BtaINT0112568 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017037 | PKN1
Description
Bos taurus protein kinase N1 (PKN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080246]
Coordinates
chr7:12403718-12404130:-
Coord C1 exon
chr7:12404054-12404130
Coord A exon
chr7:12403861-12404053
Coord C2 exon
chr7:12403718-12403860
Length
193 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
TGGCCTTGCCACCCCCCCAGGGA
3' ss Score
7.83
Exon sequences
Seq C1 exon
GGACCTGAAGTTGGACAATTTGCTTCTGGACACTGAGGGCTATGTCAAGATTGCAGACTTTGGCCTCTGCAAGGAGG
Seq A exon
GTGAGGGGCGGGGTTTGGATCTGCGGGGCTGACTTCTGGGGTTCAGACAGAGTGGGGAGGTAATGGAGCCCCCCAGCCCCACCTGGCTTACCTTACTGGGTTCCTAGGGCTGGCTGTCTAGACCACCCCATGCTGGGCTGGGCTAGAGCTGTGACCTCCCCCATAACCTCATGTGGCCTTGCCACCCCCCCAG
Seq C2 exon
GGATGGGCTATGGAGACCGGACCAGCACTTTCTGTGGGACCCCAGAGTTCCTGGCACCTGAGGTGCTGACGGACACGTCGTACACTCGTGCGGTGGACTGGTGGGGACTGGGCGTGTTGCTCTATGAAATGCTGGTTGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017037:ENSBTAT00000022652:17
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(10.0=100)
A:
NA
C2:
PF0006920=Pkinase=FE(18.1=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:
GGACCTGAAGTTGGACAATTTGC
R:
CACCAACCAGCATTTCATAGAGC
Band lengths:
218-411
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]