MmuEX6101683 @ mm10
Exon Skipping
Gene
ENSMUSG00000057182 | Scn3a
Description
sodium channel, voltage-gated, type III, alpha [Source:MGI Symbol;Acc:MGI:98249]
Coordinates
chr2:65508462-65521029:-
Coord C1 exon
chr2:65520823-65521029
Coord A exon
chr2:65514472-65514762
Coord C2 exon
chr2:65508462-65508662
Length
291 bp
Sequences
Splice sites
3' ss Seq
CTTGCCTTGATTCTCAACAGGCG
3' ss Score
9.77
5' ss Seq
CAGGTATCG
5' ss Score
9.18
Exon sequences
Seq C1 exon
ACATTACGTGCAGCTGGGAAAACCTACATGATCTTTTTCGTCCTGGTAATTTTCTTGGGCTCATTTTATTTGGTGAACTTGATCCTGGCTGTGGTGGCCATGGCCTATGAGGAACAAAATCAGGCCACACTGGAGGAGGCTGAGCAGAAAGAGGCGGAGTTTCAGCAGATGTTGGAGCAGTTGAAAAAGCAGCAAGAGGAGGCTCAG
Seq A exon
GCGGTGGCAGCTGCCTCAGCAGCGTCCAGAGACTTCAGTGGGATAGGAGGGTTAGGAGAACTTCTGGAGAGTTCTTCAGAAGCTTCCAAGTTGAGCTCCAAGAGTGCCAAGGAGTGGAGGAATCGGAGGAAGAAGAGGAGACAGAGGGAGCACTTGGAGGGAAACCACAGACCCGAAGGAGACAGGTTTCCCAAGTCGGAATCAGAAGACAGCGTCAAGCGAAGGAGTTTCCTGTTCTCCCTGGATGGGAACCCGCTGAGCGGCGACAAGAAGCTGTGCTCTCCCCATCAG
Seq C2 exon
TCTCTCTTGAGTATCCGTGGCTCCCTGTTTTCCCCAAGACGCAATAGCAAAACGAGCATTTTCAGCTTCAGAGGTCGGGCGAAGGACGTGGGGTCTGAGAATGACTTTGCGGATGATGAACACAGCACCTTTGAAGATAGCGAGAGCAGGAGAGACTCACTGTTTGTGCCGCACAGACCTGGAGAGCGACGCAACAGTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057182-'14-17,'14-16,16-17=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.116 A=0.474 C2=0.597
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(11.6=44.9)
A:
PF119333=DUF3451=PU(50.4=73.2)
C2:
PF119333=DUF3451=FE(46.8=100)
Main Skipping Isoform:
ENSMUST00000066432fB16323
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCAGCTGGGAAAACCTACA
R:
ATTCTCAGACCCCACGTCCTT
Band lengths:
302-593
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