BtaINT0112579 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017037 | PKN1
Description
Bos taurus protein kinase N1 (PKN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080246]
Coordinates
chr7:12408249-12408556:-
Coord C1 exon
chr7:12408481-12408556
Coord A exon
chr7:12408391-12408480
Coord C2 exon
chr7:12408249-12408390
Length
90 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CCTCCCTCGCCCCTCCCCAGGGA
3' ss Score
9.72
Exon sequences
Seq C1 exon
GTCACCTTCCGCAACCCTGTCATTGAGAGGATCCCCCGGCTCCGACGACAGAAGAAGATCTTCTCCAAGCAGCAAG
Seq A exon
GTGAGGAGGTGAACCGGGGCAGGGCAGAGACCAGGGGTGCCGCGCGTGTCATGGAGGCTAATGTCCACCCCCTCCCTCGCCCCTCCCCAG
Seq C2 exon
GGAAGGCATTTCAGCGCGCTAGGCAGATGAACATCGACGTCGCCACCTGGGTACGGCTGCTCCGCAGGCTCATCCCCAACGCCACAGCCACTGGTACCTTCAGCCCAGGGGCTTCACCAGGACCTGAGGCTCGGTCCACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017037:ENSBTAT00000022652:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.396
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
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCGCAACCCTGTCATTGAG
R:
CTGAAGGTACCAGTGGCTGTG
Band lengths:
173-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]