MmuINT0117401 @ mm10
Intron Retention
Gene
ENSMUSG00000019577 | Pdk4
Description
pyruvate dehydrogenase kinase, isoenzyme 4 [Source:MGI Symbol;Acc:MGI:1351481]
Coordinates
chr6:5487064-5487477:-
Coord C1 exon
chr6:5487379-5487477
Coord A exon
chr6:5487175-5487378
Coord C2 exon
chr6:5487064-5487174
Length
204 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACT
5' ss Score
6.64
3' ss Seq
TATTTGTTTGCCTGTTTCAGATT
3' ss Score
9.6
Exon sequences
Seq C1 exon
AATGCCATGAGGGCCACGGTCGAGCATCAAGAAAACCGTCCTTCCTTGACCCCAGTAGAGGCCACTGTCGTCTTGGGAAAAGAAGACCTTACAATCAAG
Seq A exon
GTGACTGCTCCCTGCTTTTGTTGGAGGTTCTATCTAGAGAGAGGGGTTAAAGGGTCGATAATGACATGGGGCATCTCGTGGGGCAAATCTCAAAGCCACGAGACATGTGCCCTGTGACTTTGAAGAGAGGAAAGGCCTCTTTCTGTAGACAGGTGCCCATTGTTGGGAAAGTGTAGTGCTGACCTATTTGTTTGCCTGTTTCAG
Seq C2 exon
ATTTCTGACCGAGGAGGCGGTGTTCCTCTGAGGATTACTGACCGCCTCTTTAGTTACACGTACTCCACTGCTCCAACACCTGTGATGGACAATTCCCGGAATGCCCCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019577:ENSMUST00000019721:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0251821=HATPase_c=FE(25.6=100)
A:
NA
C2:
PF0251821=HATPase_c=FE(28.8=100)
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:
ATGAGGGCCACGGTCGAG
R:
CAAAGGGGCATTCCGGGAATT
Band lengths:
204-408
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