MmuEX6069806 @ mm10
Exon Skipping
Gene
ENSMUSG00000034533 | Scn10a
Description
sodium channel, voltage-gated, type X, alpha [Source:MGI Symbol;Acc:MGI:108029]
Coordinates
chr9:119616700-119618897:-
Coord C1 exon
chr9:119618844-119618897
Coord A exon
chr9:119617677-119617814
Coord C2 exon
chr9:119616700-119616804
Length
138 bp
Sequences
Splice sites
3' ss Seq
CCTGTTTTATTTGACCACAGATC
3' ss Score
8.85
5' ss Seq
AAGATAAGT
5' ss Score
2.82
Exon sequences
Seq C1 exon
GCAACCTTCAAAGGCTGGATGGACATTATGTATGCAGCTGTCGATTCTCGAGAT
Seq A exon
ATCAACAGTCAGCCCAATTGGGAGGAGAGCCTGTACATGTACCTATACTTCGTCGTCTTCATCATTTTCGGTGGCTTCTTCACGCTGAATCTCTTTGTCGGGGTCATCATTGACAACTTCAATCAACAGAAAAAAAAG
Seq C2 exon
CTAGGGGGCCAGGACATCTTCATGACAGAGGAGCAGAAGAAGTACTACAATGCCATGAAGAAGCTGGGCTCCAAGAAACCCCAGAAGCCCATCCCACGGCCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034533-'28-30,'28-29,29-30=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(7.4=100)
A:
PF0052026=Ion_trans=PD(15.2=76.1)
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCAAAGGCTGGATGGACA
R:
CAAAGGCCGTGGGATGGG
Band lengths:
155-293
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