ENSMUSG00000041225

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
ENSMUST00000077128 ENSMUSG00000041225 Control shVgll3 Arhgap12 protein_coding protein_coding 6.436589 6.838977 6.034201 0.3547689 0.1538211 -0.1803369 2.1902132 2.0498425 2.33058393 0.33969998 0.18586322 0.18433446 0.3455667 0.3029667 0.388166667 0.08520000 9.706657e-01 1.173555e-07 FALSE TRUE
ENSMUST00000182066 ENSMUSG00000041225 Control shVgll3 Arhgap12 protein_coding protein_coding 6.436589 6.838977 6.034201 0.3547689 0.1538211 -0.1803369 2.6839608 2.7232653 2.64465634 0.31767405 0.01073588 -0.04210039 0.4176500 0.3965667 0.438733333 0.04216667 9.706657e-01 1.173555e-07 FALSE TRUE
ENSMUST00000182178 ENSMUSG00000041225 Control shVgll3 Arhgap12 protein_coding protein_coding_CDS_not_defined 6.436589 6.838977 6.034201 0.3547689 0.1538211 -0.1803369 0.1567075 0.0000000 0.31341494 0.00000000 0.16134597 5.01531444 0.0263500 0.0000000 0.052700000 0.05270000 6.067442e-01 1.173555e-07   FALSE
ENSMUST00000182213 ENSMUSG00000041225 Control shVgll3 Arhgap12 protein_coding protein_coding 6.436589 6.838977 6.034201 0.3547689 0.1538211 -0.1803369 0.6604302 0.9350381 0.38582228 0.50785019 0.38582228 -1.25551963 0.0990000 0.1363000 0.061700000 -0.07460000 9.706657e-01 1.173555e-07 FALSE TRUE
ENSMUST00000182343 ENSMUSG00000041225 Control shVgll3 Arhgap12 protein_coding retained_intron 6.436589 6.838977 6.034201 0.3547689 0.1538211 -0.1803369 0.5144610 0.9796427 0.04927927 0.05610274 0.04927927 -4.06130823 0.0755500 0.1432333 0.007866667 -0.13536667 1.173555e-07 1.173555e-07   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
ENSMUSG00000041225 E001 16.1009473 0.0269528227 0.6045548388 0.95302157 18 6024427 6024784 358 - 1.202 1.263 0.215
ENSMUSG00000041225 E002 55.6634725 0.0004291726 0.2329314400 0.80378281 18 6024785 6025196 412 - 1.778 1.726 -0.176
ENSMUSG00000041225 E003 10.5211037 0.0019559519 0.4097484367 0.89590796 18 6025197 6025216 20 - 1.101 1.020 -0.293
ENSMUSG00000041225 E004 205.1684936 0.0008635447 0.9245895975 0.99915476 18 6025217 6026431 1215 - 2.314 2.314 0.001
ENSMUSG00000041225 E005 31.3256779 0.0018466844 0.4057001703 0.89347807 18 6026432 6026555 124 - 1.480 1.535 0.191
ENSMUSG00000041225 E006 37.6943018 0.0005864165 0.3074053424 0.84705901 18 6026556 6026730 175 - 1.614 1.560 -0.186
ENSMUSG00000041225 E007 32.3788258 0.0121649214 0.9666987909 1.00000000 18 6027575 6027677 103 - 1.521 1.527 0.021
ENSMUSG00000041225 E008 42.1663317 0.0043853457 0.2390458797 0.80442163 18 6027960 6028094 135 - 1.596 1.670 0.249
ENSMUSG00000041225 E009 20.4305426 0.0009192250 0.9529806459 1.00000000 18 6028194 6028271 78 - 1.327 1.334 0.025
ENSMUSG00000041225 E010 22.9074017 0.0080375839 0.5012633206 0.92783507 18 6031730 6031828 99 - 1.347 1.407 0.207
ENSMUSG00000041225 E011 1.4902920 0.1651808302 0.1793563346 0.75817861 18 6032960 6033140 181 - 0.221 0.517 1.786
ENSMUSG00000041225 E012 28.8299219 0.0067165484 0.0151485172 0.27716463 18 6033141 6033257 117 - 1.372 1.556 0.633
ENSMUSG00000041225 E013 36.4054737 0.0005299148 0.2626668489 0.81433690 18 6034450 6034552 103 - 1.538 1.604 0.227
