MmuEX6090581 @ mm10
Exon Skipping
Gene
ENSMUSG00000001027 | Scn4a
Description
sodium channel, voltage-gated, type IV, alpha [Source:MGI Symbol;Acc:MGI:98250]
Coordinates
chr11:106321908-106322892:-
Coord C1 exon
chr11:106322788-106322892
Coord A exon
chr11:106322095-106322178
Coord C2 exon
chr11:106321908-106322003
Length
84 bp
Sequences
Splice sites
3' ss Seq
CATGTTCCGTGTCACTGCAGAAC
3' ss Score
9.36
5' ss Seq
ATGGTGACG
5' ss Score
2.49
Exon sequences
Seq C1 exon
TTTGGAGGGAAAGACATCTTCATGACAGAGGAACAGAAGAAATACTACAATGCGATGAAGAAGCTTGGCTCCAAGAAGCCCCAGAAGCCAATCCCCCGGCCTCAG
Seq A exon
AACAAGATCCAAGGCATGGTGTACGACTTCGTGACAAAGCAGGTGTTTGACATCTCTATCATGATCCTCATCTGCCTCAACATG
Seq C2 exon
GGGAGTGTGTGCTCAAGATGTTTGCCCTGCGCCATTACTACTTCACCATTGGCTGGAATATCTTCGACTTCGTGGTTGTCATCTTGTCCATTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001027_CASSETTE1
Average complexity
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:
NO
A:
PF0052026=Ion_trans=PU(20.4=47.3)
C2:
PF0052026=Ion_trans=PU(20.4=47.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGGAAAGACATCTTCATGACA
R:
TGACAACCACGAAGTCGAAGA
Band lengths:
183-267
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