MmuINT0111789 @ mm9
Intron Retention
Gene
ENSMUSG00000052533 | Nup188
Description
nucleoporin 188 [Source:MGI Symbol;Acc:MGI:2446190]
Coordinates
chr2:30195019-30195428:+
Coord C1 exon
chr2:30195019-30195219
Coord A exon
chr2:30195220-30195335
Coord C2 exon
chr2:30195336-30195428
Length
116 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGA
5' ss Score
7.61
3' ss Seq
ATTATGGGTTTTTCCTCTAGGGA
3' ss Score
9.41
Exon sequences
Seq C1 exon
GTGTGTGTCCTGGGACTGCATCTGGCTAAGGAGCTCTGTGAGGTGGATGAGGATGGGGACTCATGGTTGCAGGTGACCCGAAGGCTCCCCATTCTGCCCACGCTGCTCACCACGCTGGAGGTGAGCCTCCGCATGAAGCAGAACCTGCATTTTACTGAGGCTGCGCTGCACCTGCTCCTCACCCTGGCTCGAACCCAGCAA
Seq A exon
GTAAGACGCCCTGCTTGTGCCGAATGGTTCCCTTGTAAACCAGAGTTTGACTCGGATCTCTTCCTGCCCTGGGCAAATCTTTGTGGGCTCCATCTAATTATGGGTTTTTCCTCTAG
Seq C2 exon
GGAGCCACAGCAGTGGCTGGAGCTGGCATCACCCAGAGCATCTGTTTGCCCCTCTTGAGTGTATACCAGCTTAGCAGCAATGGCACAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052533-Nup188:NM_198304:35
Average complexity
IR-S
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:
GTGGATGAGGATGGGGACTCA
R:
TCCTGTGCCATTGCTGCTAAG
Band lengths:
249-365
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: