MmuINT0117368 @ mm10
Intron Retention
Gene
ENSMUSG00000006494 | Pdk1
Description
pyruvate dehydrogenase kinase, isoenzyme 1 [Source:MGI Symbol;Acc:MGI:1926119]
Coordinates
chr2:71885982-71887458:+
Coord C1 exon
chr2:71885982-71886059
Coord A exon
chr2:71886060-71887381
Coord C2 exon
chr2:71887382-71887458
Length
1322 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
GTTTCTCTTCTGCTCTGTAGCGA
3' ss Score
7.31
Exon sequences
Seq C1 exon
ATGGCTATGAGAACGCTAGGCGGCTTTGTGATTTGTATTATGTTAACTCTCCTGAACTTGAACTTGAAGAACTAAATG
Seq A exon
GTAAGCCAGCCTGGGGGCGCCAGTTCAAGTAACGGGTGTTCTGACAGCTAAGGAGCGAGCTGAGATTTGCTTGAACAGTAAAGGGGCTCTTCCATCAACTCCGTCACCAAGTGTGAAGGCAGCAGAGTCATGTGTGCAGCGCACAGCCACATTTATTGTTTAGTTTGATTCCTCGGTAGAACATTTTGCTGTTTTGTTTTGGCTCTATTTTTTTAACTGATAATTTTAATTCTTTGTTATTTTCTTCAGAGACAGAAAAAAAAATACTAAGAAAAGATTTTTTAAAAAAATTTTTGTATACAGCTCATAGCAAAGTTTATCTTTTTTCTACTTTCTGAATTCTAAGTCAGTTTTTATTGTTGAAGGCAGAAGGCTGGGCATGTGAAAGACAGAGGAGGCACTCACCTGTCTGAGCAGCTCTCATGGTCTCCTCCCTGCCTTTTGGATAAAGGGTTCAGAGGTTTGGATAAAGACTGATAATGGTCATTTGACAAGGAAAACCTCTCCCAGGTTAAGATAATCCTTTGAGAAGGTGATGGGAAAAACTATGTTTTAATAGGCTTGAGCTAAGCCATATTCTGAACCTCTGAATGTGAGCAGTGGGTACTTACCTAGCCGGGGTAGCGTGGCTTGTGGTTTCTTCTGGTGGCACCACCCAGTCAGTAAGAGTCCCACGCCACAGGTGAGAGTCTAGGACACTGCTGCATGGGGCAGTGGCAAGATCAGCCAATTAATGTTTCTAAGTGGGAGCTTTTCAGAGGACAGTTTGGTTTACTGCTTGAATTACAGTCCAGTCATGTATTGGTTGAAGTACTTTGAAAGTATGGCTTCTTACCGCTTTGTCCTTCCAGAAGTCTGTGTTATACATACCTCCTGGGAAATGATGCTAGGTTTTTTGTTTTTTGTTTTTCCTCCTCTTTTTCTTTTTTAAAAAAATCTAGTGTTATATCCATAGAAATGTCCAAAATAAAATAGACAGTGTTCTACCCAGGTGAGACTTTTTTTTTCTAAGATGTCCATCTTGGGAAGTACAATCCGACATGAAGATGGAGTTCTTTTAAGGCTTGCTGTCCTATGGGAGCACGGGAGGATGGGTGGCTAGCCTCTAACACCAGAGTGTGAGGAGTAGCCTCTTGTCCCTCTCATCTGTGAGTACAGGGTTCAAACTCAGAGACAGTGAAGAAGTGGGGTGCGAGCACCCCCGTAGCACCCCCCCACCCCACTTTGCTAATGTTCACTCCACGTCATTCCACAGGGTTATTCTTACGAATGCTTTGAGCACATCTCTCTGTACTTTCATATGTTTCTCTTCTGCTCTGTAG
Seq C2 exon
CGAAATCACCAGGACAGACAATACAAGTGGTTTATGTACCATCCCATCTCTATCACATGGTGTTTGAACTGTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006494:ENSMUST00000006669:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.049 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0251821=HATPase_c=PU(11.2=53.8)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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