ENSMUSG00000056486

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
ENSMUST00000102677 ENSMUSG00000056486 Control shVgll3 Chn1 protein_coding protein_coding 2.339925 1.838699 2.841152 0.3449724 0.1804329 0.6250347 0.25539222 0.1968044 0.313979985 0.07689293 0.023885815 0.6476375 0.10598333 0.10016667 0.111800000 0.01163333 1.0000000000 0.0001831265 FALSE TRUE
ENSMUST00000135904 ENSMUSG00000056486 Control shVgll3 Chn1 protein_coding protein_coding 2.339925 1.838699 2.841152 0.3449724 0.1804329 0.6250347 0.05780473 0.1156095 0.000000000 0.11560946 0.000000000 -3.6508732 0.03028333 0.06056667 0.000000000 -0.06056667 0.9706656688 0.0001831265 FALSE FALSE
ENSMUST00000154258 ENSMUSG00000056486 Control shVgll3 Chn1 protein_coding protein_coding 2.339925 1.838699 2.841152 0.3449724 0.1804329 0.6250347 0.24499477 0.0000000 0.489989531 0.00000000 0.062703942 5.6438260 0.08583333 0.00000000 0.171666667 0.17166667 0.0001831265 0.0001831265   FALSE
ENSMUST00000180045 ENSMUSG00000056486 Control shVgll3 Chn1 protein_coding protein_coding 2.339925 1.838699 2.841152 0.3449724 0.1804329 0.6250347 0.11636017 0.2243066 0.008413769 0.06465324 0.008413769 -3.6695406 0.07435000 0.14553333 0.003166667 -0.14236667 0.1465854393 0.0001831265 FALSE TRUE
ENSMUST00000231013 ENSMUSG00000056486 Control shVgll3 Chn1 protein_coding protein_coding_CDS_not_defined 2.339925 1.838699 2.841152 0.3449724 0.1804329 0.6250347 1.51212514 1.0181440 2.006106282 0.14216586 0.138018100 0.9715294 0.63585000 0.56600000 0.705700000 0.13970000 0.6166700676 0.0001831265 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 shVgll3 Control log2fold_Control_shVgll3
ENSMUSG00000056486 E001 1.1447313 0.014533656 0.534932264 0.93660279 2 73441004 73441088 85 - 0.266 0.405 0.866
ENSMUSG00000056486 E002 11.0392677 0.002170666 0.002839843 0.09861073 2 73441089 73442679 1591 - 0.905 1.235 1.200
ENSMUSG00000056486 E003 24.1391599 0.001086902 0.510824512 0.93083264 2 73442680 73443231 552 - 1.392 1.402 0.036
ENSMUSG00000056486 E004 5.1053173 0.003899656 0.137206934 0.69936522 2 73443232 73443252 21 - 0.840 0.686 -0.619
ENSMUSG00000056486 E005 8.5785628 0.004505915 0.474752592 0.92222780 2 73443253 73443427 175 - 0.988 0.958 -0.111
ENSMUSG00000056486 E006 3.6242486 0.005179437 0.197918232 0.77332798 2 73443428 73443540 113 - 0.718 0.567 -0.649
ENSMUSG00000056486 E007 0.0000000       2 73445006 73445111 106 -      
ENSMUSG00000056486 E008 7.5501289 0.002659253 0.392496870 0.88731168 2 73448265 73448402 138 - 0.948 0.899 -0.186
ENSMUSG00000056486 E009 0.1667494 0.034816065 0.577551496   2 73454018 73454458 441 - 0.108 0.000 -12.143
ENSMUSG00000056486 E010 2.7872576 0.006736088 0.183540203 0.76082247 2 73454459 73454461 3 - 0.641 0.466 -0.812
ENSMUSG00000056486 E011 3.6129074 0.005190262 0.199498987 0.77519550 2 73454462 73454484 23 - 0.718 0.567 -0.648
ENSMUSG00000056486 E012 2.7961945 0.006405056 0.406465289 0.89390915 2 73454485 73454503 19 - 0.612 0.520 -0.423
ENSMUSG00000056486 E013 1.9797588 0.012882651 0.152435979 0.72005774 2 73454504 73454536 33 - 0.548 0.333 -1.134
ENSMUSG00000056486 E014 0.8314021 0.027460997 0.244628645 0.80442163 2 73455221 73455221 1 - 0.328 0.141 -1.549
ENSMUSG00000056486 E015 10.0423668 0.003844658 0.021844595 0.33316567 2 73455222 73455394 173 - 1.108 0.920 -0.693
ENSMUSG00000056486 E016 0.6587172 0.023063234 0.230981394   2 73455395 73455866 472 - 0.108 0.333 2.037
ENSMUSG00000056486 E017 0.3272765 0.026010832 0.152675168   2 73455867 73456084 218 - 0.000 0.248 13.162
ENSMUSG00000056486 E018 3.5923815 0.063080493 0.648893814 0.95668705 2 73462090 73462174 85 - 0.612 0.718 0.454
ENSMUSG00000056486 E019 0.3272765 0.026010832 0.152675168   2 73462806 73462907 102 - 0.000 0.248 13.162
ENSMUSG00000056486 E020 0.0000000       2 73485282 73485402 121 -      
ENSMUSG00000056486 E021 1.9597820 0.010081744 0.368376151 0.87540223 2 73490024 73490101 78 - 0.381 0.567 0.937
ENSMUSG00000056486 E022 0.0000000       2 73490102 73490420 319 -      
ENSMUSG00000056486 E023 0.6599196 0.018615552 0.408501285   2 73490421 73490750 330 - 0.266 0.141 -1.134
ENSMUSG00000056486 E024 0.0000000       2 73508173 73508181 9 -      
ENSMUSG00000056486 E025 0.0000000       2 73509959 73509965 7 -      
ENSMUSG00000056486 E026 0.9949008 0.156817007 0.009867050 0.21574720 2 73509966 73510175 210 - 0.000 0.520 14.281
ENSMUSG00000056486 E027 1.3056243 0.165609847 0.042278229 0.46092332 2 73510176 73510247 72 - 0.108 0.567 3.254
ENSMUSG00000056486 E028 1.1479058 0.012782248 0.001695256 0.07122958 2 73537263 73537376 114 - 0.000 0.567 14.601
ENSMUSG00000056486 E029 0.4931798 0.021755235 0.057842606   2 73540799 73540826 28 - 0.000 0.333 13.647
ENSMUSG00000056486 E030 0.3274496 0.026396586 0.152400611   2 73540827 73540830 4 - 0.000 0.248 13.162
ENSMUSG00000056486 E031 0.6547260 0.018706978 0.023224598   2 73546708 73546763 56 - 0.000 0.405 13.979
ENSMUSG00000056486 E032 0.1615462 0.034337872 0.407326799   2 73551747 73551775 29 - 0.000 0.141 12.292
ENSMUSG00000056486 E033 0.0000000       2 73551776 73551785 10 -      
ENSMUSG00000056486 E034 0.0000000       2 73552244 73552438 195 -      
ENSMUSG00000056486 E035 0.0000000       2 73599090 73599197 108 -      
ENSMUSG00000056486 E036 0.6547260 0.018706978 0.023224598   2 73605367 73605690 324 - 0.000 0.405 13.979

Help

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