MmuEX0045969 @ mm9
Exon Skipping
Gene
ENSMUSG00000067629 | Syngap1
Description
synaptic Ras GTPase activating protein 1 homolog (rat) [Source:MGI Symbol;Acc:MGI:3039785]
Coordinates
chr17:27103828-27107590:+
Coord C1 exon
chr17:27103828-27103918
Coord A exon
chr17:27104626-27104705
Coord C2 exon
chr17:27107444-27107590
Length
80 bp
Sequences
Splice sites
3' ss Seq
CCCACTCTCTCCCCCTGCAGCTC
3' ss Score
12.54
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
Exon sequences
Seq C1 exon
GCTGATGCTGGTGGAGGAGGAGCTGCGTCGGGACCACCCCGCCATGGCTGAGCCGCTGCCTGAGCCCAAGAAGAGGCTGCTCGACGCTCAG
Seq A exon
CTCCTCATCAGGTAATTCTCCTGGTTCCGCTTTGACCACGGGCGGAGGACACTGGGGGAGGTGACTCCGGACCACTGCAG
Seq C2 exon
GAGAGGCAGCTTCCCCCCTTGGGTCCAACAAACCCGCGTGTGACGCTGGCCCCACCTTGGAACGGCCTGGCCCCCCCAGCCCCACCCCCCCCACCCCGGCTGCAGATCACAGAGAACGGCGAGTTCCGGAACACCGCAGACCACTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067629-'14-20,'14-19,15-20
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
Show structural model
Features
Disorder rate (Iupred):
C1=0.720 A=0.000 C2=1.000
Domain overlap (PFAM):
C1:
PF120043=DUF3498=FE(24.6=100)
A:
PF120043=DUF3498=PD(0.9=20.0)
C2:
PF120043=DUF3498=PD(13.9=34.7)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGAAGAGGCTGCTCGACG
R:
CTAGTGGTCTGCGGTGTTCC
Band lengths:
172-252
Functional annotations
There are 1 annotated functions for this event
PMID: 31911676
[CRISPR screen]. Conserved poison exon with pro-oncogenic impact when depleted: HeLa No Change at 14 days (FC=0.831, FDR=0.036), PC9 No Change at 14 days (FC=0.883, FDR=0.319), Late Xenograft Enriched (FC=1.949, FDR=0.000).
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types