MmuEX6069817 @ mm10
Exon Skipping
Gene
ENSMUSG00000034115 | Scn11a
Description
sodium channel, voltage-gated, type XI, alpha [Source:MGI Symbol;Acc:MGI:1345149]
Coordinates
chr9:119803336-119805800:-
Coord C1 exon
chr9:119805659-119805800
Coord A exon
chr9:119804373-119804570
Coord C2 exon
chr9:119803336-119803509
Length
198 bp
Sequences
Splice sites
3' ss Seq
CCGTGTTCTGCCCCTTGCAGATC
3' ss Score
11.78
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
Exon sequences
Seq C1 exon
ATCCTGCCCCGATGGTTCCACGTGCAATAAAACCACATTTAACCCAGATTATAATTATACAAACTTTGACAGCTTTGGCTGGTCTTTTCTCGCCATGTTCCGGGTTATGACTCAAGACTCCTGGGAGAAGCTTTATCGACAG
Seq A exon
ATCCTTCGCACCTCCGGGATCTACTTTGTCTTCTTCTTCGTGGTCGTCATCTTCCTGGGCTCTTTCTACCTGCTTAACTTAACCCTGGCTGTCGTCACCATGGCTTACGAGGAACAGAACAGAAATGTCGCTGCCGAGACAGAGGCCAAGGAGAAGATGTTTCAGGAAGCCCAGCAGCTGTTGAGGGAGGAAAAGGAG
Seq C2 exon
GCTCTGGTTGCCATGGGAATTGACAGAACTTCCCTTAATTCCCTCCAAGCTTCGTCCTTTTCCCCAAAGAAGAGGAAGTTTTTTGGCAGTAAGACAAGAAAGTCCTTCTTTATGAGAGGGTCCAAGACAGCCCGAGCCTCAGCGTCCGATTCAGAGGACGATGCCTCTAAAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034115-'10-10,'10-9,11-10=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=0.045 C2=0.207
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(19.7=100)
A:
PF0052026=Ion_trans=PD(13.0=47.0)
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:
ACAAACTTTGACAGCTTTGGCT
R:
GCATCGTCCTCTGAATCGGAC
Band lengths:
248-446
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