MmuINT0120837 @ mm9
Intron Retention
Gene
ENSMUSG00000026785 | Pkn3
Description
protein kinase N3 [Source:MGI Symbol;Acc:MGI:2388285]
Coordinates
chr2:29940370-29940799:+
Coord C1 exon
chr2:29940370-29940532
Coord A exon
chr2:29940533-29940702
Coord C2 exon
chr2:29940703-29940799
Length
170 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
GAGACATCTCCTTCTTACAGTAA
3' ss Score
6.01
Exon sequences
Seq C1 exon
GCCGGGATTTCATGAGAGCTTCCCAGATGAACCTCAGCATGGCAGCCTGGGGGCGTCTGGTCATGAGCTTGCTGCCCCCCTGCAGCTCACCAAACACAGCCAGTCCCCCTAAAGGGCGCCCTTCAACAGCGGTCTGTGGGACCCCCAGTGCTGCTTCCCCGAG
Seq A exon
GTGAGCCGCCTGGTGCAGACTCTGAGACACTTTTCAGGCTCTGTCTCTTCAGGTTCTGAGTGCTGTCTTTTGCCTCCTCAACCTCTGAGCCCTCTGTCCTTTCACATGGCCGCGCCCCTCACCCCCCCCCCCCCCTAATGTGTCTGGGCTGAGACATCTCCTTCTTACAG
Seq C2 exon
TAACTTCCTGCCCATGAAGACGCTCTCAAAAGAAGACACGAAGCCTCCTCCCAAGCCCCCGCGCCTCTATCTCCAAGAACCAGCCCCAGGGACTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026785-Pkn3:NM_153805:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.382 A=NA C2=0.939
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCGGGATTTCATGAGAGCTT
R:
GTTCTTGGAGATAGAGGCGCG
Band lengths:
243-413
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: