MmuINT0120794 @ mm9
Intron Retention
Gene
ENSMUSG00000057672 | Pkn1
Description
protein kinase N1 [Source:MGI Symbol;Acc:MGI:108022]
Coordinates
chr8:86201605-86201905:-
Coord C1 exon
chr8:86201830-86201905
Coord A exon
chr8:86201747-86201829
Coord C2 exon
chr8:86201605-86201746
Length
83 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CCCTACCCTTGCAACTTCAGGGA
3' ss Score
6.97
Exon sequences
Seq C1 exon
GTCACTTTCCGAAACCCCATCATCGAGCGGATCCCTAGGCTCCAAAGGCAGAAAAAAATCTTCTCCAAGCAGCAAG
Seq A exon
GTAAGGAGGGTCTGAGCGATCTGGGTTGTACAGCCAAGGACCCCAGGATGTCATGGGTGGTGACCCTACCCTTGCAACTTCAG
Seq C2 exon
GGAAGGCATTTCAGCGAGCCAGACAGATGAACATAGATGTGGCGACTTGGGTGCGGCTGCTCCGTAGACTCATCCCTAGTGCTGTGGCCACTGGCACCTTCAGTCCCAATGCATCTCCAGGTGCTGAGATCCGGCACACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057672-Pkn1:NM_177262:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.335
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ATCATCGAGCGGATCCCTAGG
R:
CACCTGGAGATGCATTGGGAC
Band lengths:
181-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: