BtaEX0015382 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000006948 | GARNL3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:HGNC Symbol;Acc:HGNC:25425]
Coordinates
chr11:98001678-98057560:+
Coord C1 exon
chr11:98001678-98001820
Coord A exon
chr11:98028447-98028516
Coord C2 exon
chr11:98057486-98057560
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
ATGGACCCTCTGACGAAAGGGCCCTGCGGGAATCAGATGGCACAGACCCTCATGTGGAAAGCCAAGTCCTCTCTGTCCTTTGGCATCCAGCCCCTGCAGACGTGGCCGGCTAAAGACCCTGAAGTAGAGGCCCAGGTCAACCT
Seq A exon
CTCTGTCTCGGAAGACCTAGGCTGTAGACGTGGGGATTTCAGTAGGAAACATTATGGATCTGTGGAGCTG
Seq C2 exon
CTTATTTCCAGTGATGCCGATGGAGCCATCCAAAGGGCCGGAAGGTTTCGAGTGGAAAACGGCTCTTCAGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006948-'3-2,'3-1,7-2
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.271 A=0.000 C2=0.400
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGACCCTCATGTGGAAAGCC
R:
TGAAGAGCCGTTTTCCACTCG
Band lengths:
170-240
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