MmuINT0120806 @ mm9
Intron Retention
Gene
ENSMUSG00000057672 | Pkn1
Description
protein kinase N1 [Source:MGI Symbol;Acc:MGI:108022]
Coordinates
chr8:86193995-86194718:-
Coord C1 exon
chr8:86194638-86194718
Coord A exon
chr8:86194268-86194637
Coord C2 exon
chr8:86193995-86194267
Length
370 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
CTCTGTCCCCCTCTCCACAGTCT
3' ss Score
11.37
Exon sequences
Seq C1 exon
CTACTGCGGAGGAACCCGGAGCGGAGGCTGGGGTCCACTGAGCGCGATGCAGAAGATGTGAAAAAACAGCCTTTCTTCCGG
Seq A exon
GTGAGCGGACCCCTCCCCATCCTCTCAGTCACCCCAAGGACCTGAGTATTCTTCTCAGTTCCAGTTCATTCCCACCCCAAATCTAGTAGCTGTATCTTAAAGAGCTTTGTAGCCCCACACCTCACAGCCACCATGATTCTTCACAAATGTTACCTCCGTTTGTCTGCAACCTTCATTTCCCTTAATTGTCATCCCCACTGCTTCTCCAGGCCCAAATCATCATCACAGGGCTTACCCTGGACTACCTCAGGCTCCCTAGATTTATCTGAGTTCCCAGTCCCTCCCCATCTTATCTGCTTCCTGCTGATCTCTAGACTTCCCTTCAGACCCTCAAAGTCCATCATGACTCACTCTGTCCCCCTCTCCACAG
Seq C2 exon
TCTCTGGGCTGGGATGTCCTGCTGGCCCGCCGCTTGCCTCCACCCTTCGTGCCTACACTTTCAGGGCGCACAGATGTCAGCAACTTCGATGAGGAGTTCACTGGGGAGGCCCCCACACTGAGTCCTCCCCGGGATGCACGGCCCCTCACAGCTGCGGAGCAGGCAGCCTTCCGGGATTTCGACTTTGTGGCCGGAGGCTACTAGCCCCAAGCCCCTGCCTTACCCAAGAGTTCTTGATTTTTTAAAAAACAAGCCTTTGGGGTTTACTCCATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057672-Pkn1:NM_177262:21
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.328
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=69.1)
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:
TACTGCGGAGGAACCCGG
R:
GGAGTAAACCCCAAAGGCTTGT
Band lengths:
350-720
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: