DreEX0064506 @ danRer10
Exon Skipping
Gene
ENSDARG00000086819 | scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:ZFIN;Acc:ZDB-GENE-040426-751]
Coordinates
chr9:50220552-50225382:-
Coord C1 exon
chr9:50225209-50225382
Coord A exon
chr9:50224315-50224437
Coord C2 exon
chr9:50220552-50220824
Length
123 bp
Sequences
Splice sites
3' ss Seq
TCCTCTGTGTATATGTGTAGGTC
3' ss Score
7.71
5' ss Seq
AGGGTAAAA
5' ss Score
4.51
Exon sequences
Seq C1 exon
GCTTTTGAGGACATTTATCTGGACACAAGGAAGAGCGTTAAGACCATACTGGAGTTTGCTGATAAAGTTTTCACCTACATCTTCATTCTTGAGATGCTGCTAAAATGGGTCGCATATGGATTCGCCAAATACTTCACCAATCTGTGGTGCTGGCTGGATTTTGTCATTGTTGAT
Seq A exon
GTCTCGCTGATCAGCCTGGTGGCCAACGCCCTCAACTATTCAGAGCTGAGTGCCATCAAATCCCTGCGAACACTCAGAGCCTTCCGGCCGCTTCGGGCTCTCTCACGCTTTGATGGAATGAGG
Seq C2 exon
GTGGTTGTGAACGCTCTTCTGGGCGCCATTCCCTCCATCATGAACGTCCTGCTCGTCTGCCTCATCTTCTGGCTCATTTTCAGCATTGTGGGTGTCAACTTCTTCGCTGGGAAGTTTTCTGAATGTATAAACATAACCACGGAGCAGCGCCTGCCTGTCTCAGAGGTCTATAACAAGACAGACTGTGAAAGAATGGGGAAAGGAGTCCGCTGGAGAAATGTGATCATTAACTTTGACAATGTTGGGAATGGATACCTGGCCCTGCTGCAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086819-'28-28,'28-27,29-28
Average complexity
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=PU(17.3=66.1)
A:
PF0052026=Ion_trans=FE(18.1=100)
C2:
PF0052026=Ion_trans=FE(40.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGCTGGCTGGATTTTGTCA
R:
CACATTTCTCCAGCGGACTCC
Band lengths:
251-374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]