DreEX6023027 @ danRer10
Exon Skipping
Gene
ENSDARG00000018032 | scn8ab
Description
sodium channel, voltage gated, type VIII, alpha subunit b [Source:ZFIN;Acc:ZDB-GENE-060906-2]
Coordinates
chr6:39441322-39442918:-
Coord C1 exon
chr6:39442855-39442918
Coord A exon
chr6:39442362-39442503
Coord C2 exon
chr6:39441322-39441528
Length
142 bp
Sequences
Splice sites
3' ss Seq
ATTTGTGTGTGTTTTTGTAGACG
3' ss Score
8.8
5' ss Seq
CTGGTGCGC
5' ss Score
6.68
Exon sequences
Seq C1 exon
CAAACTTCTACTTCCTGCCAGGCATGTTGGATGCACTGCTATGTGGAAACAGCTCAGATTCAGG
Seq A exon
ACGGTGTCCGGAGGGCTATACTTGCATGAAGGCTGGACGCAACCCAAACTATGGCTACACAAGCTTTGACTCCTTCGGTTGGGCTTTTCTTGCTCTCTTCCGACTGATGACACAAGATTTCTGGGAGAATCTGTACCAGCTG
Seq C2 exon
ACTCTACGAGCTGCGGGAAAAACATACATGATCTTTTTCGTTCTGGTGATCTTTGTGGGATCGTTCTACCTGGTGAATCTGATCCTGGCTGTGGTGGCCATGGCCTATGAAGAACAGAACCAGGCCACCATTGAGGAGGCTGAACAGAAGGAAGCGGAGTTTAAAGCCATGCTGGAGCAGCTGAAGAAACAACAGGAGGAGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000018032-'12-10,'12-9,13-10=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.058
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(8.4=100)
A:
PF0052026=Ion_trans=FE(18.7=100)
C2:
PF0052026=Ion_trans=PD(12.4=44.9),PF0043013=ATP-synt_B=PU(51.7=89.9),PF0310514=SPX=PU(19.6=55.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTCTACTTCCTGCCAGGCA
R:
TGTTGTTTCTTCAGCTGCTCCA
Band lengths:
255-397
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]