MmuALTD0012450-1/2 @ mm9
Alternative 5'ss
Gene
ENSMUSG00000064329 | Scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:MGI Symbol;Acc:MGI:98246]
Coordinates
chr2:66161369-66163008:-
Coord C1 exon
chr2:66162661-66163008
Coord A exon
NA
Coord C2 exon
chr2:66161369-66161501
Length
0 bp
Sequences
Splice sites
5' ss Seq
GAGGTGATA
5' ss Score
3.13
3' ss Seq
CCTTAGCATTTGCTTTGCAGGGA
3' ss Score
6.37
Exon sequences
Seq C1 exon
TCTCTGTTAAGCATTCGTGGTTCCCTGTTCTCCCCAAGACGCAATAGCAGAACAAGTCTTTTCAGCTTTAGAGGGCGAGCCAAGGATGTGGGGTCTGAGAATGACTTTGCTGATGATGAACACAGCACCTTTGAGGATAATGAGAGCCGTAGAGACTCACTGTTCGTTCCCCGAAGACACGGAGAGCGACGCAACAGTAACCTGAGCCAGACCAGCAGGTCCTCCCGAATGCTGGCGGTGTTTCCAGCCAATGGGAAGATGCACAGCACGGTGGATTGCAATGGTGTGGTTTCCTTGGTTGGTGGACCCTCAGTTCCCACATCGCCAGTTGGACAGCTTCTGCCAGAG
Seq A exon
NA
Seq C2 exon
GGAACAACCACTGAAACTGAGATGAGAAAGAGGAGGTCGAGCTCTTTCCATGTTTCCATGGACTTTCTAGAAGATCCTTCCCAGAGGCAAAGGGCAATGAGCATAGCCAGCATCTTAACAAATACAGTAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064329-16-16,17-16-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.650 A=NA C2=0.218
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=PD(14.5=23.3),PF119333=DUF3451=FE(51.1=100)
A:
NA
C2:
PF119333=DUF3451=PD(16.4=82.2)
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGTGGTTTCCTTGGTTGGT
R:
GGAAAGAGCTCGACCTCCTCT
Band lengths:
115-148
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: