MmuINT0120849 @ mm9
Intron Retention
Gene
ENSMUSG00000026785 | Pkn3
Description
protein kinase N3 [Source:MGI Symbol;Acc:MGI:2388285]
Coordinates
chr2:29935446-29936206:+
Coord C1 exon
chr2:29935446-29935591
Coord A exon
chr2:29935592-29936094
Coord C2 exon
chr2:29936095-29936206
Length
503 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GGCGAGTGTCACCTCCCCAGGAG
3' ss Score
4.36
Exon sequences
Seq C1 exon
AGCCAGTGACCTCGGAACCCCAGCCGCGGGCGGAGCAGTCCAGGGCTCGGCTCTCGGAGGCTTTACATAGGCAGCTGCAGGTAGAGCTAAAGGTAAAGCAGGGGGCTGAGAATATGATTCACACGTGTGCCAGCGGCACCCCCAAG
Seq A exon
GTAAGGGCTGGCGTCTGATGAAGAGGGGTAGGCCTGGCTTCTCATCTACCTGATGGGAGAGACGTAGCTCTCAGGTATAAGGATCACAAAGCCAGCCAGACCCTGTGCCAACAGGGAAATGCTACCCTGGCCCAGCTCCTCACCTAATGCTAGAAGTACAGGTAGGTGGGTGAGGCAAGTCTCTGACCCACACTGTCAGCAAAGCCCAACAACAGAAGGCTAGCGGAAGATCCAGCCGGCTGCCCGTCCAGCTCTTGGCAACCTACCCTCTCTTCTCCATCTGACAGAATCCTTACTACTTAGCTTGTCAAACTGATGAGTGTCAGGTTCCGCTCACCCCGCCAGCCTCCACCCCCCATTACCTAGTTCAACAAGGGAGGCTTGCCTGTAGTATCTTCCTTGTAGGAGCTTGAACCTTGGTATAACAGGGGAGGCTCAGCCCCACCCAGGCCCTGGTGGTCTGCCGTAAGCCCCTTCTGATGGGGCGAGTGTCACCTCCCCAG
Seq C2 exon
GAGAGGAAGCTCCTGGCGGCTGCCCAGCAGATGTTAAAGGACAGTCAACTGAAGGTGGCCCTGCTCCGGATGAAGATAAGCAGCCTGGAGTCCAGTGGCTCTCCAGAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026785-Pkn3:NM_153805:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.732 A=NA C2=0.487
Domain overlap (PFAM):
C1:
PF0218511=HR1=PD(0.1=0.0),PF0218511=HR1=PU(43.8=65.3)
A:
NA
C2:
PF0218511=HR1=FE(50.7=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:
AGCCAGTGACCTCGGAACC
R:
CTCTGGAGAGCCACTGGACTC
Band lengths:
254-757
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: