DreEX6038638 @ danRer10
Exon Skipping
Gene
ENSDARG00000086819 | scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:ZFIN;Acc:ZDB-GENE-040426-751]
Coordinates
chr9:50246687-50255536:-
Coord C1 exon
chr9:50255168-50255536
Coord A exon
chr9:50249698-50249818
Coord C2 exon
chr9:50246687-50246925
Length
121 bp
Sequences
Splice sites
3' ss Seq
TTATTTTTTTCTCTTTACAGGCA
3' ss Score
12.31
5' ss Seq
AATGTAAGA
5' ss Score
5.55
Exon sequences
Seq C1 exon
TCCCCCTTGAGTTTTCAGGGTTCCCTCCTCACTCCTCGTCGGGACAGCAAAGCGAGCGTCTTCAGTTTCCGTGGACGAATTCATTCAGATAACAACTACGCCGACGACGAGCAGAGCATGTTTGAGGAGACGGGCAGCCGAAGAGACTCTCTGTTTCTTCCCACTCGACCCGAGCGTCTTTTCAGCAACGTTAGCAAAAGCAGTCTGACTCCGCACTTACTGCTGCCTTCTAACGGGAAAGCACGCTACGTGGATGACAGCAACGGGATGGTGATGGTGACAAGTGGAGCATCTGCACCAAACTCCCCTGTCATAGCCCTGAATACACCAGAAGTTTCCCGAAAAAGAGCCATGTTTGACGACACTTGT
Seq A exon
GCAGACTCAGATGACGAACGCAGAAGCAGATGTAATTCACAGAACTTTTCGAAGGCTTATCGGCAGTCTATGAGAGAGAGAGCTTTGAGTGTAGCAAGTGGCAGCAACAACCCTGCTGAAT
Seq C2 exon
GTTCAGAGATCTTTAAACAGAGGTGTGAGGAGTGGTGGTTCGAGTTTGCGGAGAATTATTTGATCTGGGATTGCAGTCCCACATGGCTGAGGATAAAGGAGGTCGTCCACATGATTGTGATGGACCCGTTTGCGGATCTGTTTATCACCATCTGCATTGTGATAAACACAGTATTCATGGCCATGGAGTGTTACCCTATGGATGGACCATACTCTAGTATGCTTTCGACTGCTAATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086819-'18-18,'18-17,21-18=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.481 A=0.006 C2=0.000
Domain overlap (PFAM):
C1:
PF119333=DUF3451=FE(55.4=100)
A:
PF119333=DUF3451=PD(15.3=82.9)
C2:
PF0052026=Ion_trans=PU(1.6=3.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTTTCTTCCCACTCGACCC
R:
ACCACTCCTCACACCTCTGTT
Band lengths:
255-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]