DreEX6081061 @ danRer10
Exon Skipping
Gene
ENSDARG00000005775 | scn8aa
Description
sodium channel, voltage gated, type VIII, alpha subunit a [Source:ZFIN;Acc:ZDB-GENE-000828-1]
Coordinates
chr23:27383949-27388569:-
Coord C1 exon
chr23:27388480-27388569
Coord A exon
chr23:27388261-27388389
Coord C2 exon
chr23:27383949-27384040
Length
129 bp
Sequences
Splice sites
3' ss Seq
ACCTCCTGCTTTTTCCTCAGGTA
3' ss Score
11.87
5' ss Seq
GGCGTAAGT
5' ss Score
9.39
Exon sequences
Seq C1 exon
AGTATTCAGCATGTTCATTATGTGTACGATTTTGACCAACTGTGTGTTCATGACTTTTAGTAATCCTCCCGAGTGGTCCAAACAAGTAGA
Seq A exon
GTATACTTTCACTGGAATTTATACGTTTGAATCAGCAGTAAAAATCATTGCCCGTGGATTCTGTATAGATGGCTTCACATTCCTTAGAGATCCATGGAACTGGCTGGATTTCATGGTCATCTCAATGGC
Seq C2 exon
ATATGTAACAGAGTTTGTGGACCTGGGGAATGTATCTGCGCTGAGAACATTCAGAGTTCTCCGAGCATTGAAAACTATCTCTGTCATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005775-'6-9,'6-5,7-9=AN
Average complexity
A_C2
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(0.8=6.5)
A:
PF0052026=Ion_trans=FE(17.1=100)
C2:
PF0052026=Ion_trans=FE(12.3=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAGCATGTTCATTATGTGTACGA
R:
CTGGAATGACAGAGATAGTTTTCAA
Band lengths:
178-307
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]