MmuINT0120855 @ mm10
Intron Retention
Gene
ENSMUSG00000026785 | Pkn3
Description
protein kinase N3 [Source:MGI Symbol;Acc:MGI:2388285]
Coordinates
chr2:30083239-30084766:+
Coord C1 exon
chr2:30083239-30083382
Coord A exon
chr2:30083383-30084690
Coord C2 exon
chr2:30084691-30084766
Length
1308 bp
Sequences
Splice sites
5' ss Seq
CAGGTTCCT
5' ss Score
0.18
3' ss Seq
CTTTCTTCATGTCCCTTTAGGTC
3' ss Score
12.38
Exon sequences
Seq C1 exon
GCTCGCGAGCTGGAGATTGGGGTTCACTGGCGGGACTGGCGACAGTTGTGTGGTGTGGCGTTTCTGAAGCTTGAGGACTTCCTGGACAATGCCTGTCACCAGCTTTCTCTCAGTCTGGTGCCTCAGGGGCGGCTCTTTGCCCAG
Seq A exon
GTTCCTACTGACCCCTGACCTCTAACAGGGGATCTTTAGGACTGACATTTTGGGTTGGGGTGATGGCTCAGTGGGTAAAGTGTTTACTGTGGAAGCATGAGGACCTGAGTTCAAATCCCCAGGATCTGTGTAAAAACCATGTGTGGCTTGGTGTGTCTCTAAGTTCATGGCTGGCCGTACAGAGACATGGGTTCTCCAGACTCGCTGGCCAGCCAAGTCTAGCTGAAACAGTGAATTCCAGGTTCAGTGAGAAACCCTGTCTCAAAAATAAGGTGGAAGGGCAGATACCCAGTGTGGTGTCAACCTCTGCCTACATCAGTGAGTACAACTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCATCTGTGTGATAAAAACTGGTAATCCATGTACTATGGGACTTGAGAGATGGAGACAGGTTCACAGACAGGCCTACAGGGAGGCTCACATCTCTACACTGAGCTTGTCCTGCCTCATATGTCATCTTGAATACGTAAATGTGTCTCCTCTGGGCCTCAGTTTCTCCCCTGGCCCCCGTGAGGATACGGTATCGTGTCTAGGTCCTCTGAGTTTTGCTTCATATCAGCTTTGCCTCATTGTTCCGATAAAACACCGGCCAAAGCAACTGAAGGCAGGGAAGGGGTGATTTCAATTTACAGATTTACAGCCAACCCCCTCCCTACTCTTCTCCCACCCCCCCCCACCCCCCACCGCCTTCTTTATTTTTTCTGAGATAGGGTTTCTCTTGCAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCCAATTCACGGAGATCCACCTGCTTCTGCCTCCTCAGAGCTGGGATTAATGGTGTGCTCCACCACCGCCCAGTTTACAGCCTATCTTTACGGGAGCCAAGGCAGAAACTTAATAAGCAGGAACTGAAAGCAGAAACTGGGGAGGAACCGTTTGCTGGCTTGCTCTCTGCCTCTCTCCCAAGCTCATGCTTGGCTAGCTTTCTTATATAGCCCAGTACCACTTGTCTAGGGAATGGTGCCTCTAACAGTGTGCTAGATCCTCCTACATCAATTAACAATCAAGACCCCCCCCCAGACATGCCCACGAGCCATGTAATCTAGGCAGTCCCTCTCGGATGGGTCATATGGAAAGTTAGCACTAACTAGAATACCCCCATGGCTGAGATTGGGAGCTGGCGCTGGGGGTGGGGGAGTGGGGATGGGGGTGGGGACGGGGACGATCCAGCAGGGTGAAAGGCGGCCAGTCTCCAGGTCTTCAGCTTTCTTCATGTCCCTTTAG
Seq C2 exon
GTCACCTTCTGCGAGCCTGTCATTGAAAGGAGGCCTCGGCTGCAGAGGCAGAGATGCATTTTCTCTAAGCGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026785:ENSMUST00000045246:9
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=0.000
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:
GAGCTGGAGATTGGGGTTCAC
R:
CTCTCCGCTTAGAGAAAATGCA
Band lengths:
214-1522
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