MmuEX6090567 @ mm10
Exon Skipping
Gene
ENSMUSG00000001027 | Scn4a
Description
sodium channel, voltage-gated, type IV, alpha [Source:MGI Symbol;Acc:MGI:98250]
Coordinates
chr11:106341422-106344033:-
Coord C1 exon
chr11:106343892-106344033
Coord A exon
chr11:106342311-106342520
Coord C2 exon
chr11:106341422-106341575
Length
210 bp
Sequences
Splice sites
3' ss Seq
CCTTCTCTTCGCATCCCCAGACC
3' ss Score
9.92
5' ss Seq
AAGGTGTGG
5' ss Score
5.28
Exon sequences
Seq C1 exon
GCACTGCCCTGAGGGCTACGAATGCATGAAGGCTGGGAGGAACCCCAACTATGGCTACACCAGCTACGACACCTTCAGCTGGGCCTTCCTGGCTCTCTTCCGTCTCATGACGCAGGACTACTGGGAGAACCTTTTCCAGCTG
Seq A exon
ACCCTTCGAGCCGCTGGCAAGACCTACATGATCTTCTTTGTGGTCATCATCTTCCTGGGTTCCTTCTACCTCATCAATCTGATCCTGGCGGTGGTGGCCATGGCATATGCTGAGCAGAATGAGGCTACCCTGGCCGAAGACCAGGAGAAAGAGGAGGAGTTCCAACAGATGCTTGAAAAATTCAAAAAACATCAGGAGGAACTGGAAAAG
Seq C2 exon
GCGAAGGCTGCCCAGGCTCTGGAAGGTGGAGAGGAGGCAGATGGGGACCCAACCCACAGCAAAGACTGCAATGGTAGCCTGGATACATCCGGGGAGAAGGGGCCCCCAAGGCCAAGCTGCAGCGCAGAGAGTGCCATCTCAGATGCTATGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001027-'12-11,'12-10,13-11=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=0.143 C2=0.788
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(16.7=100)
A:
PF0052026=Ion_trans=PD(11.0=44.3)
C2:
NO
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:
CCTGAGGGCTACGAATGCATG
R:
CCTCCATAGCATCTGAGATGGC
Band lengths:
289-499
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