DreEX6081066 @ danRer10
Exon Skipping
Gene
ENSDARG00000005775 | scn8aa
Description
sodium channel, voltage gated, type VIII, alpha subunit a [Source:ZFIN;Acc:ZDB-GENE-000828-1]
Coordinates
chr23:27363655-27368276:-
Coord C1 exon
chr23:27367992-27368276
Coord A exon
chr23:27366599-27366871
Coord C2 exon
chr23:27363655-27363790
Length
273 bp
Sequences
Splice sites
3' ss Seq
TGTTTTTTTTCTGCCTCCAGTCT
3' ss Score
9.05
5' ss Seq
GAGGTGATA
5' ss Score
3.13
Exon sequences
Seq C1 exon
GCAAATGCAATGGCGACGTCAGCGGGAACAGTGTCTGAGGACGTGGTGGAGGATGATGGAGATGGAGAAGGGAATTTGTCCTGCAGCTCGTCTGAGATGTCTAAACTGAGCTCCAAGAGTGCCAAAGAGAGACGCAACCGCAAGAAGAAGTGGCGGCAGAAAGAGCAGGACAAAGAGAAAGGGGACAGCGAGAAGTTTGTCAAATCCGAATCAGACGATGGAAGCAGAAGGAGATTTCGTTTCCCTGATAACCGTTTGGGCCGAAGGAGTTCCATAATGAACCAG
Seq A exon
TCTTTGCTCAGCATCCCAGGCTCTCCATTCCCTTCGAGGCGCAACAGTAAGAGCAGCATCTTCAGCCGCTGTAAAGACGGAGGCTCTGAGAACGAGTTTGCAGATGATGAGCACAGCACGGTTGAGGAGTACGACGAGCGGCGCGACTCCTTCCTAAGCCCTCAGCGTCGCAGCAGCTACACAGGCTTCTACGGCAAGCGCAACAGCACAGTGGATTGCAATGGAGTGGTGTCTCTCATTGGGCCGGGGCCTGGCGGACGCCTTCTGCCTGAG
Seq C2 exon
CCGACCACTGATCTTGAAATTAAGAAGAAACTCTCAGGCTCTCTCATGGTTTCCGTAGAGCAGCTTAACACATCATTCGGGCGCAAGGAGCGAGCAAACAGCGTGATGAGTGCGTTAACCAACACATTGGTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005775-'14-16,'14-15,15-16=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.958 A=0.571 C2=0.022
Domain overlap (PFAM):
C1:
PF0043013=ATP-synt_B=PD(21.0=17.9),PF119333=DUF3451=PU(33.0=67.4)
A:
PF0310514=SPX=PD(30.8=67.0),PF119333=DUF3451=FE(46.4=100)
C2:
PF119333=DUF3451=PD(19.1=80.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTGTCCTGCAGCTCGTCTG
R:
TGCGCCCGAATGATGTGTTAA
Band lengths:
297-570
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]