ENSMUSG00000013736

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
ENSMUST00000057578 ENSMUSG00000013736 Control shVgll3 Trnt1 protein_coding protein_coding 27.04719 23.219 30.87539 1.123415 0.4575199 0.4109971 16.1324002 12.828624 19.436176 0.55951562 1.1086693 0.5989959 0.59106667 0.55280000 0.6293333 0.07653333 0.66725902 0.02377837 FALSE  
ENSMUST00000113248 ENSMUSG00000013736 Control shVgll3 Trnt1 protein_coding protein_coding 27.04719 23.219 30.87539 1.123415 0.4575199 0.4109971 0.7193422 1.438684 0.000000 0.71993965 0.0000000 -7.1785995 0.03251667 0.06503333 0.0000000 -0.06503333 0.61608545 0.02377837 FALSE  
ENSMUST00000147084 ENSMUSG00000013736 Control shVgll3 Trnt1 protein_coding retained_intron 27.04719 23.219 30.87539 1.123415 0.4575199 0.4109971 2.5724210 1.403895 3.740947 1.40389542 0.2179474 1.4075793 0.08826667 0.05526667 0.1212667 0.06600000 0.61744045 0.02377837    
MSTRG.19613.9 ENSMUSG00000013736 Control shVgll3 Trnt1 protein_coding   27.04719 23.219 30.87539 1.123415 0.4575199 0.4109971 5.5776457 5.972551 5.182741 0.09373192 0.2669079 -0.2042646 0.21318333 0.25853333 0.1678333 -0.09070000 0.02377837 0.02377837    
  • 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
ENSMUSG00000013736 E001 0.0000000       6 106746081 106746101 21 +      
ENSMUSG00000013736 E002 1.4771913 0.0107012525 0.9823429900 1.00000000 6 106746102 106746126 25 + 0.395 0.391 -0.022
ENSMUSG00000013736 E003 1.6439407 0.0100892199 0.7626796304 0.97799068 6 106746127 106746130 4 + 0.444 0.391 -0.285
ENSMUSG00000013736 E004 8.3994046 0.0024313420 0.6055403358 0.95302157 6 106746131 106746152 22 + 0.995 0.938 -0.214
ENSMUSG00000013736 E005 4.1286707 0.0060624134 0.2019979161 0.77686960 6 106746153 106746173 21 + 0.781 0.593 -0.787
ENSMUSG00000013736 E006 25.5221678 0.0007066186 0.0911350608 0.62308471 6 106746174 106746217 44 + 1.469 1.353 -0.402
ENSMUSG00000013736 E007 0.9867063 0.0148067928 0.8027911963 0.98165184 6 106746247 106746467 221 + 0.276 0.321 0.300
ENSMUSG00000013736 E008 0.4933433 0.0228044826 0.6927889509   6 106746468 106746515 48 + 0.202 0.135 -0.699
ENSMUSG00000013736 E009 0.9922855 0.0636564485 0.5922691149 0.95165770 6 106746516 106746790 275 + 0.340 0.238 -0.701
ENSMUSG00000013736 E010 41.1659623 0.0004443317 0.3054886587 0.84622456 6 106746791 106746816 26 + 1.646 1.591 -0.189
ENSMUSG00000013736 E011 91.8660841 0.0002324048 0.1161041314 0.66174610 6 106746817 106746964 148 + 1.990 1.933 -0.190
ENSMUSG00000013736 E012 1.3201854 0.0117954575 0.2523033124 0.80673156 6 106746965 106747125 161 + 0.444 0.238 -1.285
ENSMUSG00000013736 E013 2.7985393 0.0065151755 0.2004882081 0.77659307 6 106747763 106747876 114 + 0.659 0.451 -0.963
ENSMUSG00000013736 E014 2.9571719 0.0066575254 0.3291149759 0.86241242 6 106749980 106750245 266 + 0.659 0.504 -0.699
ENSMUSG00000013736 E015 112.2541249 0.0002190152 0.4950264131 0.92674629 6 106750246 106750439 194 + 2.061 2.039 -0.074
ENSMUSG00000013736 E016 72.3940525 0.0004938927 0.0806626036 0.59872534 6 106751367 106751505 139 + 1.894 1.822 -0.244
ENSMUSG00000013736 E017 64.3412641 0.0006301840 0.6001947727 0.95240386 6 106753080 106753206 127 + 1.823 1.800 -0.078
ENSMUSG00000013736 E018 21.1109468 0.0028142246 0.1552134213 0.72482499 6 106753415 106754642 1228 + 1.388 1.276 -0.389
ENSMUSG00000013736 E019 86.7888624 0.0002620327 0.8712948287 0.98948659 6 106754879 106755072 194 + 1.938 1.944 0.020
ENSMUSG00000013736 E020 74.8904068 0.0003333018 0.0003194737 0.02031089 6 106755129 106755748 620 + 1.807 1.951 0.484
ENSMUSG00000013736 E021 199.1456647 0.0001722400 0.5263048499 0.93574499 6 106755749 106756002 254 + 2.305 2.291 -0.050
ENSMUSG00000013736 E022 26.9956199 0.0006847046 0.0160702983 0.28505845 6 106756003 106756146 144 + 1.366 1.525 0.547
ENSMUSG00000013736 E023 256.5662600 0.0001575997 0.0526571090 0.50120656 6 106756147 106756428 282 + 2.390 2.430 0.132
ENSMUSG00000013736 E024 198.1825821 0.0002664716 0.5700770835 0.94387267 6 106758608 106759435 828 + 2.291 2.304 0.046

Help

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