MmuEX6090562 @ mm9
Exon Skipping
Gene
ENSMUSG00000001027 | Scn4a
Description
sodium channel, voltage-gated, type IV, alpha [Source:MGI Symbol;Acc:MGI:98250]
Coordinates
chr11:106209071-106210108:-
Coord C1 exon
chr11:106210017-106210108
Coord A exon
chr11:106209586-106209714
Coord C2 exon
chr11:106209071-106209162
Length
129 bp
Sequences
Splice sites
3' ss Seq
ACCGGCCCTCTTCTCTCCAGGTA
3' ss Score
11.76
5' ss Seq
GGCGTGAGC
5' ss Score
2.44
Exon sequences
Seq C1 exon
ACGCTGTTCAGCATGTTCATCATGATCACCATCTTGACCAACTGCGTGTTCATGACCATGAGCAACCCGCCTTCTTGGTCCAAGGACGTGGA
Seq A exon
GTACACCTTCACAGGGATCTACACCTTTGAGTCCCTCATTAAGATGCTGGCCCGAGGCTTTTGCATTGATGACTTCACATTCCTCCGAGACCCCTGGAACTGGCTGGACTTCAGTGTCATCACAATGGC
Seq C2 exon
GTACGTGACAGAGTTTGTGGACTTGGGCAACATCTCAGCCCTGAGGACCTTCCGTGTGCTGCGGGCCCTGAAAACCATCACGGTCATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001027-'4-6,'4-5,5-6=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=PU(0.4=3.2)
A:
PF0052026=Ion_trans=FE(15.3=100)
C2:
PF0052026=Ion_trans=FE(11.0=100)
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:
ACGCTGTTCAGCATGTTCATCA
R:
CTGGGATGACCGTGATGG
Band lengths:
184-313
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: