MmuALTD0012454-2/3 @ mm9
Alternative 5'ss
Gene
ENSMUSG00000057182 | Scn3a
Description
sodium channel, voltage-gated, type III, alpha [Source:MGI Symbol;Acc:MGI:98249]
Coordinates
chr2:65345204-65346719:-
Coord C1 exon
chr2:65346519-65346719
Coord A exon
chr2:65346510-65346518
Coord C2 exon
chr2:65345204-65345336
Length
9 bp
Sequences
Splice sites
5' ss Seq
CAGGCCAGT
5' ss Score
1.19
3' ss Seq
CATCAGTATTTGGTTTGCAGGGT
3' ss Score
5.3
Exon sequences
Seq C1 exon
TCTCTCTTGAGTATCCGTGGCTCCCTGTTTTCCCCAAGACGCAATAGCAAAACGAGCATTTTCAGCTTCAGAGGTCGGGCGAAGGACGTGGGGTCTGAGAATGACTTTGCGGATGATGAACACAGCACCTTTGAAGATAGCGAGAGCAGGAGAGACTCACTGTTTGTGCCGCACAGACCTGGAGAGCGACGCAACAGTAAC
Seq A exon
GTTAGTCAG
Seq C2 exon
GGTACCACCACTGAAACAGAAGTCAGGAAGAGAAGGCTAAGTTCTTACCAGATCTCGATGGAAATGCTGGAGGATTCCTCTGGGAGACAAAGAGCCATGAGCATAGCCAGTATCCTGACCAACACGATGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057182-17-14,18-14,19-14-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.597 A=NA C2=0.178
Domain overlap (PFAM):
C1:
PF119333=DUF3451=FE(46.8=100)
A:
NA
C2:
PF119333=DUF3451=PD(0.7=2.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAGCGACGCAACAGTAAC
R:
CCTCCAGCATTTCCATCGAGA
Band lengths:
94-103
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: