GgaALTA0005800-2/2 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000010943 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr7:19128511-19140574:+
Coord C1 exon
chr7:19128511-19128633
Coord A exon
chr7:19140426-19140508
Coord C2 exon
chr7:19140509-19140574
Length
83 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
CCCCTGTATTTGTGTATTAGGTG
3' ss Score
8.76
Exon sequences
Seq C1 exon
GTCTCTTTGGTTAGCTTAACAGCAAATGCATTGGGTTACTCTGAACTTGGTGCCATTAAGTCCCTTAGGACACTAAGAGCTTTGAGACCTCTAAGAGCCTTGTCACGATTTGAAGGCATGAGG
Seq A exon
GTGGTTGTGAATGCCCTTTTAGGAGCAATTCCATCCATCATGAACGTGCTTCTCGTTTGTCTTATATTCTGGCTAATTTTCAG
Seq C2 exon
CATCATGGGAGTAAATCTGTTTGCTGGGAAGTTCTACTACTGTGTTAACACCACAACTGATGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010943-25-30,25-29-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTAACAGCAAATGCATTGGGT
R:
TTCATCAGTTGTGGTGTTAACAC
Band lengths:
174-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]