ENSMUSG00000041225 E014 1.8069890 0.0090942550 0.0002280113 0.01506936 18 6034553 6034707 155 - 0.000 0.662 13.081
ENSMUSG00000041225 E015 33.2340864 0.0060167277 0.6124147365 0.95421876 18 6037018 6037116 99 - 1.550 1.519 -0.108
ENSMUSG00000041225 E016 24.5712188 0.0019272784 0.4597924276 0.91682762 18 6039354 6039405 52 - 1.378 1.433 0.192
ENSMUSG00000041225 E017 21.2822713 0.0057411182 0.7161735574 0.96912015 18 6039406 6039455 50 - 1.360 1.334 -0.089
ENSMUSG00000041225 E018 8.7437831 0.0021709091 0.4488439336 0.91349987 18 6049277 6049277 1 - 1.026 0.946 -0.295
ENSMUSG00000041225 E019 20.1194850 0.0026497402 0.0913296641 0.62350836 18 6049278 6049358 81 - 1.384 1.255 -0.451
ENSMUSG00000041225 E020 12.0387525 0.0017276355 0.1107727525 0.65376433 18 6052862 6052923 62 - 1.184 1.033 -0.541
ENSMUSG00000041225 E021 2.4602230 0.0156995122 0.8313369842 0.98548395 18 6056979 6056993 15 - 0.521 0.558 0.170
ENSMUSG00000041225 E022 8.0723495 0.0140816037 0.2611344508 0.81433690 18 6057517 6057558 42 - 0.883 1.020 0.513
ENSMUSG00000041225 E023 9.5453471 0.0131701940 0.6779224548 0.96164256 18 6057559 6057591 33 - 0.998 1.046 0.176
ENSMUSG00000041225 E024 16.3326849 0.0053641615 0.7165286418 0.96912015 18 6061847 6061950 104 - 1.220 1.255 0.124
ENSMUSG00000041225 E025 9.5740966 0.0023111501 0.5480535300 0.93707028 18 6061951 6061972 22 - 1.052 0.992 -0.221
ENSMUSG00000041225 E026 0.0000000       18 6061973 6062250 278 -      
ENSMUSG00000041225 E027 6.7676162 0.0382899037 0.2331275773 0.80378281 18 6064341 6064358 18 - 0.968 0.794 -0.665
ENSMUSG00000041225 E028 13.5093747 0.0015609219 0.5953256752 0.95165770 18 6064359 6064421 63 - 1.184 1.138 -0.163
ENSMUSG00000041225 E029 4.4234466 0.0109044981 0.2126251112 0.78473900 18 6065705 6065729 25 - 0.635 0.816 0.744
ENSMUSG00000041225 E030 4.7646309 0.0045472142 0.6251342477 0.95514198 18 6065730 6065771 42 - 0.725 0.794 0.278
ENSMUSG00000041225 E031 7.9096007 0.0141149789 0.9264986246 0.99930331 18 6065772 6065845 74 - 0.952 0.947 -0.021
ENSMUSG00000041225 E032 0.1659033 0.0343202926 0.4964138980   18 6068654 6069830 1177 - 0.000 0.123 9.640
ENSMUSG00000041225 E033 44.2465075 0.0146336300 0.8128856395 0.98376893 18 6069831 6070091 261 - 1.663 1.648 -0.053
ENSMUSG00000041225 E034 0.0000000       18 6070092 6071097 1006 -      
ENSMUSG00000041225 E035 0.4931601 0.1827332299 0.6326318003   18 6073211 6073286 76 - 0.124 0.218 0.981
ENSMUSG00000041225 E036 0.0000000       18 6092785 6092857 73 -      
ENSMUSG00000041225 E037 77.2186146 0.0009845798 0.2058611551 0.78095181 18 6111685 6112439 755 - 1.917 1.868 -0.164
ENSMUSG00000041225 E038 8.3780927 0.0533398335 0.5645741283 0.94217180 18 6115814 6115850 37 - 1.012 0.930 -0.307
ENSMUSG00000041225 E039 5.5731739 0.1052573279 0.9045707017 0.99563225 18 6135804 6135817 14 - 0.800 0.836 0.144
ENSMUSG00000041225 E040 14.6076150 0.0349300794 0.8619079195 0.98884244 18 6135818 6136098 281 - 1.202 1.186 -0.056

Help

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