BtaINT0112567 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017037 | PKN1
Description
Bos taurus protein kinase N1 (PKN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080246]
Coordinates
chr7:12404054-12404336:-
Coord C1 exon
chr7:12404274-12404336
Coord A exon
chr7:12404131-12404273
Coord C2 exon
chr7:12404054-12404130
Length
143 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
TCTTCCACCCCCTCTCACAGGGA
3' ss Score
9.26
Exon sequences
Seq C1 exon
CTTTTATTCGGCCTGTGTGGTGCTGGGGCTGCAGTTTCTCCACGAACACAAGATTGTCTACAG
Seq A exon
GTGTGTGTGCGTGTGCAGGTTCACGCCTGTGGGCTCGTGCATACATGCACATACCCGCTTTGCCCACTGGGGGGCCCTCAGGCTTCAGGCAGAACCCACTTCCCCACTCATCCCTCTTTACATTCTTCCACCCCCTCTCACAG
Seq C2 exon
GGACCTGAAGTTGGACAATTTGCTTCTGGACACTGAGGGCTATGTCAAGATTGCAGACTTTGGCCTCTGCAAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017037:ENSBTAT00000022652:16
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:
PF0006920=Pkinase=FE(8.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(10.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTATTCGGCCTGTGTGGTGC
R:
CCTCCTTGCAGAGGCCAAAG
Band lengths:
138-281
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]