DreEX6081068 @ danRer10
Exon Skipping
Gene
ENSDARG00000005775 | scn8aa
Description
sodium channel, voltage gated, type VIII, alpha subunit a [Source:ZFIN;Acc:ZDB-GENE-000828-1]
Coordinates
chr23:27358717-27363790:-
Coord C1 exon
chr23:27363655-27363790
Coord A exon
chr23:27361524-27361762
Coord C2 exon
chr23:27358717-27358890
Length
239 bp
Sequences
Splice sites
3' ss Seq
ATATATTCTTTATTTTACAGAAC
3' ss Score
9.46
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
Exon sequences
Seq C1 exon
CCGACCACTGATCTTGAAATTAAGAAGAAACTCTCAGGCTCTCTCATGGTTTCCGTAGAGCAGCTTAACACATCATTCGGGCGCAAGGAGCGAGCAAACAGCGTGATGAGTGCGTTAACCAACACATTGGTTGAAG
Seq A exon
AACTGGAAGAGTCTCAGAGGAAATGTCCACCCTGCTGGTACAAATTCGCCAACACGTTTCTTATCTGGGAGTGTGGCCCTCTATGGATGTCGATAAAGGAGATTGTGAACCTGATTGTAATGGACCCTTTTGTGGACCTGGCTATCACCATTTGCATTGTGCTGAATACTCTCTTCATGGCCATGGAGCATTACCCGATGACGCCGCAATTTGAGCATGTGCTGTCTGTCGGAAACCTG
Seq C2 exon
GTGTTTACTGGAATCTTCACTGCCGAAATGTTTGCCAAACTGGTTGCAATGGACCCATACTACTACTTCCAGGAGGGCTGGAATATATTTGATGGCTTTATTGTGAGCTTGAGTTTGATGGAGTTGGGCTTGGCCAATGTGGAAGGTCTTTCTGTGCTGCGATCATTCCGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005775-'17-19,'17-17,18-19=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=0.022 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF119333=DUF3451=PD(19.1=80.4)
A:
PF0052026=Ion_trans=PU(1.6=3.8)
C2:
PF0052026=Ion_trans=FE(30.0=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGACCACTGATCTTGAAATTAAGA
R:
TGATCGCAGCACAGAAAGACC
Band lengths:
301-540
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]