MmuINT0117400 @ mm9
Intron Retention
Gene
ENSMUSG00000019577 | Pdk4
Description
pyruvate dehydrogenase kinase, isoenzyme 4 [Source:MGI Symbol;Acc:MGI:1351481]
Coordinates
chr6:5437379-5439211:-
Coord C1 exon
chr6:5439135-5439211
Coord A exon
chr6:5437478-5439134
Coord C2 exon
chr6:5437379-5437477
Length
1657 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAT
5' ss Score
7.84
3' ss Seq
TATGGTTTTGTTGTGTTTAGAAT
3' ss Score
8.28
Exon sequences
Seq C1 exon
GAAAATTTCCAGGCCAACCAATCCACATTGTGTACGTTCCTTCACACCTTCACCACATGCTCTTCGAACTCTTCAAG
Seq A exon
GTATATTTCCCAGCCATCATGGGTTTGTCTCTACATAGTTTCGTGCTTAGTTTTTATCATTCTTCATTAAATAAGACCCTCTATTCATTATCTTAAGAATATGTTTATATAACGAAGCTATGTAGCCAGTGTTTGGGAAAGGACATAGAGATCACAGTAAAACAATGTACTTGAGAATATACAACATGGTTTGTTATCGCTCAGTAATGTAGGGTGGAGACTGTGTTTCCATCATTTCTTCAGATGTAACAAAGCTCTAGTACTTTATTCTTTAGAAGAGGTCACAGGGTCTTTGTGAATGAAGTCTTGCAACCTCCATTCTACAGACTCTACCACGGCAGACTTGAAGGCAGAGGTCCTATAGGTGGGGTGGCCATATTGGGAATCTAGAACAGCCAGTCTCATCACATGAACACAATTCACATGTGGAGTGTGTTAAAATGTAAACTCCTATGCAGGTCAGGAGTGGCGTTCAGGATTCTTAATTTTCAAGGACATGATGGTTATCCACAGTCCACCCTTTCTAACCAGCCTACAGACCCCTGGTTCTCAGATGGTATATGTCACAACCATCCACCATCTTTCTTGATGAAAGAGAGATGCATGGAGGTAGTGAGGTTCCCTGGATCTGAGAATTGCACCTCTAGCATTCTGGTCTGGGTATCTAAATACTGAGAGCATATCCTTCTATGGATTCTGAGATAGGACTCATGCTCTGAACTTGAGCCAGGAAGTAAGAGTTGCTTGAAGTTTGTGATGCTCTCTAAGACGATTTCATAGACTGACTGGAGGAAGGAAGTCTTTTTCAAAGTAAAATCTGCCTCTAATACTGGCATAAAGCCAGAATATACTGTTTTCCAATGCATCCTAATGTTTGGCAATGAGGTATTGATTAAACTCCAAATACCTGATCTATTTTATTTCACTTCCATTAATATCTGGAATCATACCTAGACACCAAAGGATAGTGAGAAATAGACTGATGAAATGAGGCATCACCCTAGGGCATTTCCTCTGTGAGCTCAAGACGCATTTGAGTTTACTTGATGCTGAAGAAGACATGAGACTTTCTCATCAATTTAGTTTTATTTTAATTGAAAGTTCTAACTCACAGAGTTACTCTCCCATCCCTGGTGAAAGTTAAGATCATATTCAAATGCAAATAGAAATTTAATTTAGAATTATTGACTGTCCTTTTAAATAGTAGCAACCTTATTTTTCCCCAGCAAGTTTTATAAAAGCCAATAAATTGGTTCAATGATTCACTGTTCATTCCTTATGTAATAGTCTTTGGTGTTTGGATATAAAATGTAATGGAAAGACAGAAAAATGGAGCACTAGGAAATGGACTATAAAAACCAATTTCTACATTTAAATTAAGCTTACAAATAAGAACTTGACAGCCAGCAGAATTGTTTTTCCATTAGACATTACTCCCAGGAGCTATGTTACATGGTAAATGAAGATTTTGAATTATACATTCTACATGACACATTCATAAACGGCTATGTTTACAGAGATGTTTTATCACTCACTTAAGAAATAGGAACATTGAATTATCCTCTGCTGCTTTTAGTTTAAACATAAAACCGGTTATTTATTGGCTTCATCATTTATTCTTCCTCCTTTTGATTCCTTATGGTTTTGTTGTGTTTAG
Seq C2 exon
AATGCCATGAGGGCCACGGTCGAGCATCAAGAAAACCGTCCTTCCTTGACCCCAGTAGAGGCCACTGTCGTCTTGGGAAAAGAAGACCTTACAATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019577-Pdk4:NM_013743:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.212
Domain overlap (PFAM):
C1:
PF0251821=HATPase_c=PU(11.2=53.8)
A:
NA
C2:
PF0251821=HATPase_c=FE(25.6=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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: