RnoEX0078282 @ rn6
Exon Skipping
Gene
ENSRNOG00000025278 | Scai
Description
suppressor of cancer cell invasion [Source:RGD Symbol;Acc:1594720]
Coordinates
chr3:23367450-23370682:-
Coord C1 exon
chr3:23370610-23370682
Coord A exon
chr3:23369768-23369985
Coord C2 exon
chr3:23367450-23367623
Length
218 bp
Sequences
Splice sites
3' ss Seq
AACTCCCAGTCATTTCCTAGGTC
3' ss Score
3.9
5' ss Seq
AAGGTAAGT
5' ss Score
11
Exon sequences
Seq C1 exon
AATTTTACAAATTTGTTTGGACAGCCACTCGTCTGCCTTCTTTCTCCCACGGCATATCCAAAAGCTTTGCAAG
Seq A exon
GTCAAATGCTAAGTGAAACTTCACACTGTCTTAGCAGTACTTGAACTGTTTCACTGTCTCCCTGACTGTGAATAGTGCTGATGTCTCTCTGTGGGAGATGGCATTTCACTGCTACTTCCCAGCCTGAAGCTCTGTCTGCTGACATAGTTTGACACAGGAAGTGATGGTCAGCACTTGAATGCCTGAGAGAAGCTGGAGACTTACACCGTTGTTTTAAG
Seq C2 exon
ATCAGTCTCAGCGAGGTAGCCTCTTCACGCTCTTTTTGAACAATCCTCTAATGGCCTTCCTATTTGTGTCTGGATTGTCAAGCATGCGTAGAGGCCTGTGGGAAAAGTGTCAAGAATATCTTCGAAAAATCAACCGTGATATTGCCCAGCTACTGACCCATTCACGTTCAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025278_CASSETTE1
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF120703=DUF3550=FE(4.8=100)
A:
PF120703=DUF3550=PD(2.2=60.0)
C2:
PF120703=DUF3550=FE(11.7=100)
Main Inclusion Isoform:
ENSRNOT00000039410fB12929
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTACAAATTTGTTTGGACAGCCACT
R:
CTATTGAACGTGAATGGGTCAGT
Band lengths:
244-462
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=0.550, FDR=0.000), PC9 No Change at 14 days (FC=1.445, FDR=0.134), Late Xenograft No change (FC=0.990, FDR=0.084).
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]