MmuINT0120830 @ mm10
Intron Retention
Gene
ENSMUSG00000004591 | Pkn2
Description
protein kinase N2 [Source:MGI Symbol;Acc:MGI:109211]
Coordinates
chr3:142828881-142829329:-
Coord C1 exon
chr3:142829184-142829329
Coord A exon
chr3:142829095-142829183
Coord C2 exon
chr3:142828881-142829094
Length
89 bp
Sequences
Splice sites
5' ss Seq
GAAGTAATT
5' ss Score
3.7
3' ss Seq
ATATCTCTTTTCCTAACAAGGCA
3' ss Score
5.48
Exon sequences
Seq C1 exon
CAAAACCTGTGATAAGCCCTCTTGAGCTTCGGATGGAAGAATTAAGACATCATTTTAAGATAGAATTTGCAGTAGCCGAAGGTGCAAAGAATGTCATGAAGTTACTTGGCTCAGGAAAAGTAACAGACAGAAAAGCGCTTTCAGAA
Seq A exon
GTAATTTTAAAAACAATTTTTAGCCGTTTATTATGTTATTTGAAGAATATCCTGGCTTAAATGACAACAATATCTCTTTTCCTAACAAG
Seq C2 exon
GCACAAGCGAGATTTAATGAATCAAGTCAGAAGTTGGACCTTTTAAAGTATTCACTAGAGCAAAGGTTAAATGAGCTCCCCAGGAATCACCCCAAAAGCAGTGTCGTCATTGAGGAGCTTTCACTGGTTGCGTCACCAACCCTGAGTCCACGGCAGAGCATGCTGTCCACGCAGAACCAGTATAGCACACTGTCCAAGCCAGCGGCGCTAACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004591:ENSMUST00000043812:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.208
Domain overlap (PFAM):
C1:
PF0218511=HR1=PU(53.4=79.6)
A:
NA
C2:
PF0218511=HR1=PD(43.8=44.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTAACAGACAGAAAAGCGCT
R:
TTGGTGACGCAACCAGTGAAA
Band lengths:
167-256
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