MmuEX6090568 @ mm10
Exon Skipping
Gene
ENSMUSG00000001027 | Scn4a
Description
sodium channel, voltage-gated, type IV, alpha [Source:MGI Symbol;Acc:MGI:98250]
Coordinates
chr11:106339154-106342520:-
Coord C1 exon
chr11:106342311-106342520
Coord A exon
chr11:106341422-106341575
Coord C2 exon
chr11:106339154-106339392
Length
154 bp
Sequences
Splice sites
3' ss Seq
TCATCTTTGCTGACTTATAGGCG
3' ss Score
7.41
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
Exon sequences
Seq C1 exon
ACCCTTCGAGCCGCTGGCAAGACCTACATGATCTTCTTTGTGGTCATCATCTTCCTGGGTTCCTTCTACCTCATCAATCTGATCCTGGCGGTGGTGGCCATGGCATATGCTGAGCAGAATGAGGCTACCCTGGCCGAAGACCAGGAGAAAGAGGAGGAGTTCCAACAGATGCTTGAAAAATTCAAAAAACATCAGGAGGAACTGGAAAAG
Seq A exon
GCGAAGGCTGCCCAGGCTCTGGAAGGTGGAGAGGAGGCAGATGGGGACCCAACCCACAGCAAAGACTGCAATGGTAGCCTGGATACATCCGGGGAGAAGGGGCCCCCAAGGCCAAGCTGCAGCGCAGAGAGTGCCATCTCAGATGCTATGGAGG
Seq C2 exon
AGCTGGAAGAGGCCCATCAGAAGTGCCCCCCATGGTGGTACAAGTGTGCACACAAAGTGCTCATCTGGAACTGCTGTGCCCCGTGGGTGAAGTTCAAGCATATTATCCTCCTGATTGTCATGGACCCCTTTGTGGACCTGGGCATCACCATCTGCATCGTGCTCAACACCCTCTTCATGGCCATGGAGCACTACCCCATGACTGAGCACTTTGACAACGTGCTCTCTGTGGGCAACTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001027-'13-12,'13-11,14-12
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=0.788 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(11.0=44.3)
A:
NO
C2:
PF0052026=Ion_trans=PU(1.6=3.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTGGCAAGACCTACATGAT
R:
GTGTGCACACTTGTACCACCA
Band lengths:
252-406
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