ENSMUSG00000038611

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
ENSMUST00000106027 ENSMUSG00000038611 Control shVgll3 Phrf1 protein_coding protein_coding 10.10802 10.30698 9.909061 0.5080711 0.07173215 -0.05674507 2.7779398 3.2088693 2.347010 0.40214567 1.1758929 -0.4495959 0.27535000 0.31230000 0.2384000 -0.07390000 9.706657e-01 1.89176e-15 FALSE TRUE
ENSMUST00000130687 ENSMUSG00000038611 Control shVgll3 Phrf1 protein_coding protein_coding 10.10802 10.30698 9.909061 0.5080711 0.07173215 -0.05674507 0.7756869 1.5513739 0.000000 0.05066813 0.0000000 -7.2866722 0.07588333 0.15176667 0.0000000 -0.15176667 1.891760e-15 1.89176e-15 FALSE TRUE
ENSMUST00000142572 ENSMUSG00000038611 Control shVgll3 Phrf1 protein_coding protein_coding 10.10802 10.30698 9.909061 0.5080711 0.07173215 -0.05674507 3.1467509 2.7039816 3.589520 0.53580279 0.4102982 0.4073937 0.31100000 0.25930000 0.3627000 0.10340000 8.460797e-01 1.89176e-15 FALSE TRUE
ENSMUST00000155123 ENSMUSG00000038611 Control shVgll3 Phrf1 protein_coding nonsense_mediated_decay 10.10802 10.30698 9.909061 0.5080711 0.07173215 -0.05674507 1.2078541 0.6189131 1.796795 0.61891312 1.3596610 1.5225003 0.11981667 0.06013333 0.1795000 0.11936667 9.706657e-01 1.89176e-15 FALSE TRUE
MSTRG.21768.4 ENSMUSG00000038611 Control shVgll3 Phrf1 protein_coding   10.10802 10.30698 9.909061 0.5080711 0.07173215 -0.05674507 0.9854408 0.6593163 1.311565 0.26104576 0.2684414 0.9814875 0.09708333 0.06180000 0.1323667 0.07056667 8.601118e-01 1.89176e-15 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
ENSMUSG00000038611 E001 0.0000000       7 140808697 140808701 5 +      
ENSMUSG00000038611 E002 0.6646426 0.0482279467 0.935165769   7 140808702 140808721 20 + 0.213 0.227 0.120
ENSMUSG00000038611 E003 1.3306211 0.1960619128 0.684819242 0.96291900 7 140808722 140808725 4 + 0.412 0.308 -0.619
ENSMUSG00000038611 E004 2.3229066 0.0607053093 0.438611344 0.91097721 7 140808726 140808750 25 + 0.585 0.434 -0.730
ENSMUSG00000038611 E005 7.9088799 0.0023199329 0.579373492 0.94737365 7 140808751 140808804 54 + 0.979 0.914 -0.243
ENSMUSG00000038611 E006 19.5600655 0.0172033849 0.994968753 1.00000000 7 140811140 140811255 116 + 1.313 1.312 -0.003
ENSMUSG00000038611 E007 6.5706424 0.0073007697 0.570938880 0.94387267 7 140812332 140812334 3 + 0.845 0.914 0.264
ENSMUSG00000038611 E008 22.6941048 0.0009324810 0.740944120 0.97290014 7 140812335 140812454 120 + 1.387 1.361 -0.089
ENSMUSG00000038611 E009 0.1615462 0.0345930701 0.449142593   7 140814114 140814159 46 + 0.000 0.128 8.514
ENSMUSG00000038611 E010 0.0000000       7 140815336 140817409 2074 +      
ENSMUSG00000038611 E011 42.2705011 0.0005677732 0.270426166 0.81829206 7 140817410 140817615 206 + 1.664 1.603 -0.207
ENSMUSG00000038611 E012 0.4950450 0.2297040007 0.672420950   7 140817616 140818269 654 + 0.213 0.128 -0.884
ENSMUSG00000038611 E013 22.1779964 0.0166452404 0.840547811 0.98677151 7 140820798 140820881 84 + 1.375 1.354 -0.074
