DreEX6081060 @ danRer10
Exon Skipping
Gene
ENSDARG00000005775 | scn8aa
Description
sodium channel, voltage gated, type VIII, alpha subunit a [Source:ZFIN;Acc:ZDB-GENE-000828-1]
Coordinates
chr23:27388261-27391673:-
Coord C1 exon
chr23:27391555-27391673
Coord A exon
chr23:27388480-27388569
Coord C2 exon
chr23:27388261-27388389
Length
90 bp
Sequences
Splice sites
3' ss Seq
TTTCCTTAACTGATACTCACAGT
3' ss Score
-4.13
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
ACATTTGTAGTCCTAAATAAAGGGAAAACAATCTTCCGCTTTAGTGCCACACCTGCCTTGTACATGATAAGCCCTTTTAATCTTGCTAGACGAATAGCGATTAAAATTTTGATACATTC
Seq A exon
AGTATTCAGCATGTTCATTATGTGTACGATTTTGACCAACTGTGTGTTCATGACTTTTAGTAATCCTCCCGAGTGGTCCAAACAAGTAGA
Seq C2 exon
GTATACTTTCACTGGAATTTATACGTTTGAATCAGCAGTAAAAATCATTGCCCGTGGATTCTGTATAGATGGCTTCACATTCCTTAGAGATCCATGGAACTGGCTGGATTTCATGGTCATCTCAATGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005775-'5-5,'5-4,6-5=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:
NO
A:
PF0052026=Ion_trans=PU(0.8=6.5)
C2:
PF0052026=Ion_trans=FE(17.1=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCACACCTGCCTTGTACATGA
R:
TCCAGCCAGTTCCATGGATCT
Band lengths:
181-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]