GgaEX1054462 @ galGal4
Exon Skipping
Gene
ENSGALG00000006039 | SNED1
Description
sushi, nidogen and EGF-like domains 1 [Source:HGNC Symbol;Acc:HGNC:24696]
Coordinates
chr9:4404870-4405700:+
Coord C1 exon
chr9:4404870-4404952
Coord A exon
chr9:4405407-4405493
Coord C2 exon
chr9:4405584-4405700
Length
87 bp
Sequences
Splice sites
3' ss Seq
TTGACCCTCTCGTTGCCCAGAGC
3' ss Score
6.79
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
Exon sequences
Seq C1 exon
GTTCACTGAGCTGGTGGATGGCAGAAGGAGGATCAGTGCCAGGTTCGGCACTTTGCCAAGCAAATCCATCACCGTGAAGACAC
Seq A exon
AGCCAGAGGCTCCCGTGAGGCTGGAGAACAGCGAGGAGCCCAGCCGGAGCAGTCTGGCACTGCAGCTGCGAGAGGCATGGAGCAAAA
Seq C2 exon
GCATCAGGCAGAACTGCTCCACAAACCCCTGCAAGAATGGAGGCACCTGTGTAAGCGAGAGCGAATCCTACCATTGCGACTGCATCCCGGGCTTCAAGGGCAGGCACTGTGAGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006039_CASSETTE1
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.379 A=0.500 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0000822=EGF=WD(100=77.5),PF055076=MAGP=PU(31.2=62.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGGAGGATCAGTGCCAGGTT
R:
CACAGTGCCTGCCCTTGAAG
Band lengths:
170-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]