MmuINT0120803 @ mm9
Intron Retention
Gene
ENSMUSG00000057672 | Pkn1
Description
protein kinase N1 [Source:MGI Symbol;Acc:MGI:108022]
Coordinates
chr8:86194821-86195340:-
Coord C1 exon
chr8:86195198-86195340
Coord A exon
chr8:86194929-86195197
Coord C2 exon
chr8:86194821-86194928
Length
269 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCGCATCCTCTGCCCCCCAGTCT
3' ss Score
6.29
Exon sequences
Seq C1 exon
GGATGGGCTATGGGGACCGGACCAGCACGTTCTGCGGAACTCCGGAGTTCCTGGCGCCGGAAGTGCTCACAGACACATCCTACACGCGAGCAGTGGACTGGTGGGGACTGGGCGTGCTGCTCTATGAGATGTTGGTTGGAGAG
Seq A exon
GTGAGGCCCAGGCTGCCTTTTTTTTTTTCTGTAGAGAACATGCATGTGCCTCAGAGTGAGATGGGAATCTGCTCCTACCACGTGAAGTATGATCTGGAGCCGGCAGCCTTACCTCTCTAATCTTTCTGTAGTTGTAAAGTGGGATACTTACCCCTGTAAGCCAGCAGCGGTGCAAGAGTGCTCCCGGAGGGGTGAGGCCATTTGGTAGTGCTGGGTGTGTGGATTGGCTAAAAGTGGGATTTTACAAACCCGCATCCTCTGCCCCCCAG
Seq C2 exon
TCTCCGTTCCCTGGGGATGATGAGGAGGAGGTATTTGACAGCATTGTCAACGACGAAGTTCGCTATCCCCGCTTCCTGTCTGCAGAGGCCATCGGCATCATGAGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057672-Pkn1:NM_177262:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.005 A=NA C2=0.028
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(18.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(13.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCGGACCAGCACGTTCT
R:
CCTTCTCATGATGCCGATGG
Band lengths:
237-506
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: