DreEX6023023 @ danRer10
Exon Skipping
Gene
ENSDARG00000018032 | scn8ab
Description
sodium channel, voltage gated, type VIII, alpha subunit b [Source:ZFIN;Acc:ZDB-GENE-060906-2]
Coordinates
chr6:39460678-39462392:-
Coord C1 exon
chr6:39462272-39462392
Coord A exon
chr6:39461795-39461882
Coord C2 exon
chr6:39460678-39460806
Length
88 bp
Sequences
Splice sites
3' ss Seq
TCCTTAACTAATTCTTACAGTTT
3' ss Score
5.94
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
ACCTTTATAGTGCTTAACAAAGGAAAAACAATCTTCCGTTTCAGTGCCACGCCCTCATTATATATCATTAGTCCTTTTAACCTGTTCAGGCAAATAGCAATTAAAATTTTGATACACTCAT
Seq A exon
TTTTCAGCATGATCATCATGTGTACAATTTTGACAAATTGTGTCTTCATGACATTCAGCAATCCTCCAGAATGGTCCAAACAAGTAGA
Seq C2 exon
GTACACCTTCACAGGAATCTACACTTTCGAGTCTCTCACAAAGATTGTGGCTCGAGGTTTCTGTATAGACGACTTCACCTTCCTCAGAGACCCCTGGAACTGGCTGGATTTCATGGTCATCTCTATGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000018032-'6-4,'6-3,7-4=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:
NO
A:
PF0052026=Ion_trans=PU(0.8=6.7)
C2:
PF0052026=Ion_trans=FE(17.1=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTGCCACGCCCTCATTATA
R:
GGGGTCTCTGAGGAAGGTGAA
Band lengths:
174-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]