GgaEX7006017 @ galGal4
Exon Skipping
Gene
ENSGALG00000010943 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr7:19103323-19105080:+
Coord C1 exon
chr7:19103323-19103412
Coord A exon
chr7:19104141-19104269
Coord C2 exon
chr7:19104989-19105080
Length
129 bp
Sequences
Splice sites
3' ss Seq
GAATATCTGAAATTTTCCAGGTA
3' ss Score
5.9
5' ss Seq
TGCGTAAGT
5' ss Score
9.73
Exon sequences
Seq C1 exon
ATTATTCAGCATGCTTATTATGTGCACTATTTTGACCAACTGTGTGTTTATGACCATGAGTAACCCTCCGGACTGGACCAAGAATGTAGA
Seq A exon
GTACACCTTCACTGGAATATATACGTTTGAGTCACTTATAAAAATTATTGCGAGGGGCTTTTGCTTAGAAGATTTTACTTTTCTTCGAGATCCATGGAACTGGCTCGATTTCACTGTCATTACCTTTGC
Seq C2 exon
ATATGTGACAGAGTTTGTGGACCTGGGCAATGTCTCAGCGTTGAGAACATTCAGAGTTCTCCGAGCTTTGAAAACAATTTCAGTCATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010943-'3-6,'3-3,4-6=AN
Average complexity
A_C3
Mappability confidence:
70%=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(0.7=6.5)
A:
PF0052026=Ion_trans=FE(16.0=100)
C2:
PF0052026=Ion_trans=FE(11.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TATTCAGCATGCTTATTATGTGCACT
R:
TGAAATTGTTTTCAAAGCTCGGAGA
Band lengths:
170-299
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]