MmuALTD0012450-1/3 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000064329 | Scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:MGI Symbol;Acc:MGI:98246]
Coordinates
chr2:66323312-66324951:-
Coord C1 exon
chr2:66324655-66324951
Coord A exon
NA
Coord C2 exon
chr2:66323312-66323444
Length
0 bp
Sequences
Splice sites
5' ss Seq
TTGGTTGGT
5' ss Score
2.01
3' ss Seq
CCTTAGCATTTGCTTTGCAGGGA
3' ss Score
6.37
Exon sequences
Seq C1 exon
TCTCTGTTAAGCATTCGTGGTTCCCTGTTCTCCCCAAGACGCAATAGCAGAACAAGTCTTTTCAGCTTTAGAGGGCGAGCCAAGGATGTGGGGTCTGAGAATGACTTTGCTGATGATGAACACAGCACCTTTGAGGATAATGAGAGCCGTAGAGACTCACTGTTCGTTCCCCGAAGACACGGAGAGCGACGCAACAGTAACCTGAGCCAGACCAGCAGGTCCTCCCGAATGCTGGCGGTGTTTCCAGCCAATGGGAAGATGCACAGCACGGTGGATTGCAATGGTGTGGTTTCCTTG
Seq A exon
NA
Seq C2 exon
GGAACAACCACTGAAACTGAGATGAGAAAGAGGAGGTCGAGCTCTTTCCATGTTTCCATGGACTTTCTAGAAGATCCTTCCCAGAGGCAAAGGGCAATGAGCATAGCCAGCATCTTAACAAATACAGTAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064329-22-24,23-24,24-24-1/3
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=0.632 A=NA C2=0.218
Domain overlap (PFAM):
C1:
PF119333=DUF3451=FE(47.1=100)
A:
NA
C2:
PF119333=DUF3451=PD(16.4=82.2)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCAATGGGAAGATGCACAG
R:
CCTTTGCCTCTGGGAAGGATC
Band lengths:
145-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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