GgaEX1051193 @ galGal4
Exon Skipping
Gene
ENSGALG00000006060 | SCN8A
Description
sodium channel, voltage gated, type VIII alpha subunit [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chrLGE22C19W28_E50C23:104801-107291:-
Coord C1 exon
chrLGE22C19W28_E50C23:107202-107291
Coord A exon
chrLGE22C19W28_E50C23:106865-106993
Coord C2 exon
chrLGE22C19W28_E50C23:104801-104892
Length
129 bp
Sequences
Splice sites
3' ss Seq
CTCTTTGTTCCTTTTAACAGGTA
3' ss Score
12.21
5' ss Seq
GGCGTAAGT
5' ss Score
9.39
Exon sequences
Seq C1 exon
AGTATTTAGCATGATCATTATGTGCACTATTTTGACCAACTGTGTATTCATGACTTTTAGTAACCCACCTGAATGGTCGAAGAATGTGGA
Seq A exon
GTATACATTCACTGGTATTTATACATTTGAATCACTTGTGAAAATTATTGCAAGAGGTTTCTGTATAGATGGCTTTACTTTCCTACGAGACCCATGGAACTGGCTAGATTTCAGTGTGATCATGATGGC
Seq C2 exon
GTATATAACAGAGTTTGTAAACCTAGGCAATGTTTCAGCTCTGCGCACTTTCAGGGTTCTGAGAGCTTTGAAAACTATTTCTGTAATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006060-'5-5,'5-4,6-5
Average complexity
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(12.4=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TTTAGCATGATCATTATGTGCACT
R:
ACAGAAATAGTTTTCAAAGCTCTCA
Band lengths:
170-299
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]