GgaEX6046897 @ galGal3
Exon Skipping
Gene
ENSGALG00000006060 | SCN8A
Description
NA
Coordinates
chrE22C19W28_E50C23:79439-81928:-
Coord C1 exon
chrE22C19W28_E50C23:81841-81928
Coord A exon
chrE22C19W28_E50C23:81504-81632
Coord C2 exon
chrE22C19W28_E50C23:79439-79530
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
TATTTAGCATGATCATTATGTGCACTATTTTGACCAACTGTGTATTCATGACTTTTAGTAACCCACCTGAATGGTCGAAGAATGTGGA
Seq A exon
GTATACATTCACTGGTATTTATACATTTGAATCACTTGTGAAAATTATTGCAAGAGGTTTCTGTATAGATGGCTTTACTTTCCTACGAGACCCATGGAACTGGCTAGATTTCAGTGTGATCATGATGGC
Seq C2 exon
GTATATAACAGAGTTTGTAAACCTAGGCAATGTTTCAGCTCTGCGCACTTTCAGGGTTCTGAGAGCTTTGAAAACTATTTCTGTAATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006060-'4-5,'4-4,5-5=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=6.7)
A:
PF0052026=Ion_trans=FE(17.1=100)
C2:
PF0052026=Ion_trans=FE(12.4=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:
TTTAGCATGATCATTATGTGCACT
R:
ACAGAAATAGTTTTCAAAGCTCTCA
Band lengths:
170-299
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]