MmuINT0120838 @ mm10
Intron Retention
Gene
ENSMUSG00000026785 | Pkn3
Description
protein kinase N3 [Source:MGI Symbol;Acc:MGI:2388285]
Coordinates
chr2:30085183-30085427:+
Coord C1 exon
chr2:30085183-30085279
Coord A exon
chr2:30085280-30085359
Coord C2 exon
chr2:30085360-30085427
Length
80 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGG
5' ss Score
4.84
3' ss Seq
GAAGCCATCTGTCCCCACAGTGT
3' ss Score
7.09
Exon sequences
Seq C1 exon
TAACTTCCTGCCCATGAAGACGCTCTCAAAAGAAGACACGAAGCCTCCTCCCAAGCCCCCGCGCCTCTATCTCCAAGAACCAGCCCCAGGGACTCCT
Seq A exon
GTAAGGGATTCTGGAGGTCAGGGCTGCCAGGAGGGAAAGAGGGTCAGTAACTGCTGTCCTGAAGCCATCTGTCCCCACAG
Seq C2 exon
TGTACCAAGCGCCCCCACATGGACCCTAGACCTGCAGTAGTGCCCGCCCTGGCAGCCTTATCCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026785:ENSMUST00000045246:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.939 A=NA C2=0.783
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
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTTCCTGCCCATGAAGACG
R:
CTTGTGGATAAGGCTGCCAGG
Band lengths:
164-244
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