BtaEX0033934 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000014132 | SNED1
Description
sushi, nidogen and EGF-like domains 1 [Source:HGNC Symbol;Acc:HGNC:24696]
Coordinates
chr3:120785887-120787383:+
Coord C1 exon
chr3:120785887-120786000
Coord A exon
chr3:120786789-120786902
Coord C2 exon
chr3:120787087-120787383
Length
114 bp
Sequences
Splice sites
3' ss Seq
ACTGCTGCCTCCCCCCACAGTGA
3' ss Score
10.62
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
AGGTGGATGCCTGCGACTCCAGCCCCTGCCAGCACGGAGGCCGCTGTGAGAACGGTGGCGGGGCCTACCTGTGCGTCTGCCCAGAGGGCTTCTTCGGCTACCACTGTGAGACAG
Seq A exon
TGAGTGACCCCTGCTTCTCCAGCCCCTGTGGAGGCCGCGGCTACTGCCTGGCCAGCAACGGGTCCCACAGCTGCACCTGTAAAGTGGGCTACACCGGCAGGGACTGTGACAAAG
Seq C2 exon
AGCTCTTCCCACCAACGGCCCTCAAGGTGGAGCAAGTGGAAGAGAGTGGGGTCTCCATCTCCTGGCGCCCCCCCGAAGGCCCAGCGGCCAGGCAGCTGCTGGATGGCTATGCCGTCACCTACGTGTCCTCGGACGGCTCCTACCGCCGCACAGACTTCGTGGACCGGGGCCGCTCCGCGCACCAGCTCCGGGCCCTGGCACCCGGCAGGGCCTACAACGTCTCTGTCTTCTCGGTCAAGCGCAACGCCAACAACAAGAACGACATCAGCAGGCCCGTGGTGCTGCTTGCCCGCACGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014132_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.070
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=79.5)
A:
PF0000822=EGF=WD(100=79.5)
C2:
PF0004116=fn3=WD(100=83.0)
Main Skipping Isoform:
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:
TTCGGCTACCACTGTGAGACA
R:
GACAGAGACGTTGTAGGCCCT
Band lengths:
249-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development