MmuINT0120830 @ mm9
Intron Retention
Gene
ENSMUSG00000004591 | Pkn2
Description
protein kinase N2 [Source:MGI Symbol;Acc:MGI:109211]
Coordinates
chr3:142491845-142492293:-
Coord C1 exon
chr3:142492148-142492293
Coord A exon
chr3:142492059-142492147
Coord C2 exon
chr3:142491845-142492058
Length
89 bp
Sequences
Splice sites
5' ss Seq
GAAGTAATT
5' ss Score
3.7
3' ss Seq
ATATCTCTTTTCCTAACAAGGCA
3' ss Score
5.48
Exon sequences
Seq C1 exon
CAAAACCTGTGATAAGCCCTCTTGAGCTTCGGATGGAAGAATTAAGACATCATTTTAAGATAGAATTTGCAGTAGCCGAAGGTGCAAAGAATGTCATGAAGTTACTTGGCTCAGGAAAAGTAACAGACAGAAAAGCGCTTTCAGAA
Seq A exon
GTAATTTTAAAAACAATTTTTAGCCGTTTATTATGTTATTTGAAGAATATCCTGGCTTAAATGACAACAATATCTCTTTTCCTAACAAG
Seq C2 exon
GCACAAGCGAGATTTAATGAATCAAGTCAGAAGTTGGACCTTTTAAAGTATTCACTAGAGCAAAGGTTAAATGAGCTCCCCAGGAATCACCCCAAAAGCAGTGTCGTCATTGAGGAGCTTTCACTGGTTGCGTCACCAACCCTGAGTCCACGGCAGAGCATGCTGTCCACGCAGAACCAGTATAGCACACTGTCCAAGCCAGCGGCGCTAACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004591-Pkn2:NM_178654:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.264
Domain overlap (PFAM):
C1:
PF0218511=HR1=PU(52.1=97.4),PF118963=DUF3416=PU(44.3=92.1)
A:
NA
C2:
PF0218511=HR1=PD(46.5=45.8),PF118963=DUF3416=PD(54.4=59.7),PF051368=Phage_portal_2=PU(19.3=30.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTAACAGACAGAAAAGCGCT
R:
TTGGTGACGCAACCAGTGAAA
Band lengths:
167-256
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: