DreEX6038646 @ danRer10
Exon Skipping
Gene
ENSDARG00000086819 | scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:ZFIN;Acc:ZDB-GENE-040426-751]
Coordinates
chr9:50215661-50218107:-
Coord C1 exon
chr9:50218054-50218107
Coord A exon
chr9:50217829-50217966
Coord C2 exon
chr9:50215661-50215765
Length
138 bp
Sequences
Splice sites
3' ss Seq
TCCTTTATATATGCCTACAGCCA
3' ss Score
7.06
5' ss Seq
AAGATAAGT
5' ss Score
2.82
Exon sequences
Seq C1 exon
GCAACATTTAAAGGGTGGATGCCTATTATGTATGCAGCGGTAGACTCTCGCAAT
Seq A exon
CCAGAAGAACAGCCGGAGTATGAGGTGAATCTGTACATGTACCTCTATTTTGTCATCTTCATCATCCTTGGAGCCTTCTTCACATTAAACCTCTTCATTGGCGTCATCATTGACAACTTCAATCAGCAGAAGAAAAAG
Seq C2 exon
TTTGGGGGTCAGGATATTTTCATGACAGAAGAACAGAAGAAATATTACAACGCCATGAAGAAACTAGGCTCAAAGAAACCCCAAAAACCCATTCCAAGACCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086819-'31-32,'31-30,32-32=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(8.0=100)
A:
PF0052026=Ion_trans=PD(15.9=76.6)
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAACATTTAAAGGGTGGATGCC
R:
GTCTTGGAATGGGTTTTTGGGG
Band lengths:
154-292
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]