MmuEX6056587 @ mm10
Exon Skipping
Gene
ENSMUSG00000023033 | Scn8a
Description
sodium channel, voltage-gated, type VIII, alpha [Source:MGI Symbol;Acc:MGI:103169]
Coordinates
chr15:100974423-101002166:+
Coord C1 exon
chr15:100974423-100974716
Coord A exon
chr15:100983689-100984075
Coord C2 exon
chr15:101002034-101002166
Length
387 bp
Sequences
Splice sites
3' ss Seq
TCTCATCCCCCACCACCCAGTCG
3' ss Score
5.25
5' ss Seq
AGTGTAAGG
5' ss Score
5.2
Exon sequences
Seq C1 exon
GCTGCTGCAATGGCCACTTCGGCGGGCACCGTCTCAGAAGATGCCATTGAAGAAGAAGGGGAAGATGGGGTAGGCTCTCCGAGGAGCTCATCTGAGCTGTCTAAACTCAGTTCCAAGAGCGCGAAGGAGCGTCGGAACCGACGGAAGAAGAGGAAGCAGAAGGAGCTCTCTGAAGGGGAGGAGAAGGGGGACCCCGAGAAGGTGTTTAAGTCAGAGTCGGAAGATGGCATGAGAAGGAAGGCCTTCCGGCTGCCAGACAATAGGATAGGGAGGAAATTTTCCATCATGAATCAG
Seq A exon
TCGCTGCTCAGCATCCCAGGCTCGCCCTTCCTTTCCCGACACAACAGCAAAAGCAGCATCTTCAGCTTTCGGGGTCCTGGACGGTTCCGGGACCCCGGTTCGGAGAACGAGTTCGCAGACGACGAGCACAGCACAGTGGAGGAAAGTGAGGGCCGGCGCGACTCGCTCTTCATCCCGATCCGCGCCCGCGAGCGCCGCAGCAGCTACAGCGGCTACAGCGGCTACAGCCAGTGCAGCCGCTCGTCGCGCATCTTCCCCAGCCTGCGGCGCAGCGTGAAACGCAACAGCACCGTGGACTGCAATGGCGTGGTGTCGCTCATCGGGCCTGGCTCGCACATCGGGCGGCTCCTGCCTGAGGTGAAAATAGATAAGGCAGCTACAGACAGT
Seq C2 exon
GCAACAACTGAGGTGGAGATTAAGAAGAAAGGCCCTGGATCGCTCTTAGTCTCCATGGAACAACTCGCCTCCTACGGACGGAAGGACAGAATCAACAGTATAATGAGCGTTGTCACAAACACACTAGTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023033-'37-37,'37-36,40-37
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.857 A=0.320 C2=0.019
Domain overlap (PFAM):
C1:
PF057587=Ycf1=PD(33.1=98.0),PF0043013=ATP-synt_B=PD(25.6=22.4),PF0310514=SPX=FE(49.2=100),PF119333=DUF3451=PU(31.8=68.4)
A:
PF0310514=SPX=PD(28.9=44.2),PF119333=DUF3451=FE(60.7=100)
C2:
PF119333=DUF3451=PD(17.2=86.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCACCGTCTCAGAAGATG
R:
GAGGCGAGTTGTTCCATGGAG
Band lengths:
342-729
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