BtaINT0109551 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014069 | PDK4
Description
Bos taurus pyruvate dehydrogenase kinase, isozyme 4 (PDK4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101883]
Coordinates
chr4:12758547-12758942:-
Coord C1 exon
chr4:12758844-12758942
Coord A exon
chr4:12758658-12758843
Coord C2 exon
chr4:12758547-12758657
Length
186 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
TGATGACTTGTTTGTTTAAGATT
3' ss Score
5.89
Exon sequences
Seq C1 exon
AATGCAATGAGGGCCACAGTTGAACACCAGCAAAACTGGCCTTCTCTGACACCAATTGAGGTGATTGTTGTCTTGGGGAAAGAAGATCTTACAATTAAG
Seq A exon
GTAACTATTCTGTTTTGTCTTTTGAGTCCTTCTTAAGAGAATTTTTAAAAAGGAGTCAATAATAATAAAGCTCTCTGCTTTGAGCTACAGATCAAAGTCATGTACACCAGGTGAAGACAAGACATTTTTGTATAGACAAATATACATTGTTTTTAGCATATAGCTCTGATGACTTGTTTGTTTAAG
Seq C2 exon
ATTTCAGACAGAGGAGGTGGTGTTCCCCTGAGAGTCATTGACCGTCTCTTCAGTTACACGTACTCCACTGCACCAACGCCTGTGATGGATAATTCCCGGAATGCTCCGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014069:ENSBTAT00000038879:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGCAATGAGGGCCACAGTT
R:
GGAGCATTCCGGGAATTATCCA
Band lengths:
206-392
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]