DreEX6021991 @ danRer10
Exon Skipping
Gene
ENSDARG00000044433 | sned1
Description
sushi, nidogen and EGF-like domains 1 [Source:ZFIN;Acc:ZDB-GENE-100913-1]
Coordinates
chr6:27482398-27488373:+
Coord C1 exon
chr6:27482398-27482541
Coord A exon
chr6:27484817-27484990
Coord C2 exon
chr6:27488260-27488373
Length
174 bp
Sequences
Splice sites
3' ss Seq
GTCCTCTTTGTATGGTGCAGGTC
3' ss Score
8.97
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
Exon sequences
Seq C1 exon
GAAAGCCAGATCCATGTGCTTCCAGTCCCTGTCGAAATGGGGGAACATGTTTCCACTACATCGGTAAATACAAATGCGAGTGCTCCCCGTCCTTCATGGGAAGACACTGCGAGATCAACAGAGGCTCTAATCCAGCTTTGGAGG
Seq A exon
GTCTAGACTGTGGCCCCCCTGTGAAAGCTAAGCATGCAGAGGTACAGTATTCCTCCACTACTCCAGGCTCCATGGCTCTGTATTTATGCCACCCAGGCTACACTCCCCTCACTAGGGCCACCCAGATCATCTGCAGCAGCCAGGGGTCCTGGAGCCAGCCTCCAGTCTGTGAAG
Seq C2 exon
AGATCAACGAGTGTTTGTCTCAGCCATGCATGAATGGAGGAACTTGTCGTGATCGTGTGGCCTCTTACCTTTGTGAATGTGAAGAGGGTTTCACCGGTCAGCGCTGTCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044433-'16-20,'16-19,17-20=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.034 C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=63.3)
A:
NO
C2:
PF0000822=EGF=WD(100=79.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCCAGATCCATGTGCTTCC
R:
TGACCGGTGAAACCCTCTTCA
Band lengths:
242-416
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]