DreEX0034303 @ danRer10
Exon Skipping
Gene
ENSDARG00000060631 | garnl3
Description
GTPase activating Rap/RanGAP domain-like 3 (garnl3), mRNA [Source:RefSeq mRNA;Acc:NM_001128527]
Coordinates
chr5:32805429-32832412:-
Coord C1 exon
chr5:32832312-32832412
Coord A exon
chr5:32825856-32825925
Coord C2 exon
chr5:32805429-32805503
Length
70 bp
Sequences
Splice sites
3' ss Seq
TCATCTGCTCTGTTTTTCAGCTC
3' ss Score
10.55
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
Exon sequences
Seq C1 exon
CGAGAGACAGAAGAACTTGCACTGCGGGAGAGAATAACATCGCATGGGGCCATGAGCGGTGCAGACCCTGCAGCGAACAAACTGTTGAGTTTCAACCAGCG
Seq A exon
CTCAGCGTCAGAGGATCTCGGATGCAGGAGAGGAGAATTCAGCCGGAAACACTATGGATCAGTTGAACTG
Seq C2 exon
CTCATCTCCAGTGATGCAGATGGGGCCATACAGAGAGCTGGCAGATTCAGAGTGGAGAATGGTTCAATCGATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060631-'2-2,'2-0,3-2
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAGAAGAACTTGCACTGCG
R:
TCGATTGAACCATTCTCCACTCTG
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]