GgaEX6042498 @ galGal4
Exon Skipping
Gene
ENSGALG00000010943 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr7:19114161-19116878:+
Coord C1 exon
chr7:19114161-19114466
Coord A exon
chr7:19115185-19115532
Coord C2 exon
chr7:19116746-19116878
Length
348 bp
Sequences
Splice sites
3' ss Seq
CAAATTTTGTTTGCCTACAGTCT
3' ss Score
6.82
5' ss Seq
GAGGTGATA
5' ss Score
3.13
Exon sequences
Seq C1 exon
GCAGCAGCGGTGGCAGCGGCGGCAGTTACAGCATCCGCAGAGTCCAGGGAACCCAGCGCTGCGGGAGGAGCAGGTGGGCTTTCAGAAAGTTCCTCAGAGGCTTCCAAATTGAGCTCAAAGAGTGCCAAAGAGAGGAGAAATAGAAGGAAAAAAAGAAAACAGAAAGAACAGTCTGGAGGAGAGGAAAAAGATGAAGATGAATTTCACAAGTCTGAATCAGAAGACAGCATCAGAAGAAAAGGTTTCCGGTTATCTATTGAAGGCAATAGACTGACATATGAAAAGAAATACTCTTCTCCACATCAG
Seq A exon
TCTTTGCTGAGCATTCGTGGCTCCCTGTTTTCCCCAAGGCGCAACAGCAGAACCAGTCTTTTCAGCTTCAGAGGTAGAGCAAAGGATATAGGATCTGAAAATGACTTTGCTGATGATGAGCACAGCACTTTTGAAGACAATGATAGCAGAAGAGATTCTCTCTTTGTGCCGCGCAGACACGGTGAACGGCGCAACAGTAACATTAGTCAGGCCAGTAGGTCATCCAGGATGCTGGCAGTGTTTCCAGTGAATGGGAAGATGCACAGCACTGTGGATTGCAATGGGGTGGTTTCCCTGGTTGGTGGACCATCTGTTCCTACATCGCCTGTTGGACAGCTTCTGCCAGAG
Seq C2 exon
GGCACCACTACAGAGACAGAAATGAGGAAGAGAGTATCAGGCTCTTTCCATGTTTCTATGGACTATCTGGAAGATCCAGCTTTAAGAGAGAGAGCAATGAGCATTGCTAGCATCCTTACGAACACTGTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010943-'11-13,'11-12,13-13=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.755 A=0.552 C2=0.222
Domain overlap (PFAM):
C1:
PF0253517=Zip=PD(48.3=83.3),PF119333=DUF3451=PU(31.1=68.6)
A:
PF119333=DUF3451=FE(51.1=100)
C2:
PF119333=DUF3451=PD(16.4=82.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGGTGGGCTTTCAGAAAGT
R:
CGTAAGGATGCTAGCAATGCTCA
Band lengths:
357-705
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]