MmuINT0120840 @ mm9
Intron Retention
Gene
ENSMUSG00000026785 | Pkn3
Description
protein kinase N3 [Source:MGI Symbol;Acc:MGI:2388285]
Coordinates
chr2:29941957-29942243:+
Coord C1 exon
chr2:29941957-29942020
Coord A exon
chr2:29942021-29942151
Coord C2 exon
chr2:29942152-29942243
Length
131 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
CAACTTTTTCTGGTCCCTAGGTC
3' ss Score
10.3
Exon sequences
Seq C1 exon
GAAACCCCCCAGACTTCAAGACTTCCGATGTTTGGCTGTGCTGGGTCGGGGACACTTTGGGAAG
Seq A exon
GTAGGTAGTTGAGTGGGTGGGCAAGCATTGTCTCAGCACATTAGCTGGAGATGCTGGGATGGAGGGAATGTGTGGGGAGATGAAGGCTCTCTGTCCTTCGTACCTGGAGTCCAACTTTTTCTGGTCCCTAG
Seq C2 exon
GTCCTCCTGGTCCAGTACAAAGGAACAGGGAAATACTACGCTATCAAGGCGTTGAAGAAGCAGGAAGTGCTAGGCCGGGATGAGATTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026785-Pkn3:NM_153805:14
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=PU(5.0=59.1)
A:
NA
C2:
PF0006920=Pkinase=FE(11.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCAGACTTCAAGACTTCCG
R:
TGTCAATCTCATCCCGGCCTA
Band lengths:
149-280
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: