DreEX6038634 @ danRer10
Exon Skipping
Gene
ENSDARG00000086819 | scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:ZFIN;Acc:ZDB-GENE-040426-751]
Coordinates
chr9:50272210-50276836:-
Coord C1 exon
chr9:50276708-50276836
Coord A exon
chr9:50275635-50275726
Coord C2 exon
chr9:50272210-50272425
Length
92 bp
Sequences
Splice sites
3' ss Seq
TCCTTCTCTTTATGTTTCAGATA
3' ss Score
12.39
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
Exon sequences
Seq C1 exon
ATATGTCTTCACTGGGATATACACTTTAGAAGCACTGGTCAAGATCACCGCCAGGGGATTCTGTGTGGGACGCTTTACTTTTCTCAGAGATCCGTGGAATTGGTTGGATTTTATTGTTATAGTCATGGC
Seq A exon
ATATGTAACAGAGTTTGTGGATTTGGGGAGCGTGTCCGCCCTGCGAGCATTCAGAGTTCTTCGAGCCCTGAAAACTATATCAGTCGTCCCAG
Seq C2 exon
GGCTGAAAACCATCGTTGGTGCTCTGATCCAGTCAGTGAAGAAGCTCTCAGATGTCATGATCTTGACCCTTTTTTGCCTGAGTGTTTTTGCATTGGTCGGACTCCAGCTCTTCATGGGAATTCTAAAGCAGAAATGTGTGTATTCGACATCTTTTACTGAAAACAAGGAAGCATGTTACAAGAACAAAACATGCAGGGATTACATTAACAATCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086819-'10-11,'10-10,11-11=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=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(29.5=100)
A:
PF0052026=Ion_trans=FE(21.2=100)
C2:
PF0052026=Ion_trans=PD(47.3=94.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
GGATTCTGTGTGGGACGCTTT
R:
CTGGAGTCCGACCAATGCAAA
Band lengths:
181-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]