DreEX6081063 @ danRer10
Exon Skipping
Gene
ENSDARG00000005775 | scn8aa
Description
sodium channel, voltage gated, type VIII, alpha subunit a [Source:ZFIN;Acc:ZDB-GENE-000828-1]
Coordinates
chr23:27370279-27377369:-
Coord C1 exon
chr23:27377306-27377369
Coord A exon
chr23:27375315-27375456
Coord C2 exon
chr23:27370279-27370485
Length
142 bp
Sequences
Splice sites
3' ss Seq
GTGCTCTCTTCCTCTCTCAGTCG
3' ss Score
9.26
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
Exon sequences
Seq C1 exon
CCAATTTCTACTTCCTGCCAGACCAGTTGGATGCACTTTTGTGTGGAAACAGCTCTGATTCAGG
Seq A exon
TCGCTGTCCTGAAGGTTACACATGCATGAAGGCTGGCCGTAATCCAAACTATGGCTACACCAGCTTTGACAGTTTTGGCTGGGCTTTCCTGGCTCTCTTCCGCCTCATGACGCAGGACTTCTGGGAGAACTTGTACCAGCTG
Seq C2 exon
ACACTGAGAGCAGCAGGGAAGACCTACATGATTTTCTTTGTGCTGGTCATCTTTGTGGGCTCCTTCTATCTTGTGAATCTGATTCTGGCTGTGGTGGCCATGGCATATGAGGAGCAGAACCAGGCCACCATGGAGGAGGCGGAGCGAAAGGAGGCGGAGTTTAAAGCCATGCTGGAACAGCTGAAGAAACAGCAGGAGGACGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005775-'11-13,'11-12,12-13=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=0.145
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(8.3=100)
A:
PF0052026=Ion_trans=FE(18.7=100)
C2:
PF0052026=Ion_trans=PD(12.3=44.9),PF0043013=ATP-synt_B=PU(76.5=89.9)
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:
TTCCTGCCAGACCAGTTGGAT
R:
GCGTCCTCCTGCTGTTTCTTC
Band lengths:
256-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]