MmuEX6056588 @ mm10
Exon Skipping
Gene
ENSMUSG00000023033 | Scn8a
Description
sodium channel, voltage-gated, type VIII, alpha [Source:MGI Symbol;Acc:MGI:103169]
Coordinates
chr15:100972754-100984045:+
Coord C1 exon
chr15:100972754-100972960
Coord A exon
chr15:100974423-100974716
Coord C2 exon
chr15:100983689-100984045
Length
294 bp
Sequences
Splice sites
3' ss Seq
TGCTGTGGTCCCTTTCCTAGGCT
3' ss Score
9.25
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
Exon sequences
Seq C1 exon
ACCTTACGAGCGGCTGGGAAAACGTACATGATCTTCTTTGTCTTGGTGATCTTCGTGGGTTCTTTCTATTTGGTGAACTTGATCTTGGCTGTGGTGGCCATGGCTTACGAAGAGCAGAACCAGGCAACACTGGAGGAGGCAGAGCAGAAAGAGGCAGAGTTCAAGGCGATGCTGGAGCAGCTCAAGAAGCAGCAGGAGGAGGCGCAG
Seq A exon
GCTGCTGCAATGGCCACTTCGGCGGGCACCGTCTCAGAAGATGCCATTGAAGAAGAAGGGGAAGATGGGGTAGGCTCTCCGAGGAGCTCATCTGAGCTGTCTAAACTCAGTTCCAAGAGCGCGAAGGAGCGTCGGAACCGACGGAAGAAGAGGAAGCAGAAGGAGCTCTCTGAAGGGGAGGAGAAGGGGGACCCCGAGAAGGTGTTTAAGTCAGAGTCGGAAGATGGCATGAGAAGGAAGGCCTTCCGGCTGCCAGACAATAGGATAGGGAGGAAATTTTCCATCATGAATCAG
Seq C2 exon
TCGCTGCTCAGCATCCCAGGCTCGCCCTTCCTTTCCCGACACAACAGCAAAAGCAGCATCTTCAGCTTTCGGGGTCCTGGACGGTTCCGGGACCCCGGTTCGGAGAACGAGTTCGCAGACGACGAGCACAGCACAGTGGAGGAAAGTGAGGGCCGGCGCGACTCGCTCTTCATCCCGATCCGCGCCCGCGAGCGCCGCAGCAGCTACAGCGGCTACAGCGGCTACAGCCAGTGCAGCCGCTCGTCGCGCATCTTCCCCAGCCTGCGGCGCAGCGTGAAACGCAACAGCACCGTGGACTGCAATGGCGTGGTGTCGCTCATCGGGCCTGGCTCGCACATCGGGCGGCTCCTGCCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023033-'36-36,'36-35,37-36
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.072 A=0.857 C2=0.306
Domain overlap (PFAM):
C1:
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)
A:
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)
C2:
PF0310514=SPX=PD(28.9=44.2),PF119333=DUF3451=FE(60.7=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCCATGGCTTACGAAGAG
R:
GATCGGGATGAAGAGCGAGTC
Band lengths:
294-588
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