MmuEX0041278 @ mm10
Exon Skipping
Gene
ENSMUSG00000023033 | Scn8a
Description
sodium channel, voltage-gated, type VIII, alpha [Source:MGI Symbol;Acc:MGI:103169]
Coordinates
chr15:100936271-100969242:+
Coord C1 exon
chr15:100936271-100936600
Coord A exon
chr15:100957029-100957118
Coord C2 exon
chr15:100969021-100969242
Length
90 bp
Sequences
Splice sites
3' ss Seq
GCCCCTTAACTCCTCTCTACAGT
3' ss Score
-1.2
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
Exon sequences
Seq C1 exon
AGCCGACCTGTCCCGGACTCAGCATAACTAACGAAGCTGCTGCAGAATGAGAAGATGGCAGCGCGGCTGCTCGCACCACCAGGCCCCGACAGTTTCAAGCCTTTCACCCCCGAGTCGCTGGCAAACATCGAGAGGCGCATCGCCGAGAGCAAGCTCAAGAAACCACCCAAGGCGGATGGCAGCCACCGGGAGGACGATGAAGACAGCAAGCCCAAGCCAAACAGTGACCTGGAGGCGGGGAAGAGTTTGCCTTTCATCTACGGGGACATCCCGCAAGGCCTGGTTGCGGTTCCCCTGGAGGACTTTGACCCGTACTATTTGACGCAGAAA
Seq A exon
AGTCTTCAGCATGATCATCATGTGCACCATCCTGACCAACTGTGTATTCATGACTTTTAGTAACCCTCCCGAATGGTCCAAGAATGTGGA
Seq C2 exon
GCCTGAAGACAATCGTGGGCGCCCTCATCCAGTCTGTGAAGAAGCTGTCAGACGTGATGATCCTGACGGTGTTCTGCCTGAGTGTCTTCGCCCTGATTGGCCTGCAGCTCTTCATGGGGAACCTTCGAAACAAGTGTGTCGTGTGGCCCATAAACTTCAACGAGAGCTATCTGGAGAACGGCACCAGAGGCTTCGACTGGGAGGAGTATATCAACAATAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023033_MULTIEX1-2/5=C1-C2
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.434 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(0.8=6.5)
C2:
PF0052026=Ion_trans=FE(29.5=100),PF057587=Ycf1=PU(19.0=73.3)
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:
TGCCTTTCATCTACGGGGACA
R:
CCAATCAGGGCGAAGACACTC
Band lengths:
183-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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