RnoEX0078742 @ rn6
Exon Skipping
Gene
ENSRNOG00000013123 | Scube2
Description
signal peptide, CUB domain and EGF like domain containing 2 [Source:RGD Symbol;Acc:1563998]
Coordinates
chr1:174454563-174462031:-
Coord C1 exon
chr1:174461909-174462031
Coord A exon
chr1:174461043-174461126
Coord C2 exon
chr1:174454563-174454769
Length
84 bp
Sequences
Splice sites
3' ss Seq
TTCCACGTTCTGTCTGTCAGGAC
3' ss Score
8.73
5' ss Seq
GGGGTAATT
5' ss Score
5.8
Exon sequences
Seq C1 exon
ACACCAACGAGTGCAGCGTCAACAACGGAGGCTGCCAGCAAGTTTGCGTCAACACAGTGGGTGGCTATGAGTGCCAGTGTCATCCAGGGTACAAGCTCCACTGGAATAAAAAAGACTGTGTGG
Seq A exon
GACTGCAAGAGGCTTACTCTGTCACCTGCGGCTCTCCCTCTCTCAGAAGCAGACAGCAAAAATCAAATGACTCTGCTTTTGGGG
Seq C2 exon
CTTCCTGCAATCTGAGCTGCGTGGTGAAGCGAACAGAGAAGAGGCTGCGGAAAGCTGTGCGCACACTCAAGAAGGCTGCCCACAGGGAACAGTTTCACCTGCAGCTCTCAGGCACGGACCTCGATGTGGCTAAAAAGTTTCCCCGAGTGTCGGGACAGCAGGAGGAGACCTGTGGAGTGGGCCAGGGTCGTGAAGAAAGCCAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013123_MULTIEX1-2/4=C1-C2
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.103 C2=0.057
Domain overlap (PFAM):
C1:
PF146701=FXa_inhibition=WD(100=85.7)
A:
NO
C2:
PF076998=GCC2_GCC3=PU(10.2=8.6)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCTATGAGTGCCAGTGTC
R:
AGCTGCAGGTGAAACTGTTCC
Band lengths:
169-253
Functional annotations
There are 1 annotated functions for this event
PMID: 32249828
[CRISPR screen]. This alternative exon is implicated in cell fitness by a CRISPR-based exon deletion phenotypic screen in RPE-1 cells.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]