MmuEX0041255 @ mm10
Exon Skipping
Gene
ENSMUSG00000064329 | Scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:MGI Symbol;Acc:MGI:98246]
Coordinates
chr2:66303592-66319742:-
Coord C1 exon
chr2:66319386-66319742
Coord A exon
chr2:66317804-66318286
Coord C2 exon
chr2:66303592-66303712
Length
483 bp
Sequences
Splice sites
3' ss Seq
TACTTATGTCTGTTTTCAAGGTC
3' ss Score
8.53
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
Exon sequences
Seq C1 exon
CTCCGAGTGTTCAAGTTGGCAAAGTCTTGGCCCACACTGAATATGCTCATTAAGATCATTGGTAACTCGGTGGGAGCACTGGGCAACCTGACTCTGGTGTTGGCCATCATTGTCTTTATTTTTGCCGTGGTTGGCATGCAGCTGTTTGGAAAAAGTTACAAAGATTGTGTCTGCAAAATTGCCACTGACTGCAAACTCCCACGTTGGCACATGAACGACTTCTTCCACTCGTTCCTGATCGTGTTCCGCGTGCTGTGTGGGGAGTGGATAGAGACCATGTGGGACTGCATGGAGGTGGCAGGACAAGCTATGTGCCTTACTGTCTTCATGATGGTCATGGTGATTGGGAACCTTGTG
Seq A exon
GTCTTGAACCTCTTTCTGGCCTTGCTTCTGAGCTCATTTAGTGCAGACAACCTTGCAGCCACTGATGATGACAATGAGATGAACAACCTGCAGATTGCTGTGGACAGGATGCACAAAGGAATAGCTTATGTAAAAAGAAAAATATATGAATTCATTCAACAATCCTTTGTTAAGAAACAGAAGATTCTAGATGAAATTAAGCCACTTGATGATCTAAACAACAGAAAAGACAATTGTATCTCTAACCACACAACAGAAATTGGGAAAGATCTGGACTGTCTGAAAGATGTGAATGGAACCACAAGTGGCATAGGGACGGGCAGCAGTGTGGAGAAGTACATCATTGATGAGAGTGATTATATGTCATTCATAAACAACCCCAGCCTCACTGTGACTGTGCCCATTGCTGTGGGAGAGTCTGACTTTGAGAACTTAAACACAGAAGACTTTAGCAGTGAATCAGATCTAGAAGAAAGCAAAGAG
Seq C2 exon
AAACTCAACGAAAGCAGTAGCTCCTCAGAGGGAAGCACAGTAGACATTGGGGCGCCTGCAGAGGAACAGCCTGTCATTGAACCAGAAGAAACCCTTGAGCCCGAAGCTTGCTTCACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064329-'28-33,'28-28,29-33
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.108 C2=0.744
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(62.1=100)
A:
PF0052026=Ion_trans=PD(4.2=5.0),PF065128=Na_trans_assoc=PU(61.4=85.1)
C2:
PF065128=Na_trans_assoc=FE(17.9=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGACTCTGGTGTTGGCCATC
R:
AATGACAGGCTGTTCCTCTGC
Band lengths:
348-831
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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