 E005 15.9581709 0.0009194835 2.977494e-01 5.908186e-01 16 21953387 21953402 16 + 1.263 1.191 -0.257
ENSG00000140740 E006 32.0907233 0.0007208981 1.011405e-02 8.086146e-02 16 21953403 21953456 54 + 1.580 1.446 -0.457
ENSG00000140740 E007 43.1259193 0.0003844234 7.709743e-02 2.840550e-01 16 21957235 21957318 84 + 1.681 1.603 -0.263
ENSG00000140740 E008 42.9560004 0.0030655722 5.725282e-01 8.084407e-01 16 21957417 21957487 71 + 1.627 1.659 0.107
ENSG00000140740 E009 51.8516818 0.0003566629 3.231648e-01 6.158517e-01 16 21957488 21957566 79 + 1.741 1.703 -0.129
ENSG00000140740 E010 45.7350258 0.0002983380 1.255148e-02 9.309017e-02 16 21958535 21958599 65 + 1.719 1.612 -0.363
ENSG00000140740 E011 7.9162529 0.0069447735 2.031113e-02 1.281390e-01 16 21959339 21959555 217 + 0.816 1.056 0.901
ENSG00000140740 E012 5.7320888 0.0024707729 2.847978e-04 5.563304e-03 16 21959556 21959780 225 + 0.577 0.992 1.667
ENSG00000140740 E013 2.5937029 0.0053760412 1.854129e-01 4.631244e-01 16 21961328 21961461 134 + 0.455 0.640 0.865
ENSG00000140740 E014 1.3614575 0.0164605967 2.887365e-01 5.822356e-01 16 21961462 21961465 4 + 0.284 0.449 0.972
ENSG00000140740 E015 1.2591537 0.0332396900 5.741936e-03 5.467613e-02 16 21962192 21962459 268 + 0.090 0.523 3.334
ENSG00000140740 E016 45.2049476 0.0018727107 7.844751e-03 6.822297e-02 16 21962460 21962516 57 + 1.721 1.598 -0.417
ENSG00000140740 E017 0.0000000       16 21962517 21962760 244 +      
ENSG00000140740 E018 83.7736805 0.0002239842 1.101385e-02 8.562507e-02 16 21962761 21962885 125 + 1.965 1.886 -0.267
ENSG00000140740 E019 0.0000000       16 21962886 21963212 327 +      
ENSG00000140740 E020 79.3223111 0.0013768250 4.402681e-02 2.050554e-01 16 21965408 21965505 98 + 1.937 1.868 -0.233
ENSG00000140740 E021 0.1176306 0.0117929906 5.981153e-01   16 21965506 21965533 28 + 0.090 0.000 -8.432
ENSG00000140740 E022 1.3694187 0.0094300691 9.090765e-02 3.130687e-01 16 21967183 21967230 48 + 0.229 0.488 1.579
ENSG00000140740 E023 0.8621023 0.0125897878 6.067372e-01 8.288396e-01 16 21968462 21968627 166 + 0.229 0.309 0.579
ENSG00000140740 E024 49.3426362 0.0006606186 8.119350e-02 2.927786e-01 16 21968628 21968685 58 + 1.736 1.664 -0.244
ENSG00000140740 E025 64.3015638 0.0002330483 2.202169e-02 1.347688e-01 16 21971525 21971620 96 + 1.853 1.771 -0.276
ENSG00000140740 E026 123.6449397 0.0001432361 8.544412e-01 9.486887e-01 16 21971923 21972122 200 + 2.097 2.095 -0.007
ENSG00000140740 E027 61.2067322 0.0018831896 2.556335e-01 5.476164e-01 16 21973896 21973976 81 + 1.769 1.818 0.165
ENSG00000140740 E028 66.8362446 0.0003248964 2.357337e-01 5.250489e-01 16 21976167 21976243 77 + 1.809 1.854 0.154
ENSG00000140740 E029 23.5031145 0.0229873869 9.380679e-04 1.429606e-02 16 21976244 21976947 704 + 1.223 1.513 1.009
ENSG00000140740 E030 21.6511999 0.0006491171 6.489433e-11 6.692181e-09 16 21980262 21980546 285 + 1.091 1.524 1.516
ENSG00000140740 E031 113.5253713 0.0001971845 1.005598e-02 8.061222e-02 16 21980547 21980700 154 + 2.021 2.095 0.245
ENSG00000140740 E032 124.8129711 0.0007820119 1.341492e-02 9.727348e-02 16 21983088 21983660 573 + 2.063 2.134 0.238

Help

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