MmuEX6056590 @ mm10
Exon Skipping
Gene
ENSMUSG00000023033 | Scn8a
Description
sodium channel, voltage-gated, type VIII, alpha [Source:MGI Symbol;Acc:MGI:103169]
Coordinates
chr15:100970204-100972960:+
Coord C1 exon
chr15:100970204-100970267
Coord A exon
chr15:100971520-100971661
Coord C2 exon
chr15:100972754-100972960
Length
142 bp
Sequences
Splice sites
3' ss Seq
GTGTCCCTTTCCTTCTTCAGGCA
3' ss Score
11.24
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
Exon sequences
Seq C1 exon
CAAACTTTTACATGGTCCCTGGCATGCTAGAACCCTTGCTCTGCGGGAACAGCTCTGACGCCGG
Seq A exon
GCAATGCCCAGAGGGGTTCCAGTGCATGAAAGCAGGAAGAAATCCCAACTACGGCTACACCAGCTTCGACACCTTCAGCTGGGCCTTCCTGGCACTGTTCCGCCTCATGACTCAGGACTACTGGGAGAACTTATACCAGCTG
Seq C2 exon
ACCTTACGAGCGGCTGGGAAAACGTACATGATCTTCTTTGTCTTGGTGATCTTCGTGGGTTCTTTCTATTTGGTGAACTTGATCTTGGCTGTGGTGGCCATGGCTTACGAAGAGCAGAACCAGGCAACACTGGAGGAGGCAGAGCAGAAAGAGGCAGAGTTCAAGGCGATGCTGGAGCAGCTCAAGAAGCAGCAGGAGGAGGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023033-'31-35,'31-32,35-35=AN
Average complexity
A_S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.072
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(8.4=100),PF057587=Ycf1=FE(7.2=100)
A:
PF0052026=Ion_trans=FE(18.7=100),PF057587=Ycf1=FE(16.2=100)
C2:
PF0052026=Ion_trans=PD(12.4=44.9),PF057587=Ycf1=FE(23.4=100),PF0043013=ATP-synt_B=PU(72.1=89.9),PF0310514=SPX=PU(20.3=58.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGCATGCTAGAACCCTTG
R:
CTCCTCCTGCTGCTTCTTGAG
Band lengths:
248-390
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