MmuINT0111796 @ mm10
Intron Retention
Gene
ENSMUSG00000052533 | Nup188
Description
nucleoporin 188 [Source:MGI Symbol;Acc:MGI:2446190]
Coordinates
chr2:30342922-30343348:+
Coord C1 exon
chr2:30342922-30343053
Coord A exon
chr2:30343054-30343274
Coord C2 exon
chr2:30343275-30343348
Length
221 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TTTTATATTGCTTCCTATAGCTG
3' ss Score
8.17
Exon sequences
Seq C1 exon
TCCCTGGATCTTGCTGAGTACAACTTCCTCTTTGCCCTAAGTTTTACCACTCCCACCTTTGACTCTGAAGTGGCTCCCTCCTTCGGAACCCTCTTGGCCACAGTGAACGTGGCCCTCAACATGCTTGGAGAG
Seq A exon
GTAAGCTGGTGAGGTGGCCCCCCCACATAACTTCCCACTTGTTTTAGAAATATAGAACATATCCAGCCCCTGGAGCCTAGGCCTCTTCCTACAGGGGCATGCTAGGAGTTCCCACCGAGTACCCTGTGAGGTACCAGGGAAGTTGGGATGCAAGACCTCCAACTAGAAGCTCTAACTGGCCACTCTTACTGCTAACTTGATTTTTATATTGCTTCCTATAG
Seq C2 exon
CTGGACAAGAAAAAGGAATCCCTCACCCAGGCTGTGGGACTCAGCACACAAGCAGAAGGGACCCGAACATTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052533:ENSMUST00000064447:41
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=0.080
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:
TCCCTGGATCTTGCTGAGTACA
R:
TAATGTTCGGGTCCCTTCTGC
Band lengths:
204-425
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