HsaEX0060673 @ hg19
Exon Skipping
Gene
ENSG00000162804 | SNED1
Description
sushi, nidogen and EGF-like domains 1 [Source:HGNC Symbol;Acc:24696]
Coordinates
chr2:242021092-242026890:+
Coord C1 exon
chr2:242021092-242021208
Coord A exon
chr2:242021692-242021779
Coord C2 exon
chr2:242026807-242026890
Length
88 bp
Sequences
Splice sites
3' ss Seq
ACTGCCCTTCTTTGTCGCAGCCT
3' ss Score
8.5
5' ss Seq
CGTGTAAGT
5' ss Score
8.58
Exon sequences
Seq C1 exon
ACGTCCCTGGCAACTGTTCAGAAAACCCCTGTCAGAACGGAGGCACTTGTGTGCCGGGCGCAGACGCCCACAGCTGTGACTGCGGGCCAGGGTTCAAAGGCAGACGCTGCGAGCTCG
Seq A exon
CCTGTATAAAGGTGTCCCGCCCCTGCACAAGGCTGTTCTCCGAGACAAAGGCCTTTCCAGTCTGGGAGGGAGGCGTCTGTCACCACGT
Seq C2 exon
GTATAAAAGAGTCTACCGAGTTCACCAAGACATCTGCTTCAAAGAGAGCTGTGAAAGCACAAGCCTCAAGAAGACCCCAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162804_CASSETTE7
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=0.000 C2=0.103
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=77.5),PF055076=MAGP=PU(38.2=85.0)
A:
PF055076=MAGP=FE(32.6=100)
C2:
PF055076=MAGP=PD(28.1=86.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTCAGAACGGAGGCACTTG
R:
GGGGTCTTCTTGAGGCTTGTG
Band lengths:
167-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)