DreEX6081073 @ danRer10
Exon Skipping
Gene
ENSDARG00000005775 | scn8aa
Description
sodium channel, voltage gated, type VIII, alpha subunit a [Source:ZFIN;Acc:ZDB-GENE-000828-1]
Coordinates
chr23:27336143-27348534:-
Coord C1 exon
chr23:27348380-27348534
Coord A exon
chr23:27347554-27347727
Coord C2 exon
chr23:27336143-27336265
Length
174 bp
Sequences
Splice sites
3' ss Seq
CCATATCATATGTTCTGCAGGCC
3' ss Score
6.56
5' ss Seq
GACGTAAGT
5' ss Score
10.93
Exon sequences
Seq C1 exon
CTTGTATTGCCCGCTACAAGTGTTGCGATGTGCCCATCACGGAAGGCTGGGGCAAGAATTGGTGGTTTCTCCGAAAGACCTGCTATCTGATTGTGGAGCACAACTGGTTTGAAACCCTCATCATCTTCATGATCCTCCTCAGTAGTGGAGCACTG
Seq A exon
GCCTTTGAGGATGTGTATATTGAACAGAGGAAGACTATTCGAATCATTCTGGAGTATGCTGACATGGTCTTTACATACATCTTCATATTGGAGATGTTGTTAAAGTGGGTGGCCTATGGTTTTGTCAAGTACTTCACCAATGCTTGGTGCTGGCTGGACTTCTTCATTGTCGAC
Seq C2 exon
GTGTCTATAGTCAGCCTTATAGCTAATGCGCTGGGCTACTCCGATCTAGGGCCCATTAAATCACTCAGGACACTAAGGGCCCTGAGACCCCTCAGAGCATTGTCACGTTTTGAAGGGATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005775-'23-31,'23-24,24-31=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:
PF065128=Na_trans_assoc=PD(20.2=84.6)
A:
PF0052026=Ion_trans=PU(17.0=67.2)
C2:
PF0052026=Ion_trans=FE(17.4=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GCTACAAGTGTTGCGATGTGC
R:
ACAATGCTCTGAGGGGTCTCA
Band lengths:
246-420
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]