MmuINT0120801 @ mm10
Intron Retention
Gene
ENSMUSG00000057672 | Pkn1
Description
protein kinase N1 [Source:MGI Symbol;Acc:MGI:108022]
Coordinates
chr8:83671717-83671969:-
Coord C1 exon
chr8:83671907-83671969
Coord A exon
chr8:83671794-83671906
Coord C2 exon
chr8:83671717-83671793
Length
113 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
CTGACACCCCCATTCCCCAGGGA
3' ss Score
8.15
Exon sequences
Seq C1 exon
CTTCTATTCGGCCTGTGTGGTGCTGGGACTGCAGTTCCTCCATGAACACAAGATTGTCTACAG
Seq A exon
GTGTGTACGTGAGAATGTTCTGCCCACAGACTGGACATGGTCAAGCTCTGCACAGAGCCCCGATCCCTACCCAGTCACCCCTCTTTACATCCCCTGACACCCCCATTCCCCAG
Seq C2 exon
GGACCTGAAGTTGGACAATTTGCTCCTGGATACTGAGGGCTACGTCAAGATCGCAGACTTTGGCCTCTGCAAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057672:ENSMUST00000005616:17
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(16.7=100)
A:
NA
C2:
PF0006920=Pkinase=FE(10.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTATTCGGCCTGTGTGGTG
R:
CTCCTTGCAGAGGCCAAAGTC
Band lengths:
138-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types