DreEX6038639 @ danRer10
Exon Skipping
Gene
ENSDARG00000086819 | scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:ZFIN;Acc:ZDB-GENE-040426-751]
Coordinates
chr9:50246329-50249818:-
Coord C1 exon
chr9:50249698-50249818
Coord A exon
chr9:50246687-50246925
Coord C2 exon
chr9:50246329-50246505
Length
239 bp
Sequences
Splice sites
3' ss Seq
TTTTTTTTATTGCATGTCAGGTT
3' ss Score
8.93
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
Exon sequences
Seq C1 exon
GCAGACTCAGATGACGAACGCAGAAGCAGATGTAATTCACAGAACTTTTCGAAGGCTTATCGGCAGTCTATGAGAGAGAGAGCTTTGAGTGTAGCAAGTGGCAGCAACAACCCTGCTGAAT
Seq A exon
GTTCAGAGATCTTTAAACAGAGGTGTGAGGAGTGGTGGTTCGAGTTTGCGGAGAATTATTTGATCTGGGATTGCAGTCCCACATGGCTGAGGATAAAGGAGGTCGTCCACATGATTGTGATGGACCCGTTTGCGGATCTGTTTATCACCATCTGCATTGTGATAAACACAGTATTCATGGCCATGGAGTGTTACCCTATGGATGGACCATACTCTAGTATGCTTTCGACTGCTAATGTG
Seq C2 exon
GTTTTCATTGGCATCTTCACAGCAGAGATGATATTCAAGGTCATTGCGTTGGACCCGTACAGTTATTTTCTGGAAGGCTGGAATATCTTCGACAGCATCATTGTCACTTTGAGTCTGATGGAACTTTGTCTGGCAAATGTTTTGTCTGGAATTGGATTTCTAAGACCATTTCGACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086819-'21-20,'21-18,22-20=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=0.006 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF119333=DUF3451=PD(15.3=82.9)
A:
PF0052026=Ion_trans=PU(1.6=3.8)
C2:
PF0052026=Ion_trans=FE(30.9=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGATGACGAACGCAGAAGC
R:
CAGTCGAAATGGTCTTAGAAATCCA
Band lengths:
292-531
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]