ENSMUSG00000047888

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
ENSMUST00000067689 ENSMUSG00000047888 Control shVgll3 Tnrc6b protein_coding protein_coding 4.875971 5.677154 4.074787 0.3595808 0.3183125 -0.477446 0.7244284 0.6895098 0.7593469 0.21736634 0.22865547 0.13728999 0.15328333 0.12373333 0.18283333 0.05910000 0.970665669 0.006219564 FALSE  
ENSMUST00000175127 ENSMUSG00000047888 Control shVgll3 Tnrc6b protein_coding miRNA 4.875971 5.677154 4.074787 0.3595808 0.3183125 -0.477446 2.6909664 3.3437242 2.0382085 0.28677971 0.17637109 -0.71140149 0.54336667 0.58723333 0.49950000 -0.08773333 0.746726034 0.006219564    
ENSMUST00000228124 ENSMUSG00000047888 Control shVgll3 Tnrc6b protein_coding protein_coding 4.875971 5.677154 4.074787 0.3595808 0.3183125 -0.477446 0.2834757 0.2711138 0.2958376 0.13561535 0.15564604 0.12161158 0.05905000 0.05046667 0.06763333 0.01716667 1.000000000 0.006219564 FALSE  
ENSMUST00000228525 ENSMUSG00000047888 Control shVgll3 Tnrc6b protein_coding retained_intron 4.875971 5.677154 4.074787 0.3595808 0.3183125 -0.477446 0.1625801 0.3251603 0.0000000 0.06660815 0.00000000 -5.06677923 0.02816667 0.05633333 0.00000000 -0.05633333 0.006219564 0.006219564 FALSE  
MSTRG.8314.2 ENSMUSG00000047888 Control shVgll3 Tnrc6b protein_coding   4.875971 5.677154 4.074787 0.3595808 0.3183125 -0.477446 0.6354143 0.6246051 0.6462234 0.34607784 0.34298395 0.04832789 0.13975000 0.10896667 0.17053333 0.06156667 1.000000000 0.006219564 FALSE  
MSTRG.8314.3 ENSMUSG00000047888 Control shVgll3 Tnrc6b protein_coding   4.875971 5.677154 4.074787 0.3595808 0.3183125 -0.477446 0.1278889 0.0000000 0.2557779 0.00000000 0.08587193 4.73214912 0.03015000 0.00000000 0.06030000 0.06030000 0.007454227 0.006219564 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
ENSMUSG00000047888 E001 0.3272765 0.0261107031 0.215894953   15 80595514 80595558 45 + 0.000 0.216 11.539
ENSMUSG00000047888 E002 2.2932515 0.0075765454 0.086653798 0.61360541 15 80595559 80595689 131 + 0.640 0.359 -1.389
ENSMUSG00000047888 E003 1.6422587 0.0097303539 0.924804909 0.99924018 15 80631607 80631674 68 + 0.429 0.416 -0.068
ENSMUSG00000047888 E004 2.4786803 0.1050962256 0.621336987 0.95514198 15 80643741 80643831 91 + 0.481 0.591 0.517
ENSMUSG00000047888 E005 2.4799964 0.2623575832 0.862227286 0.98884244 15 80668940 80669007 68 + 0.568 0.513 -0.260
ENSMUSG00000047888 E006 1.6472887 0.0095972447 0.471725501 0.92111443 15 80682843 80682915 73 + 0.480 0.359 -0.653
ENSMUSG00000047888 E007 2.2924347 0.0075899580 0.677058503 0.96164256 15 80682916 80683005 90 + 0.480 0.553 0.347
ENSMUSG00000047888 E008 5.9017174 0.0132918128 0.157186338 0.72598874 15 80742882 80742969 88 + 0.925 0.740 -0.720
ENSMUSG00000047888 E009 5.0831195 0.0283365199 0.542157256 0.93688185 15 80748586 80748607 22 + 0.828 0.740 -0.348
ENSMUSG00000047888 E010 23.6555738 0.0008960399 0.043794836 0.46616196 15 80760518 80760862 345 + 1.457 1.321 -0.471
ENSMUSG00000047888 E011 61.0474153 0.0003574255 0.071130335 0.57385011 15 80763068 80764898 1831 + 1.828 1.755 -0.247
ENSMUSG00000047888 E012 18.0495880 0.0160803466 0.408473941 0.89465047 15 80764899 80765407 509 + 1.319 1.240 -0.277
ENSMUSG00000047888 E013 0.6590832 0.0186249793 0.042554133   15 80765408 80765689 282 + 0.000 0.359 14.537
ENSMUSG00000047888 E014 0.1667494 0.0342114010 0.460002765   15 80766874 80767144 271 + 0.126 0.000 -13.419
