MmuINT0120823 @ mm9
Intron Retention
Gene
ENSMUSG00000004591 | Pkn2
Description
protein kinase N2 [Source:MGI Symbol;Acc:MGI:109211]
Coordinates
chr3:142461867-142462845:-
Coord C1 exon
chr3:142462769-142462845
Coord A exon
chr3:142462010-142462768
Coord C2 exon
chr3:142461867-142462009
Length
759 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
CTTGAATTTATCTTCTTTAGGAA
3' ss Score
7.9
Exon sequences
Seq C1 exon
AGATTTGAAGTTGGATAACTTGTTGCTAGATACAGAAGGCTTTGTGAAAATTGCTGACTTTGGTCTTTGCAAAGAAG
Seq A exon
GTAATTGGGCTTTGTAAATTCCTTTTCTAATAGATTATTGTTCATTTGTTCTTTGGTCATTTTCAAATTTATATGTGCAAACAATGTACTTTTTAATTTTAATTTATTCCACTGTAACATTTGGATTGCTTATATATACCAGTAACCACATTAAGACTTTGTCTTGTGGGTATAAATACTTCCTGCCTCCAGAATCTACAGTATGAGCTTCAGCTTCTCTTTGTGTGGCTGACAGTCTGCCTGGGCTGTAAGAAGCCACTAAGCACGAGCTTGTTGATGCGATGTGCAGGATGAAGCACACGTGCCCAGTGACTCACAGGCTTAGAACTGTTAACATTTTAAATTGGAAAAAATAGATGTAACTATCTCAAGATTATTTTCTATATATTCAGAATTAAATATGACAGTTCAAATCAAAGATCACAGGAGAATGTATAAAGATCAATGTTATCAATATGATAGTTTTCTCTTTATACTTAATGTTAATTAAGTATATGCTTCCTCCTCTGTACACTAGTAGCTTTATTTTATTGCTGTTATTAACTCTGTTTCCTTAGTACATAAACTCAGTTCTTAGATATGTTAGTACTAGTGGATGTTTAGTGAATCAGTAGTTTGATGGGTGAAACAGATTGGCTAAGTCTTGATATGCTCAAGTTAGACCATCAATTCAGCAATGTCAATGTTTTTCCTAAGCACACCTTCTAATTTTCATGCCTAGTTGTTTTCTTTGCTAACACTTGAATTTATCTTCTTTAG
Seq C2 exon
GAATGGGGTATGGAGATAGGACAAGCACATTTTGTGGTACTCCTGAGTTTCTTGCCCCAGAAGTCCTAACAGAAACATCGTACACAAGGGCTGTAGATTGGTGGGGCCTTGGTGTACTTATATATGAGATGCTCGTCGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004591-Pkn2:NM_178654:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(10.0=100)
A:
NA
C2:
PF0006920=Pkinase=FE(18.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGATAACTTGTTGCTAGATACAGA
R:
TCGCCGACGAGCATCTCATAT
Band lengths:
208-967
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: