GgaEX6042496 @ galGal4
Exon Skipping
Gene
ENSGALG00000010943 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr7:19116746-19120378:+
Coord C1 exon
chr7:19116746-19116878
Coord A exon
chr7:19117661-19117899
Coord C2 exon
chr7:19120205-19120378
Length
239 bp
Sequences
Splice sites
3' ss Seq
TGAATTTTGCTTTCCCACAGAAC
3' ss Score
10.99
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
Exon sequences
Seq C1 exon
GGCACCACTACAGAGACAGAAATGAGGAAGAGAGTATCAGGCTCTTTCCATGTTTCTATGGACTATCTGGAAGATCCAGCTTTAAGAGAGAGAGCAATGAGCATTGCTAGCATCCTTACGAACACTGTGGAAG
Seq A exon
AACTCGAAGAATCAAGACAGAAATGCCCACCATGTTGGTATAAATTTGCAAATATCTTCTTGATCTGGGACTGCAGTCCTCATTGGTTGAAAGTAAAGCATATTGTCAACTTAGTTGTAATGGATCCATTTGTTGACCTGGCTATTACAATTTGCATTGTTTTAAATACACTCTTTATGGCCATGGAGCATTATCCGATGACTGATGAATTCAATAACGTACTTTCAGTTGGAAATCTG
Seq C2 exon
GTCTTCACTGGAATCTTCACAGCAGAGATGTTTCTCAAGATAATTGCAATGGATCCTTACTATTATTTTCAAGAAGGCTGGAATATTTTTGATGGTTTTATTGTAACCCTTAGCTTGGTTGAGCTTGGTCTTGCAGATGTGGAAGGACTCTCAGTTCTTCGATCATTCAGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010943-'15-15,'15-14,16-15=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=0.222 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF119333=DUF3451=PD(16.4=82.2)
A:
PF0052026=Ion_trans=PU(1.6=3.8)
C2:
PF0052026=Ion_trans=FE(30.0=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GGCACCACTACAGAGACAGAA
R:
TCGAAGAACTGAGAGTCCTTCCA
Band lengths:
295-534
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]