ENSMUSG00000038611 E014 3.7819009 0.0046868280 0.215782582 0.78841233 7 140823412 140823690 279 + 0.584 0.764 0.757
ENSMUSG00000038611 E015 22.3920330 0.0009595735 0.732106999 0.97209849 7 140823691 140823809 119 + 1.381 1.354 -0.093
ENSMUSG00000038611 E016 12.8235817 0.0021444193 0.205121634 0.77956884 7 140826760 140826857 98 + 1.081 1.197 0.417
ENSMUSG00000038611 E017 23.0736357 0.0032347042 0.113695738 0.65809636 7 140827134 140827309 176 + 1.435 1.313 -0.422
ENSMUSG00000038611 E018 16.1187147 0.0067471827 0.377575165 0.87965389 7 140828293 140828422 130 + 1.271 1.188 -0.295
ENSMUSG00000038611 E019 0.8214658 0.0159064825 0.729116056 0.97107356 7 140834708 140834776 69 + 0.289 0.227 -0.465
ENSMUSG00000038611 E020 8.2177383 0.0023125594 0.978435138 1.00000000 7 140834777 140834826 50 + 0.964 0.965 0.004
ENSMUSG00000038611 E021 12.5030224 0.0014665759 0.545676417 0.93707028 7 140834827 140834904 78 + 1.103 1.158 0.196
ENSMUSG00000038611 E022 1.1490789 0.0127834069 0.305429406 0.84622456 7 140835916 140836410 495 + 0.411 0.227 -1.202
ENSMUSG00000038611 E023 18.2792145 0.0010746062 0.698759480 0.96475394 7 140836411 140836592 182 + 1.300 1.267 -0.115
ENSMUSG00000038611 E024 15.1713069 0.0013153851 0.833069425 0.98548395 7 140836716 140836835 120 + 1.200 1.216 0.057
ENSMUSG00000038611 E025 0.6513880 0.4041027631 0.475436877   7 140837162 140837256 95 + 0.119 0.306 1.696
ENSMUSG00000038611 E026 21.4272782 0.0013869328 0.176915346 0.75677617 7 140837257 140837411 155 + 1.300 1.398 0.342
ENSMUSG00000038611 E027 6.9179800 0.0026058850 0.211810456 0.78415341 7 140837412 140837742 331 + 0.964 0.812 -0.580
ENSMUSG00000038611 E028 229.1081001 0.0001643641 0.752068289 0.97541370 7 140837945 140839102 1158 + 2.366 2.357 -0.029
ENSMUSG00000038611 E029 303.5308675 0.0044683091 0.539666967 0.93662476 7 140839103 140840309 1207 + 2.492 2.473 -0.065
ENSMUSG00000038611 E030 81.4140601 0.0032158554 0.143033094 0.70905461 7 140840310 140840620 311 + 1.883 1.948 0.219
ENSMUSG00000038611 E031 5.4355754 0.0032649175 0.541469885 0.93688185 7 140840828 140840872 45 + 0.845 0.764 -0.321
ENSMUSG00000038611 E032 60.0870177 0.0004098590 0.001907681 0.07639924 7 140840873 140841027 155 + 1.715 1.851 0.462
ENSMUSG00000038611 E033 30.4284005 0.0048926307 0.546508598 0.93707028 7 140841126 140841200 75 + 1.478 1.517 0.135
ENSMUSG00000038611 E034 96.7165322 0.0004171761 0.364993384 0.87540223 7 140841201 140841455 255 + 1.975 2.005 0.100
ENSMUSG00000038611 E035 0.6548895 0.0181601976 0.931230475   7 140841592 140841688 97 + 0.213 0.227 0.120
ENSMUSG00000038611 E036 37.0497295 0.0005068552 0.253421683 0.80699081 7 140841689 140841817 129 + 1.610 1.544 -0.228
ENSMUSG00000038611 E037 47.5494487 0.0004139178 0.150546697 0.71778715 7 140842322 140842663 342 + 1.720 1.646 -0.251

Help

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