DreEX6038647 @ danRer10
Exon Skipping
Gene
ENSDARG00000086819 | scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:ZFIN;Acc:ZDB-GENE-040426-751]
Coordinates
chr9:50212605-50217966:-
Coord C1 exon
chr9:50217829-50217966
Coord A exon
chr9:50215661-50215765
Coord C2 exon
chr9:50212605-50212875
Length
105 bp
Sequences
Splice sites
3' ss Seq
TTTCTGTTGTCTTCTTTTACTTT
3' ss Score
2.84
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
Exon sequences
Seq C1 exon
CCAGAAGAACAGCCGGAGTATGAGGTGAATCTGTACATGTACCTCTATTTTGTCATCTTCATCATCCTTGGAGCCTTCTTCACATTAAACCTCTTCATTGGCGTCATCATTGACAACTTCAATCAGCAGAAGAAAAAG
Seq A exon
TTTGGGGGTCAGGATATTTTCATGACAGAAGAACAGAAGAAATATTACAACGCCATGAAGAAACTAGGCTCAAAGAAACCCCAAAAACCCATTCCAAGACCAAAA
Seq C2 exon
AACAAGATTCAAGGACTCATCTTTGACCTCGTAACCAAACAGGCCTTTGACATTTTCATTATGGTCCTGATCTGGCTCAACATGGTCACTATGATGCTGGAGACGGAGGATCAGTCGATTGAAATGACCCGTGCGCTGTACTGGATCAATGTCATTTTCATTGTGCTCTTCACCACCGAATGCGTCCTGAAGATGATCGCTCTGCGCCATTACTTCTTCACCGTTGGCTGGAATGTGTTTGACTTTATCGTGGTCATCCTGTCTATAGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086819-'32-34,'32-32,35-34=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=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(15.9=76.6)
A:
NO
C2:
PF0052026=Ion_trans=PU(19.9=46.2)
Main Skipping Isoform:
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:
ACAGCCGGAGTATGAGGTGAA
R:
ATCGACTGATCCTCCGTCTCC
Band lengths:
249-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]