MmuEX6090580 @ mm10
Exon Skipping
Gene
ENSMUSG00000001027 | Scn4a
Description
sodium channel, voltage-gated, type IV, alpha [Source:MGI Symbol;Acc:MGI:98250]
Coordinates
chr11:106321908-106324013:-
Coord C1 exon
chr11:106323876-106324013
Coord A exon
chr11:106322788-106322892
Coord C2 exon
chr11:106321908-106322178
Length
105 bp
Sequences
Splice sites
3' ss Seq
CTGTCTCTGTCCTACTATACTTT
3' ss Score
0.2
5' ss Seq
CAGGTACCA
5' ss Score
7.88
Exon sequences
Seq C1 exon
AAAGAGGAGCAGCCAGACTACGAGGTGAACCTCTACATGTACCTTTACTTCGTCATCTTTATCATCTTCGGCTCCTTCTTCACCCTCAATCTCTTCATTGGCGTCATCATTGACAACTTCAACCAACAGAAGAAGAAG
Seq A exon
TTTGGAGGGAAAGACATCTTCATGACAGAGGAACAGAAGAAATACTACAATGCGATGAAGAAGCTTGGCTCCAAGAAGCCCCAGAAGCCAATCCCCCGGCCTCAG
Seq C2 exon
AACAAGATCCAAGGCATGGTGTACGACTTCGTGACAAAGCAGGTGTTTGACATCTCTATCATGATCCTCATCTGCCTCAACATGGTGACGATGATGGTGGAGACGGATGACCAGAGCCAGCTCAAGGTGGACATCCTGTATAACATCAACATGGTCTTCATTATCGTCTTCACAGGGGAGTGTGTGCTCAAGATGTTTGCCCTGCGCCATTACTACTTCACCATTGGCTGGAATATCTTCGACTTCGTGGTTGTCATCTTGTCCATTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001027-'28-28,'28-27,29-28=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=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(15.4=76.1)
A:
NO
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGAGGAGCAGCCAGACTACG
R:
ATCCGTCTCCACCATCATCGT
Band lengths:
245-350
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