MmuINT0111797 @ mm9
Intron Retention
Gene
ENSMUSG00000052533 | Nup188
Description
nucleoporin 188 [Source:MGI Symbol;Acc:MGI:2446190]
Coordinates
chr2:30198795-30199110:+
Coord C1 exon
chr2:30198795-30198868
Coord A exon
chr2:30198869-30198980
Coord C2 exon
chr2:30198981-30199110
Length
112 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGG
5' ss Score
6.6
3' ss Seq
GCCCATACCTGCCTCTCCAGGTC
3' ss Score
8.68
Exon sequences
Seq C1 exon
CTGGACAAGAAAAAGGAATCCCTCACCCAGGCTGTGGGACTCAGCACACAAGCAGAAGGGACCCGAACATTAAA
Seq A exon
GTAAGGCCTGAGGCTTGCCGCCTGGAGCAGCTATGGGCTGCTGTTCTCCCATCTGCGGCTCAGCTGTGTCTGTCAAATACTTTTGCGATATTGCCCATACCTGCCTCTCCAG
Seq C2 exon
GTCCCTCCTGATGTTCACCATGGAGAACTGCTTCTACCTGCTCATCTCCCAAGCAGTACGCTACCTCAGGGACCCGGCTGTGCACCCCCGGGACAAGCAGCGGATGAAGCAGGAGCTGAGCTCGGAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052533-Nup188:NM_198304:42
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.250
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:
ACAAGAAAAAGGAATCCCTCACCC
R:
GCTCCTGCTTCATCCGCTG
Band lengths:
186-298
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: