MmuINT0120848 @ mm9
Intron Retention
Gene
ENSMUSG00000026785 | Pkn3
Description
protein kinase N3 [Source:MGI Symbol;Acc:MGI:2388285]
Coordinates
chr2:29945851-29946539:+
Coord C1 exon
chr2:29945851-29945931
Coord A exon
chr2:29945932-29946042
Coord C2 exon
chr2:29946043-29946539
Length
111 bp
Sequences
Splice sites
5' ss Seq
AGGGTAATT
5' ss Score
6.62
3' ss Seq
TATTCCTGTACCTTGTTCAGACC
3' ss Score
6.25
Exon sequences
Seq C1 exon
CTCCTCCAGAAGTCCCCAGAGAAGCGTCTAGGGGCAGGAGAACGGGACGCCGAGGAGATCAAGGTTCAACCATTCTTCAGG
Seq A exon
GTAATTACGAAGCCAGAACCCAGCAGTCCCCATTTCCTGGGGAGGTGGGGAGGCTGGGGGGCCTCTGGGGTCTGCGGTTCCCACATTCTTATATTCCTGTACCTTGTTCAG
Seq C2 exon
ACCACCAACTGGCAGGCCTTGCTGGCCCGCACCGTCCAGCCTCCCTTCGTGCCTACTCTCTGTGGCCCTGCAGACCTTCGTTACTTCGAGGGAGAGTTCACCAGCCTGCCTCCAACCCTGACCCCACCAGTCTCCCAGAGCTCCCTCACTGCTCGCCAACAGGCTGCCTTCCGGGACTTTGACTTCGTGTCTGAGCAGTTCCTGGAGTCCTGAGGGTCTCCTGGCACTTCAGCCAGACTGCAGGAAGCCTCCACGTAACCATGTGCCTGGGCCGAAGTATTTAATGAGTGTGTGGGAGTCCAGGCAGTGGCCGTCCGTGGGGCTGCCGTTGCAGGCTTTTCCTTCGTGTCCCTGCTGTGTCTATAACTCTGTCCTTCTATTTCTCGGTAGACCCCAGACCAGGAAAGAGTCCACGGCAGCATGGGTGGCTTTTCTTTTTAATACTTGACTTTATATAGAGCATTAAATTAATAAAACTGTACACTCGAGGTAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026785-Pkn3:NM_153805:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.071
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=67.6)
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:
AGAGAAGCGTCTAGGGGCAG
R:
GACACGAAGTCAAAGTCCCGG
Band lengths:
255-366
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: