MmuEX6090579 @ mm10
Exon Skipping
Gene
ENSMUSG00000001027 | Scn4a
Description
sodium channel, voltage-gated, type IV, alpha [Source:MGI Symbol;Acc:MGI:98250]
Coordinates
chr11:106322788-106324261:-
Coord C1 exon
chr11:106324208-106324261
Coord A exon
chr11:106323876-106324013
Coord C2 exon
chr11:106322788-106322892
Length
138 bp
Sequences
Splice sites
3' ss Seq
GTGTGTACCCCATCCTGCAGAAA
3' ss Score
8.08
5' ss Seq
AAGATGAGT
5' ss Score
2.29
Exon sequences
Seq C1 exon
GCCACTTTCAAGGGTTGGATGGACATCATGTATGCAGCTGTGGACTCCCGGGAG
Seq A exon
AAAGAGGAGCAGCCAGACTACGAGGTGAACCTCTACATGTACCTTTACTTCGTCATCTTTATCATCTTCGGCTCCTTCTTCACCCTCAATCTCTTCATTGGCGTCATCATTGACAACTTCAACCAACAGAAGAAGAAG
Seq C2 exon
TTTGGAGGGAAAGACATCTTCATGACAGAGGAACAGAAGAAATACTACAATGCGATGAAGAAGCTTGGCTCCAAGAAGCCCCAGAAGCCAATCCCCCGGCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001027-'26-27,'26-26,28-27=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=FE(7.5=100)
A:
PF0052026=Ion_trans=PD(15.4=76.1)
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:
GCCACTTTCAAGGGTTGGATG
R:
CTGAGGCCGGGGGATTGG
Band lengths:
159-297
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