ENSMUSG00000020111

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
ENSMUST00000020311 ENSMUSG00000020111 Control shVgll3 Micu1 protein_coding protein_coding 29.36056 31.29528 27.42584 1.914996 1.73386 -0.1903441 4.476155 6.147315 2.804995 3.113685 2.804995 -1.12916883 0.14808333 0.1865333 0.10963333 -0.0769000 0.970665669 0.004294448 FALSE TRUE
ENSMUST00000092508 ENSMUSG00000020111 Control shVgll3 Micu1 protein_coding protein_coding 29.36056 31.29528 27.42584 1.914996 1.73386 -0.1903441 4.092936 4.009430 4.176441 4.009430 2.311465 0.05873332 0.14846667 0.1447667 0.15216667 0.0074000 0.970665669 0.004294448 FALSE TRUE
ENSMUST00000165563 ENSMUSG00000020111 Control shVgll3 Micu1 protein_coding protein_coding 29.36056 31.29528 27.42584 1.914996 1.73386 -0.1903441 17.002146 16.259234 17.745057 1.182375 1.184821 0.12608365 0.58308333 0.5191667 0.64700000 0.1278333 0.004294448 0.004294448 FALSE TRUE
ENSMUST00000166565 ENSMUSG00000020111 Control shVgll3 Micu1 protein_coding retained_intron 29.36056 31.29528 27.42584 1.914996 1.73386 -0.1903441 2.895941 4.050384 1.741497 2.077612 1.741497 -1.21302769 0.08916667 0.1219667 0.05636667 -0.0656000 0.970665669 0.004294448   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 shVgll3 Control log2fold_Control_shVgll3
ENSMUSG00000020111 E001 0.3228996 0.0278192092 0.9679870221   10 59538299 59538384 86 + 0.126 0.121 -0.079
ENSMUSG00000020111 E002 1.1443553 0.0179876501 0.7654080330 0.97799068 10 59538385 59538420 36 + 0.304 0.358 0.336
ENSMUSG00000020111 E003 10.5227999 0.0274671774 0.9784897807 1.00000000 10 59538421 59538439 19 + 1.060 1.063 0.010
ENSMUSG00000020111 E004 12.1796586 0.0163852506 0.9758358424 1.00000000 10 59538440 59538449 10 + 1.120 1.119 -0.002
ENSMUSG00000020111 E005 27.0034449 0.0021964256 0.4837312648 0.92397777 10 59538450 59538470 21 + 1.421 1.470 0.168
ENSMUSG00000020111 E006 40.3316855 0.0005026079 0.3695559221 0.87582358 10 59538471 59538479 9 + 1.590 1.639 0.169
ENSMUSG00000020111 E007 44.9556622 0.0029518039 0.6072465635 0.95334770 10 59538480 59538509 30 + 1.646 1.676 0.101
ENSMUSG00000020111 E008 62.8617130 0.0112283247 0.4832516906 0.92372810 10 59563779 59563813 35 + 1.779 1.828 0.164
ENSMUSG00000020111 E009 120.3118710 0.0006802118 0.8123515454 0.98376893 10 59563814 59563940 127 + 2.079 2.088 0.028
ENSMUSG00000020111 E010 149.2578264 0.0001831273 0.1822029829 0.76082247 10 59568805 59568979 175 + 2.156 2.195 0.128
ENSMUSG00000020111 E011 0.0000000       10 59575906 59576117 212 +      
ENSMUSG00000020111 E012 109.9588234 0.0002179184 0.1691674868 0.74790655 10 59576482 59576595 114 + 2.020 2.067 0.155
ENSMUSG00000020111 E013 62.3490925 0.0029837624 0.7159076844 0.96912015 10 59576596 59576644 49 + 1.791 1.811 0.066
ENSMUSG00000020111 E014 0.1660866 0.0341119654 0.4622999854   10 59576645 59580718 4074 + 0.127 0.000 -10.899
ENSMUSG00000020111 E015 60.5033871 0.0003958214 0.0763536193 0.58710222 10 59586326 59586369 44 + 1.828 1.749 -0.267
ENSMUSG00000020111 E016 10.0212475 0.0140280113 0.3286932800 0.86241242 10 59586370 59587527 1158 + 1.097 0.984 -0.412
ENSMUSG00000020111 E017 0.0000000       10 59592528 59592539 12 +      
ENSMUSG00000020111 E018 1.4758355 0.0110710807 0.1073096396 0.64784444 10 59592540 59592996 457 + 0.224 0.511 1.728
ENSMUSG00000020111 E019 1.3230137 0.0961470563 0.5980957407 0.95237338 10 59598235 59598478 244 + 0.304 0.415 0.660
ENSMUSG00000020111 E020 0.3274496 0.0259340570 0.2147320092   10 59602906 59602911 6 + 0.000 0.215 11.109
ENSMUSG00000020111 E021 96.5299517 0.0002346466 0.1033335142 0.64087077 10 59603960 59604074 115 + 2.018 1.960 -0.192
ENSMUSG00000020111 E022 67.4799691 0.0002997428 0.8221103621 0.98411089 10 59623763 59623845 83 + 1.830 1.840 0.034
ENSMUSG00000020111 E023 150.8874987 0.0001805213 0.3390882994 0.86826560 10 59624701 59624898 198 + 2.195 2.168 -0.088
ENSMUSG00000020111 E024 33.9539479 0.0058755483 0.3438580092 0.87161946 10 59663011 59663042 32 + 1.574 1.510 -0.219
ENSMUSG00000020111 E025 90.6907116 0.0002435028 0.1208261675 0.66851309 10 59663043 59663148 106 + 1.990 1.934 -0.189
ENSMUSG00000020111 E026 101.2000266 0.0002350123 0.3349909762 0.86618188 10 59675497 59675605 109 + 1.991 2.025 0.114
ENSMUSG00000020111 E027 3.7769721 0.0052371051 0.0008694418 0.04309631 10 59675606 59676189 584 + 0.871 0.358 -2.327
ENSMUSG00000020111 E028 0.4886102 0.1928264059 0.5858493710   10 59697340 59697384 45 + 0.224 0.121 -1.075
ENSMUSG00000020111 E029 100.0132826 0.0002193603 0.7744532796 0.97808677 10 59697385 59697474 90 + 1.999 2.009 0.035
ENSMUSG00000020111 E030 303.9096230 0.0001524732 0.1642558745 0.73807790 10 59699001 59699396 396 + 2.470 2.497 0.092
ENSMUSG00000020111 E031 370.9483133 0.0001481463 0.1054441715 0.64292956 10 59699397 59699881 485 + 2.584 2.557 -0.092
ENSMUSG00000020111 E032 47.1785405 0.0007413968 0.6858106163 0.96291900 10 59699882 59699954 73 + 1.672 1.693 0.072

Help

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