MmuEX0020088 @ mm9
Exon Skipping
Gene
ENSMUSG00000038860 | Garnl3
Description
GTPase activating RANGAP domain-like 3 [Source:MGI Symbol;Acc:MGI:2139309]
Coordinates
chr2:32919524-32960543:-
Coord C1 exon
chr2:32960373-32960543
Coord A exon
chr2:32941395-32941464
Coord C2 exon
chr2:32919524-32919598
Length
70 bp
Sequences
Splice sites
3' ss Seq
ATGAAGCATTTTTGTTCCAGCTC
3' ss Score
4.98
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
Exon sequences
Seq C1 exon
CACAGCACCTCAGCCTCCAGGCCCACTGATGGATCCACTGACCAAGGGGTCCTGTGGGAGTCAGCTGGCACAAACCCTCCTCTGGAAAGCGAAGTCATCTCTCTCTTTCGGCATCCAGCCCCTTCAGACTTGGCCAACAAAAGATCCTGAACTAGAGTCCCAGGTCAACCT
Seq A exon
CTCTGTCTCAGAAGACCTAGGCTGTAGACGTGGGGATTTCAGTAGGAAGCATTATGGATCTGTGGAGCTG
Seq C2 exon
CTCATCTCTAGTGATGCCGATGGAGCCATCCAAAGGGCAGGAAGATTCCGAGTGGAGAATGGCTCTACAGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038860_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.232 A=0.019 C2=0.326
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAACCCTCCTCTGGAAAGCG
R:
AGAGCCATTCTCCACTCGGAA
Band lengths:
167-237
Functional annotations
There are 1 annotated functions for this event
PMID: 31911676
[CRISPR screen]. Conserved poison exon with negative fitness/survivability impact when depleted: HeLa Depleted at 14 days (FC=0.774, FDR=0.001), PC9 No Change at 14 days (FC=1.238, FDR=0.436), Late Xenograft No change (FC=0.852, FDR=0.023).
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
Other AS DBs: