MmuINT0120835 @ mm10
Intron Retention
Gene
ENSMUSG00000026785 | Pkn3
Description
protein kinase N3 [Source:MGI Symbol;Acc:MGI:2388285]
Coordinates
chr2:30078584-30079762:+
Coord C1 exon
chr2:30078584-30078790
Coord A exon
chr2:30078791-30079533
Coord C2 exon
chr2:30079534-30079762
Length
743 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GACTTCTCTGCCCTTTGCAGCCT
3' ss Score
9.34
Exon sequences
Seq C1 exon
GGTGGCCAGCAGGCCCCCAGCTCTGTAAGAGCTTTGTTTGCTCAGGCCTTTGGCTCTGGCCCTCCTGCTTGGGGCAGCCAAAGGATTTCCTGAGCCTCGCCCTTGCCCTCTGACAGTTAAGGCAGGACGATCAACCTAGCTGAGGCCTGGGGCCCCTAAACAGAGTAGCCATTCTTTCATGGGGCTTAGGAGATGGAACACCGAAAG
Seq A exon
GTAAGGATAAAATAGTGTGGCTTCCAGGATCCTGGGGATAGGAAGGGGGTCAGCAGGAGTTGCTCTGGAATAAGGTCAGCCTCCGAGAAGTTTTCTCTCCCTGCCTTTGATGGTGCCTCTAATCTGGTGAACAGCTGTAGCTCCTGCTTGCCACTTCTGCCACAGCACCTGTCTGCCACACTATGTAAGGCAAAAGAAATAAGTTGTGGTGTTTTGGGCCACTGGCTGTCTCCTGCAGGGGACCTAGAGTGAATTCTTTGCCTACATTACCTCCCAGGTTCCGGTTGCTTCTCAGACCTAGGGAGAGCAGTGTGGCAGGCTGGGAGAAAATGGGATCACACTGTCCCTCGATCCACAGTGGCCACTCCTCTGTGTTGCCTGTGTGAGCAAGCCACCTAACTCTTCTTTCTTTGTTGCTCCTGTATAAAATAGGAATGAGAGCTAAGCATGTGGGTCTGTGTCAGAGCTCTTGTTTAGCACGCTCCAGGCTGTGGCTTCTTTCCCCAGGACCACAAAAGAGCGACTACTACCAAGGAGAAGGGAATTTAGTGTGTTGTTAGAGTGTAAACCTCAGTACCCAGAAGGCACTGGGCGAACCTGGTCTGTTTTCTCTCTCCCTTCTTTGAAAGGGAGACAGGAGCTAGACACTGCAGGGTTCTGAGACACTCTGGGGCTCTGCCTTTTGTATCTGTTCCCTCTTTGCTGTGGAGCAGGGTAGGCTAAGACTTCTCTGCCCTTTGCAG
Seq C2 exon
CCTGGGACTGGCCAGAGAGCCCCCAAGGATGAGAAAGAGATGGTCCGCCGAGCCATCCAGAAGGAGCTGAAGATCAAGGAGGGCATGGAGAACATGCGGCGCGTGGCCACAGACCGACGCCACCTGGGTCATGTGCAGCAACTGCTTAGGGCCTCCAACCGCCGCCTGGAGCAGCTGCATGGCGAGCTTCGGGAGCTGCATGCCCAAGTTCTGCTGCCAGCCTCAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026785:ENSMUST00000045246:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.939
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0218511=HR1=WD(100=88.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGGGCAGCCAAAGGATTTC
R:
AGAACTTGGGCATGCAGCTC
Band lengths:
351-1094
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