ENSG00000116560

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
ENST00000357214 ENSG00000116560 No_inf pgKDN_inf SFPQ protein_coding protein_coding 189.9394 167.2185 208.2487 2.646311 4.553269 0.3165561 62.743168 39.223026 78.416119 0.3785484 0.9384258 0.9992656 0.32520833 0.234700 0.377175 0.142475 9.680038e-05 9.680038e-05 FALSE TRUE
ENST00000468598 ENSG00000116560 No_inf pgKDN_inf SFPQ protein_coding protein_coding_CDS_not_defined 189.9394 167.2185 208.2487 2.646311 4.553269 0.3165561 3.892107 9.832364 0.000000 5.6787956 0.0000000 -9.9428611 0.02256667 0.058550 0.000000 -0.058550 7.400849e-01 9.680038e-05   FALSE
ENST00000470472 ENSG00000116560 No_inf pgKDN_inf SFPQ protein_coding nonsense_mediated_decay 189.9394 167.2185 208.2487 2.646311 4.553269 0.3165561 90.209347 73.135038 104.996754 2.5904603 2.3804455 0.5216502 0.47230833 0.437225 0.504400 0.067175 3.234236e-01 9.680038e-05 TRUE TRUE
ENST00000485454 ENSG00000116560 No_inf pgKDN_inf SFPQ protein_coding protein_coding_CDS_not_defined 189.9394 167.2185 208.2487 2.646311 4.553269 0.3165561 7.983752 12.828043 3.785279 1.0324668 1.6024268 -1.7581474 0.04406667 0.076750 0.017750 -0.059000 1.186517e-01 9.680038e-05   FALSE
MSTRG.669.8 ENSG00000116560 No_inf pgKDN_inf SFPQ protein_coding   189.9394 167.2185 208.2487 2.646311 4.553269 0.3165561 9.295222 11.425977 7.416843 0.3786690 0.3322175 -0.6227587 0.05013333 0.068325 0.035550 -0.032775 1.325697e-01 9.680038e-05 TRUE 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
ENSG00000116560 E001 0.2356421 1.565744e-02 2.416738e-01   1 35176299 35176343 45 - 0.172 0.000 -10.653
ENSG00000116560 E002 0.1170040 1.169816e-02 5.371475e-01   1 35176344 35176377 34 - 0.095 0.000 -12.083
ENSG00000116560 E003 0.0000000       1 35176378 35176379 2 -      
ENSG00000116560 E004 18.1458630 1.279952e-02 1.697718e-02 1.137694e-01 1 35176380 35176471 92 - 1.165 1.370 0.719
ENSG00000116560 E005 12.2265266 3.975054e-03 1.605677e-02 1.098982e-01 1 35176472 35176474 3 - 1.000 1.211 0.763
ENSG00000116560 E006 1.6055405 1.158980e-02 4.137992e-01 6.943494e-01 1 35177209 35177318 110 - 0.346 0.473 0.697
ENSG00000116560 E007 37.7580582 2.819108e-03 9.755811e-07 4.559531e-05 1 35177319 35177399 81 - 1.428 1.699 0.927
ENSG00000116560 E008 2.2307712 7.568533e-03 1.611390e-01 4.292635e-01 1 35177400 35177661 262 - 0.391 0.597 1.019
ENSG00000116560 E009 33.7332121 7.250781e-03 1.242377e-06 5.626057e-05 1 35177989 35178036 48 - 1.350 1.666 1.083
ENSG00000116560 E010 154.4088297 2.319238e-04 2.079095e-65 6.229663e-62 1 35178037 35178664 628 - 1.899 2.356 1.528
ENSG00000116560 E011 364.8220318 2.680870e-04 1.329195e-149 2.389626e-145 1 35178665 35181134 2470 - 2.268 2.729 1.535
ENSG00000116560 E012 159.8309668 1.060849e-04 6.875578e-40 6.079138e-37 1 35181135 35182935 1801 - 2.004 2.337 1.112
ENSG00000116560 E013 589.7213104 4.620279e-05 1.087974e-12 1.403799e-10 1 35182936 35184593 1658 - 2.809 2.733 -0.252
ENSG00000116560 E014 127.5187806 1.453194e-04 4.460249e-19 1.103482e-16 1 35184594 35187000 2407 - 1.962 2.212 0.838
ENSG00000116560 E015 151.1501242 1.110585e-04 1.400326e-09 1.163717e-07 1 35187001 35187122 122 - 2.249 2.108 -0.474
ENSG00000116560 E016 120.1246053 1.635210e-04 1.190121e-07 6.843067e-06 1 35187203 35187251 49 - 2.149 2.010 -0.468
ENSG00000116560 E017 220.5060098 9.837506e-05 3.887422e-10 3.590140e-08 1 35187973 35188090 118 - 2.403 2.283 -0.399
ENSG00000116560 E018 162.0345684 1.081290e-04 2.018794e-09 1.625099e-07 1 35189003 35189087 85 - 2.276 2.141 -0.452
ENSG00000116560 E019 229.5885749 2.108234e-04 3.414808e-16 6.485009e-14 1 35189186 35189382 197 - 2.437 2.279 -0.529
ENSG00000116560 E020 127.6032577 3.325833e-04 2.910777e-11 3.127288e-09 1 35190498 35190593 96 - 2.191 2.015 -0.589
ENSG00000116560 E021 276.4907668 8.144277e-05 8.613261e-17 1.739879e-14 1 35190694 35190995 302 - 2.510 2.368 -0.474
ENSG00000116560 E022 153.4565811 1.179298e-04 3.063428e-12 3.763620e-10 1 35191341 35191529 189 - 2.265 2.102 -0.546
ENSG00000116560 E023 262.2227097 7.860577e-05 4.295444e-27 2.050181e-24 1 35192222 35193446 1225 - 2.509 2.316 -0.641

Help

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