MmuEX6056585 @ mm10
Exon Skipping
Gene
ENSMUSG00000023033 | Scn8a
Description
sodium channel, voltage-gated, type VIII, alpha [Source:MGI Symbol;Acc:MGI:103169]
Coordinates
chr15:101002034-101011190:+
Coord C1 exon
chr15:101002034-101002166
Coord A exon
chr15:101008053-101008291
Coord C2 exon
chr15:101011017-101011190
Length
239 bp
Sequences
Splice sites
3' ss Seq
TTGTTCTTTGCTCTCTCCAGAGC
3' ss Score
9.83
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
Exon sequences
Seq C1 exon
GCAACAACTGAGGTGGAGATTAAGAAGAAAGGCCCTGGATCGCTCTTAGTCTCCATGGAACAACTCGCCTCCTACGGACGGAAGGACAGAATCAACAGTATAATGAGCGTTGTCACAAACACACTAGTGGAAG
Seq A exon
AGCTGGAAGAGTCTCAGAGAAAGTGCCCACCATGCTGGTATAAGTTTGCCAATACTTTCCTCATCTGGGAGTGTCACCCCTACTGGATAAAACTGAAGGAGATTGTGAACCTGATCGTCATGGACCCTTTCGTAGACTTAGCCATAACCATCTGCATTGTCCTGAACACACTATTTATGGCAATGGAGCACCATCCCATGACGCCACAATTCGAACATGTCCTGGCCGTAGGGAACCTG
Seq C2 exon
GTGTTCACTGGGATCTTCACGGCGGAAATGTTCCTGAAGCTCATAGCCATGGATCCCTACTATTACTTCCAAGAAGGCTGGAACATTTTTGACGGATTTATCGTCTCCCTCAGTTTAATGGAGCTGGGCCTTGCAGACGTGGAGGGGCTCTCAGTGCTGCGATCTTTCCGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023033_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF119333=DUF3451=PD(17.2=86.7)
A:
PF0052026=Ion_trans=PU(1.6=3.8)
C2:
PF0052026=Ion_trans=FE(30.0=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAACAACTGAGGTGGAGATT
R:
AAAGATCGCAGCACTGAGAGC
Band lengths:
300-539
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