ENSMUSG00000047888 E015 4.7651906 0.0177116213 0.310296312 0.84876295 15 80767145 80767303 159 + 0.828 0.686 -0.570
ENSMUSG00000047888 E016 0.3318168 0.0267243058 0.964684547   15 80767304 80767493 190 + 0.126 0.121 -0.068
ENSMUSG00000047888 E017 8.3816978 0.0023626505 0.366729206 0.87540223 15 80768408 80768550 143 + 1.018 0.924 -0.351
ENSMUSG00000047888 E018 3.6079067 0.0050614858 0.889407522 0.99452963 15 80768551 80768583 33 + 0.673 0.657 -0.068
ENSMUSG00000047888 E019 0.1659033 0.0342976058 0.514188470   15 80768584 80768926 343 + 0.000 0.121 12.569
ENSMUSG00000047888 E020 5.7616897 0.0036588969 0.179531095 0.75817861 15 80771160 80771234 75 + 0.907 0.740 -0.653
ENSMUSG00000047888 E021 6.2628808 0.0031616680 0.649616253 0.95668705 15 80772031 80772076 46 + 0.828 0.889 0.237
ENSMUSG00000047888 E022 8.8694715 0.0022611624 0.827112445 0.98548395 15 80773220 80773350 131 + 1.004 0.986 -0.068
ENSMUSG00000047888 E023 2.7836424 0.0786430870 0.242278091 0.80442163 15 80773351 80773356 6 + 0.673 0.466 -0.944
ENSMUSG00000047888 E024 0.0000000       15 80774307 80774477 171 +      
ENSMUSG00000047888 E025 8.8996232 0.0022115915 0.066348876 0.55579565 15 80778530 80778655 126 + 1.083 0.889 -0.720
ENSMUSG00000047888 E026 2.8029162 0.0105919085 0.190371582 0.76589127 15 80786085 80786086 2 + 0.673 0.467 -0.942
ENSMUSG00000047888 E027 9.8935293 0.0553106634 0.602435697 0.95298077 15 80786087 80786216 130 + 1.071 1.001 -0.258
ENSMUSG00000047888 E028 4.1064431 0.0047472032 0.729440356 0.97107356 15 80786489 80786587 99 + 0.731 0.686 -0.183
ENSMUSG00000047888 E029 7.2230645 0.0049311956 0.626362548 0.95514198 15 80786721 80786913 193 + 0.942 0.889 -0.199
ENSMUSG00000047888 E030 0.4935265 0.0264037244 0.075501992   15 80786914 80788544 1631 + 0.303 0.000 -14.966
ENSMUSG00000047888 E031 6.9259667 0.0054973834 0.624555945 0.95514198 15 80797506 80797643 138 + 0.925 0.871 -0.205
ENSMUSG00000047888 E032 0.0000000       15 80800117 80800884 768 +      
ENSMUSG00000047888 E033 10.2121999 0.0601526584 0.724851531 0.97107356 15 80800885 80801061 177 + 1.084 1.014 -0.255
ENSMUSG00000047888 E034 0.0000000       15 80801062 80802151 1090 +      
ENSMUSG00000047888 E035 10.6843355 0.0018272978 0.716205827 0.96912015 15 80802152 80802298 147 + 1.083 1.053 -0.112
ENSMUSG00000047888 E036 0.1615462 0.0345322819 0.513817889   15 80802299 80802711 413 + 0.000 0.121 12.568
ENSMUSG00000047888 E037 8.0529888 0.0046996683 0.001600267 0.06933306 15 80802712 80802807 96 + 1.107 0.740 -1.390
ENSMUSG00000047888 E038 0.6501761 0.0247011926 0.343320633   15 80802808 80803436 629 + 0.126 0.293 1.517
ENSMUSG00000047888 E039 0.3274496 0.0260656860 0.216069632   15 80807265 80807658 394 + 0.000 0.216 13.568
ENSMUSG00000047888 E040 22.8482332 0.0276807741 0.138534900 0.70100332 15 80807659 80807883 225 + 1.446 1.300 -0.506
ENSMUSG00000047888 E041 6.5797427 0.0406194698 0.888253760 0.99452963 15 80808287 80808357 71 + 0.889 0.871 -0.070
ENSMUSG00000047888 E042 11.6919612 0.0046248811 0.314717791 0.85211665 15 80811801 80811940 140 + 1.046 1.152 0.383
ENSMUSG00000047888 E043 532.9242785 0.0011136195 0.009681804 0.21369387 15 80813290 80824239 10950 + 2.708 2.745 0.125
ENSMUSG00000047888 E044 108.3022726 0.0005465018 0.004445073 0.13260283 15 80824240 80825286 1047 + 1.984 2.085 0.338

Help

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