MmuINT0120826 @ mm9
Intron Retention
Gene
ENSMUSG00000004591 | Pkn2
Description
protein kinase N2 [Source:MGI Symbol;Acc:MGI:109211]
Coordinates
chr3:142457067-142457459:-
Coord C1 exon
chr3:142457352-142457459
Coord A exon
chr3:142457148-142457351
Coord C2 exon
chr3:142457067-142457147
Length
204 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
GTTTTATCTTAACTTCCTAGCTG
3' ss Score
6.75
Exon sequences
Seq C1 exon
TCTCCCTTTCCTGGTGATGATGAAGAAGAGGTTTTTGACAGTATTGTAAATGACGAAGTAAGGTATCCAAGGTTCTTATCTACAGAAGCCATTTCCATAATGAGAAGG
Seq A exon
GTAAGAAATTAGGATCAAGATTTTTTTTATTTAAACTTAGGTTTTTTGTTGAAAAGAATTTCCCAGTTGAGTTTTTGAAGTTGTTTTTAATTCATAGATATTGCATGCTTTAGACAAATCTAAACAAAACATTCTAAGTCTTTGAAAGTAGTGAGAGTCACTGTTGGTGAAACACATTATGTTGGTTTTATCTTAACTTCCTAG
Seq C2 exon
CTGCTAAGGAGAAATCCTGAGCGGCGCCTGGGAGCTGGTGAGAAGGATGCAGAGGATGTCAAGAAGCACCCGTTTTTCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004591-Pkn2:NM_178654:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.185
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(13.5=100)
A:
NA
C2:
PF0006920=Pkinase=PD(9.6=92.6)
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:
TCTCCCTTTCCTGGTGATGATGA
R:
CGGAAAAACGGGTGCTTCTTG
Band lengths:
188-392
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: