MmuEX6090569 @ mm10
Exon Skipping
Gene
ENSMUSG00000001027 | Scn4a
Description
sodium channel, voltage-gated, type IV, alpha [Source:MGI Symbol;Acc:MGI:98250]
Coordinates
chr11:106337060-106341575:-
Coord C1 exon
chr11:106341422-106341575
Coord A exon
chr11:106339154-106339392
Coord C2 exon
chr11:106337060-106337233
Length
239 bp
Sequences
Splice sites
3' ss Seq
GCAATGACCCCCGCCTCCAGAGC
3' ss Score
5.54
5' ss Seq
TTGGTAAGG
5' ss Score
8.92
Exon sequences
Seq C1 exon
GCGAAGGCTGCCCAGGCTCTGGAAGGTGGAGAGGAGGCAGATGGGGACCCAACCCACAGCAAAGACTGCAATGGTAGCCTGGATACATCCGGGGAGAAGGGGCCCCCAAGGCCAAGCTGCAGCGCAGAGAGTGCCATCTCAGATGCTATGGAGG
Seq A exon
AGCTGGAAGAGGCCCATCAGAAGTGCCCCCCATGGTGGTACAAGTGTGCACACAAAGTGCTCATCTGGAACTGCTGTGCCCCGTGGGTGAAGTTCAAGCATATTATCCTCCTGATTGTCATGGACCCCTTTGTGGACCTGGGCATCACCATCTGCATCGTGCTCAACACCCTCTTCATGGCCATGGAGCACTACCCCATGACTGAGCACTTTGACAACGTGCTCTCTGTGGGCAACTTG
Seq C2 exon
GTCTTCACGGGCATCTTCACTGCAGAGATGGTGCTGAAGTTGATTGCTATGGACCCCTACGAATATTTCCAACAGGGCTGGAACATCTTCGACAGCTTCATCGTCACCCTCAGCCTGGTGGAGCTGGGCCTGGCCAACGTGCAGGGCCTATCAGTGCTCCGTTCTTTCCGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001027-'14-13,'14-12,15-13=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.788 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(1.6=3.8)
C2:
PF0052026=Ion_trans=FE(30.0=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGGTGGAGAGGAGGCAGAT
R:
CGGAAAGAACGGAGCACTGAT
Band lengths:
303-542
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