MmuALTD0012456-1/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000023033 | Scn8a
Description
sodium channel, voltage-gated, type VIII, alpha [Source:MGI Symbol;Acc:MGI:103169]
Coordinates
chr15:100983689-101002166:+
Coord C1 exon
chr15:100983689-100984045
Coord A exon
NA
Coord C2 exon
chr15:101002034-101002166
Length
0 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAA
5' ss Score
2.91
3' ss Seq
TGCTTTATTTTATTTCTCAGGCA
3' ss Score
9.26
Exon sequences
Seq C1 exon
TCGCTGCTCAGCATCCCAGGCTCGCCCTTCCTTTCCCGACACAACAGCAAAAGCAGCATCTTCAGCTTTCGGGGTCCTGGACGGTTCCGGGACCCCGGTTCGGAGAACGAGTTCGCAGACGACGAGCACAGCACAGTGGAGGAAAGTGAGGGCCGGCGCGACTCGCTCTTCATCCCGATCCGCGCCCGCGAGCGCCGCAGCAGCTACAGCGGCTACAGCGGCTACAGCCAGTGCAGCCGCTCGTCGCGCATCTTCCCCAGCCTGCGGCGCAGCGTGAAACGCAACAGCACCGTGGACTGCAATGGCGTGGTGTCGCTCATCGGGCCTGGCTCGCACATCGGGCGGCTCCTGCCTGAG
Seq A exon
NA
Seq C2 exon
GCAACAACTGAGGTGGAGATTAAGAAGAAAGGCCCTGGATCGCTCTTAGTCTCCATGGAACAACTCGCCTCCTACGGACGGAAGGACAGAATCAACAGTATAATGAGCGTTGTCACAAACACACTAGTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023033-39-37,40-37-1/2
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=0.311 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF119333=DUF3451=FE(52.0=100)
A:
NA
C2:
PF119333=DUF3451=PD(17.2=86.7)
Other Inclusion Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCACCGTGGACTGCAATG
R:
TAAGAGCGATCCAGGGCCTTT
Band lengths:
120-150
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types