MmuINT0117394 @ mm10
Intron Retention
Gene
ENSMUSG00000019577 | Pdk4
Description
pyruvate dehydrogenase kinase, isoenzyme 4 [Source:MGI Symbol;Acc:MGI:1351481]
Coordinates
chr6:5483351-5486791:-
Coord C1 exon
chr6:5486678-5486791
Coord A exon
chr6:5485593-5486677
Coord C2 exon
chr6:5483351-5485592
Length
1085 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGC
5' ss Score
10.4
3' ss Seq
TTTCTCTACTCTCCTTTTAGGCT
3' ss Score
11.71
Exon sequences
Seq C1 exon
GCTGGTTTTGGTTATGGCTTGCCAATTTCTCGTCTCTACGCCAAGTATTTTCAAGGAGATCTGAATCTCTACTCTATGTCAGGTTATGGGACAGACGCTATCATCTACTTAAAG
Seq A exon
GTACGCCTGAAACTCAGTCAAAAGCCATCTTTTCAAAGCCACGGATTGGTTTACACCTCTGTGCTCTCTGGTCCTCTGTGAACTCTTCAAATGGAGGTAGTCTAACAGCCAGCTATTAACGTTCCTGTTTGGATGTGTGCACACCATACTTATCACACACAGCTTGCCCAAGAGAAAGCTAAGGTGTGCTCCCTGACCCAGTGCTGACCCAGACACAGCCTGAGCCCCAGAGAGGCAGCATCCTGATGGGGATCTTTCTCAGACAGCTTCTCTTTGGCATCTCTGAGGATAGCCAGAGTTCTTTTTTACTCAGCCTTGTGGGCTATATAGTGCTGAGGAAGGTTCAGACTAAAACATCAAAACCCAAGACCTTTGTGACCTTAAGCTGGCTCTATTTAAAACCCAGGGGAAAGATTACTCACAAGCCATCAGTGGGTGCCAGGTATTTCCTGTCTGAAATTTAAAACTGATTACATAGTTTCCTATCTCAGATAAAGCTTAAATTTGTTGGTTAGGATCACCTTCCCAACTCTGTTTTCAACAAAAAAAAATTTTTTTTAGAGCTGGTAAGACCTGCAACCTCAGTTGCTTCTAGGCTTCTTCCGTTTTGTCCGTTGGACTTAAATACTCACGTACCCTTGACTTTCTCAAATACTTGGTGCACTTATTCATTTCTGAAAGGGGCAAAAGTGTTCAAACTGTAGGGAAACAAGCCTATGACCGATGAGTAGTATCGTCTCAGGTCTCCATCACAGAAACCCAGGTTCCTTTCTGAAAAGAATTTCTTTTCTTTTCAACTCCATTATATCAGAGGTCTCCAACGGTCATTACTGAACACAAAATCTGTACCCAAGTATCTACAATCCCACACCTATAATTTAAGCTTTTATTGAATAAAGATAATAGTATTTTAGTCATGTTTTGTGAAATATCTAGAACACCCTGGGTTTGGTACATTTTTCCCACAAAATCAATTAAATGAGAGAACTTGAATATTAAATCATACCTCTGAATGTATTTTGAATAATGCAGTACAGCCATGCGTCATTTCTTTAAGTTGTTCTTTTTCTCTACTCTCCTTTTAG
Seq C2 exon
GCTTTATCTTCTGAGTCTGTAGAAAAGCTCCCAGTCTTTAACAAGTCAGCCTTCAAACATTATCAGATGAGCTCCGAAGCTGATGACTGGTGTATCCCAAGCAGGGAACCGAAGAACCTGGCGAAGGAGAAGCTGGCAGTGTGAAGCGGATGACGCCTGACATTTTACGGGATCAAAGTGGGTCTGTGGCATTGCTGCTTCGTGAATGTGTGTGGACTCTAGTTTCCGCAAAACAACGCAACACAAAACCAAGCAAGCAAAACACAAACACGAGTACAAACCTTGACCTGATGAGGGACAGAGCTTGGTTGGATGACCCGGGAGAAGTCAGGGCAGGGCTCCAGGGGATAACAGGTGTCCTGCTTCTCCTTTGGCAATGCAAAATGACTCCTGACTGTTCCAAATACTGAAAAGAAGTCTGCCTCTGAGTTACAGCTCTTTCTCAACAAGTACAGAGTTTGAGGCTTGCAGTTGCAACAGCTGGATGTTTGGTGGTTCTTGCTGCCAGCCAAATAAATTGGTGTTTAGTGAACATTTTCAGTGTTTCCCCGCCATGCAAAGCTTGGCGCCTTGGGAGAAATGTGTGTAAATGTACATTGTATAGGTATTAGTGTGCTCTAGAAAGGACAGGATGGAAGGAATCAAAGCACTTTATCGAGCTTGTGGCTGAGCATTGCAGCCTATGTGCAAACCCAGAGGAAAAGTATCTCTGTCAAGACAGCTCCAGTATCATGCAGCTTTTTATGTTTGCACTCAAAAAGCCAGTGCCTTCTGGCTGGTGCCGAGGCTTGGGTGAAATGTTAAATATGCACTGACCTCAGAAAGTCGAGTTCAAAAGGGAGATAAAATTGCCAAAGTGATCCAAGGATTGTGCATGTTGGGAAACCCATATGAGAGAAAGGATTCTCATACTTAGAACTTTCCTATGAAGAAATGGTGGTAAACTTTCTCTACCTAGAAGTAGTGGAAATTTCAAGGTCATCTTAAAAAAGATGTGCGTTGTATATTTTAACTACATTCTCTACACTCTAACATTAACATATCTATTCAAATTTGTCTAGTTGCCAATTGTCTTCAGAGTGTGAAAATTTAAATCCTTCTTGAAGTATCTTTCGTGAGAGTAGTATGGAAGTAAAACGTTCTCATATCAGGAGGATGTCATTTGTGAAGCATGGGGACATCATGAACTAGTGATGTGCGTGAGGCTTGGGAGGCTGAAGGGTAAGGATCAGCGGGAGGCCATCCATGTAGGAGAGAGAATTAAAACGAGGAGCGAGGGAAGCAATGGAGAGAGGGAAGCAAGAAAGGAACCAGAAGGCTGGCATCATCCTATTTCCCACAGGCTAACCCAAGGGATGCTCTGTGCCTTTCCTGGGGAGGGAAGGGGATGAACTGGTAGATTTGAAAGCAGTATGGCTTCTTCTGTGGGTCTCCCTCTTACTAGACAAGGTGAAATGATAATTCGTGTCAAATTAATGTGAAATTTTTTTCCTGCATTGTAATATTATGAGGCCTGAGTCGCAGTTGAGTTTGAAATTTGTATTTAATTTCACAGTGACCTAGAGCTAAGGTGCTCCCGGTTGTGGCAATAGGAGCCACAAGTATTTTCTTTCTTTCTTTCGTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCTTCCTTTCCTTTTCTTTTCTCTTCTCTTCTTTTCTTTTTTCTGTTTCTTTTTCTTTTTTTGCATTGTAGATGTTGTCCTTAAAAGATCAGGGCAGTGACTTTCACAGCAGGACTTTGACTCCCACATTGGTTGATCACACAAAACTGTCAGCATTTGGGTAATCTGATGTATAGTTGTTTTGTTGCTGATGTTTCCATTGAAATTTCAGCTCTGAGTTTGTGCACATGAATACTTACTTGTGTTTACCAAAGGTCTAAGGCATTTGGTTACTTAACCCAAATATCCTGAACTGTGCGTAAAGTAATAGAGAAAAGCTTTAGGGTCTCAATAGTGTCACCTGTGTAAATCAAATCAAAATAGCCTTCCCTATTATTTATGAACCCATGGGAGACTTTAAACTCTTGTAGATAGATGCTAAATGCCCAGGCCCACTTAACTTATTAATGTGTGAATTACATTTATGTTTTTAGTTTATATGCAAAGAATTGTGATAATTTTATAATAAATATTTTTATTATAATAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019577:ENSMUST00000019721:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0251821=HATPase_c=FE(29.6=100)
A:
NA
C2:
PF0251821=HATPase_c=PD(0.8=2.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCTTGCCAATTTCTCGTCT
R:
GTGTTGCGTTGTTTTGCGGAA
Band lengths:
344-1429
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types