BtaINT0112563 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017037 | PKN1
Description
Bos taurus protein kinase N1 (PKN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080246]
Coordinates
chr7:12406237-12406467:-
Coord C1 exon
chr7:12406388-12406467
Coord A exon
chr7:12406313-12406387
Coord C2 exon
chr7:12406237-12406312
Length
75 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACA
5' ss Score
5.49
3' ss Seq
CCAGTCCTGTCTTTCTGCAGCCC
3' ss Score
9.97
Exon sequences
Seq C1 exon
AGTTCTCCGATCCAGGCAACTACTACCACTCCCGAGCTGCCTTCGGAGACCCAGGAGACACCAGGCCCCACGCTGTGCAG
Seq A exon
GTGACACCCCTCCCTTGGCCACCACCCACCACCCCTGCCCACTGTCCCTTCCCCACCAGTCCTGTCTTTCTGCAG
Seq C2 exon
CCCTCTGAGGAAGTCACCCCTGACCCTCGAGGATTTCAAGTTCCTGGCAGTGCTGGGCCGGGGTCACTTTGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017037:ENSBTAT00000022652:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.077
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(5.0=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTCTCCGATCCAGGCAAC
R:
CTTCCCAAAGTGACCCCGG
Band lengths:
156-231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]