BtaINT0112577 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017037 | PKN1
Description
Bos taurus protein kinase N1 (PKN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080246]
Coordinates
chr7:12412414-12412755:-
Coord C1 exon
chr7:12412646-12412755
Coord A exon
chr7:12412558-12412645
Coord C2 exon
chr7:12412414-12412557
Length
88 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
CAGCCCTCTTCTTCCCTGAGGCA
3' ss Score
-2.25
Exon sequences
Seq C1 exon
ATGAGGTGAGCACTGTTCTCAAGCTGGATAACACAGTGGTGGGACAGACATCCTGGAAGCCGTGTGGCCCCAACGCCTGGGACCAGAGCTTTACCCTGGAACTGGAGAGG
Seq A exon
GTGAGTTAGGTGGGCGAGTGAGAGGGCTGGGAGGAGGAGGGGCCTGGGGCCTCAGGCACCCCAAGTGACAGCCCTCTTCTTCCCTGAG
Seq C2 exon
GCACGGGAATTGGAGTTGGCTGTGTTCTGGCGGGACCAGCGGGGCCTGTGTGCCCTCAAATTCCTGAAGTTGGAGGATTTCTTGGACAACGAGAGGCATGAGGTGCAGCTGGACATGGAACCTCAGGGCTGCCTGGTGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017037:ENSBTAT00000022652:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.010
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTGGTGGGACAGACATCCT
R:
CACCTCATGCCTCTCGTTGTC
Band lengths:
182-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]