MmuINT0120816 @ mm9
Intron Retention
Gene
ENSMUSG00000004591 | Pkn2
Description
protein kinase N2 [Source:MGI Symbol;Acc:MGI:109211]
Coordinates
chr3:142473325-142473829:-
Coord C1 exon
chr3:142473655-142473829
Coord A exon
chr3:142473452-142473654
Coord C2 exon
chr3:142473325-142473451
Length
203 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
ATTGCTTTGTCTTCTATAAGTGA
3' ss Score
4.13
Exon sequences
Seq C1 exon
GCAAAACATTTCTCAGAGCTCCTCAGATGAATATTAATATTGCCACTTGGGGAAGACTAGTGAGACGAGCTATTCCCACAGTAAATCATTCTGGCACATTCAGCCCTCAGACTCCTGTGCCTGCAACAGTGCCAGTCGTTGACGCACGCATTCCTGATCTAGCACCTCCGGCCAG
Seq A exon
GTACTTGTCTTAGAAGGCTTGAGTGTATCTTCCATAGCCATTGCTAGGATGTCTAACGTGCTGTGTTCAGTCTCAGTCTTTCCAAGTGGAATTGCAGAACTGTTGCTCCTTATTTAAAAGAAGTTAGTTTGCTTTTATTTTGCAGCTACATAAAAATAAAGACTTTGATTGCAGCTTTGGTAAATTGCTTTGTCTTCTATAAG
Seq C2 exon
TGACTCTACAGTAACCAAATTGGACTTTGATCTTGAACCTGAACCTCCTCCAGCCCCACCTCGTGCTTCTTCCCTTGGAGAGACAGATGAATCTTCTGAATTGAGAGTTTTGGATATACCTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004591-Pkn2:NM_178654:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.475 A=NA C2=0.837
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:
TTCTCAGAGCTCCTCAGATGA
R:
TGTCCAGGTATATCCAAAACTCTCA
Band lengths:
292-495
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: