BtaINT0112572 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017037 | PKN1
Description
Bos taurus protein kinase N1 (PKN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080246]
Coordinates
chr7:12402304-12403033:-
Coord C1 exon
chr7:12402953-12403033
Coord A exon
chr7:12402576-12402952
Coord C2 exon
chr7:12402304-12402575
Length
377 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAAG
5' ss Score
1.19
3' ss Seq
TCCCCCTCCTCGCCCCGCAGACC
3' ss Score
12.74
Exon sequences
Seq C1 exon
CTCCTGCGGAGGAATCCAGAGCGGAGGTTGGGATCCAGCGAGAGGGATGCTGAGGATGTGAAAAAACAGCCTTTCTTCAGG
Seq A exon
GTGAAGTCTCCCACCCCCAGGACCCATTCCCCCATGCCCAAGACCTAGTGGCTTCACTTCCAGCCTTGTTACCTCCCCTCAACACCCACCTGCCTTTGCTTCCTCCCATTTACCTCCACTGACCTTCCTACACCCACCCAAGTTAACTGCAGGCTGGCCTGTTGGGAGCACTGCTGTGTAGGAGCCCAGCTGCCGGCCCTCCCCATTCACTCATGCTGTAACCCTTCCTGAGCTCCCAGCATGCCCCCACGCTCCCACCTCTGTCGTGTGACTCTATGTTGATTCTCAAAGACCCAGACTTAGGTCGCAAGGAGCAGACCCTCCTGTGGTCTGCCCCGAGCCTCCCCTGGTGACCTTTCCCCCTCCTCGCCCCGCAG
Seq C2 exon
ACCCTGGGCTGGGATGCCCTGCTGGCCCGGCGCCTGCCGCCGCCTTTCGTACCCACGCTGGCCGGCCGCACTGATGTCAGCAACTTTGACGAGGAATTCACAGGGGAGGCCCCCACGCTGAGCCCACCCCGCGACGCACGGCCCCTCACAGCCACCGAACAGGCGGCCTTCCGGGACTTCGACTTTGTGGCTGGGAGCTGCTAGCCCCCTCCCCCACCCCTGCCCGCACCGAGCTGTTAGTAGTTTTTAAAAAGGCCTTTGGGGTTTGCCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017037:ENSBTAT00000022652:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.296 A=NA C2=0.328
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=70.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGCGGAGGAATCCAGAG
R:
GCAAACCCCAAAGGCCTTTTT
Band lengths:
349-726
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]