MmuINT0120836 @ mm10
Intron Retention
Gene
ENSMUSG00000026785 | Pkn3
Description
protein kinase N3 [Source:MGI Symbol;Acc:MGI:2388285]
Coordinates
chr2:30084691-30085012:+
Coord C1 exon
chr2:30084691-30084766
Coord A exon
chr2:30084767-30084849
Coord C2 exon
chr2:30084850-30085012
Length
83 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGG
5' ss Score
4.48
3' ss Seq
GCCCCGCCTGCCTCCTCTAGGCC
3' ss Score
10.22
Exon sequences
Seq C1 exon
GTCACCTTCTGCGAGCCTGTCATTGAAAGGAGGCCTCGGCTGCAGAGGCAGAGATGCATTTTCTCTAAGCGGAGAG
Seq A exon
GTGTGGAGCATACGGACTGTGTGAGGAGAGGGCTGGGCTGACCAATGGGGATGCTGGGACTGAGCCCCGCCTGCCTCCTCTAG
Seq C2 exon
GCCGGGATTTCATGAGAGCTTCCCAGATGAACCTCAGCATGGCAGCCTGGGGGCGTCTGGTCATGAGCTTGCTGCCCCCCTGCAGCTCACCAAACACAGCCAGTCCCCCTAAAGGGCGCCCTTCAACAGCGGTCTGTGGGACCCCCAGTGCTGCTTCCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026785:ENSMUST00000045246:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.382
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTCATTGAAAGGAGGCCTCGG
R:
TTAGGGGGACTGGCTGTGTTT
Band lengths:
170-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types