GgaEX6015689 @ galGal3
Exon Skipping
Gene
ENSGALG00000000847 | GARNL3
Description
NA
Coordinates
chr17:11137384-11146812:+
Coord C1 exon
chr17:11137384-11137552
Coord A exon
chr17:11145213-11145282
Coord C2 exon
chr17:11146738-11146812
Length
70 bp
Sequences
Splice sites
3' ss Seq
ATGAAGCGTTTCTGTTCCAGCTC
3' ss Score
7.12
5' ss Seq
CTTGTAAGT
5' ss Score
8
Exon sequences
Seq C1 exon
GCCTGTGCGTCGGGCAGCGGGATGTGTGAGGGGAGGTCTTGTCGTCCCTCTCGAGCGAGACGGACCGCTGGGAGCGACGCTTGGAGCGGTGAGGTCCCGGCCTCGCCGCCCGCATGGAGCTGAGCAGCGCAGAGGCGGTCTCCACCCGGTTCCTCGGCCTTACTCAGCG
Seq A exon
CTCAGTCTCTGAAGATCTTGGTTGCAGACGTGGAGAGTTTAGCAGGAAGCACTATGGATCTGTGGAGCTT
Seq C2 exon
CTTATATCTAGTGATGCTGATGGAGCTATTCAAAGAGCTGGACGATTCCGAGTGGAAAATGGCTCTTCTGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000847-'2-5,'2-2,5-5=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.280
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:
TCTTGTCGTCCCTCTCGAGC
R:
CGGAATCGTCCAGCTCTTTGA
Band lengths:
183-253
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]