HsaEX0056672 @ hg19
Exon Skipping
Gene
ENSG00000175356 | SCUBE2
Description
signal peptide, CUB domain, EGF-like 2 [Source:HGNC Symbol;Acc:30425]
Coordinates
chr11:9072153-9074762:-
Coord C1 exon
chr11:9074646-9074762
Coord A exon
chr11:9074293-9074379
Coord C2 exon
chr11:9072153-9072257
Length
87 bp
Sequences
Splice sites
3' ss Seq
ATTGACATTCTGTCTGTCAGGAC
3' ss Score
6.75
5' ss Seq
GGGGTAATT
5' ss Score
5.8
Exon sequences
Seq C1 exon
AAGTGAAGGGGCTCCTGCCCACAAGTGTGTCACCCCGTGTGTCCCTGCACTGCGGTAAGAGTGGTGGAGGAGACGGGTGCTTCCTCAGATGTCACTCTGGCATTCACCTCTCTTCAG
Seq A exon
GACTGCAAGGGGCCTACTCTGTCACCTGTGGCTCTTCCTCTCCTCTCAGGAACAAACAACAAAAATCAAATGACTCTGCTTTTGGGG
Seq C2 exon
ATGTCACCACCATCAGGACAAGTGTAACCTTTAAGCTAAATGAAGGCAAGTGTAGTTTGAAAAATGCTGAGCTGTTTCCCGAGGGTCTGCGACCAGCACTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175356_MULTIEX1-4/6=3-5
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.200 C2=0.093
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
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:
CAAGTGTGTCACCCCGTGTG
R:
CTCGGGAAACAGCTCAGCATT
Band lengths:
179-266
Functional annotations
There are 1 annotated functions for this event
PMID: 32249828
This event
[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]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)