MmuEX6101768 @ mm10
Exon Skipping
Gene
ENSMUSG00000075316 | Scn9a
Description
sodium channel, voltage-gated, type IX, alpha [Source:MGI Symbol;Acc:MGI:107636]
Coordinates
chr2:66536098-66540635:-
Coord C1 exon
chr2:66540297-66540635
Coord A exon
chr2:66537270-66537399
Coord C2 exon
chr2:66536098-66536336
Length
130 bp
Sequences
Splice sites
3' ss Seq
TGATTGCCTTTTTTCCTTAGGGC
3' ss Score
10.2
5' ss Seq
AAGGTATGT
5' ss Score
9.79
Exon sequences
Seq C1 exon
TCACCACTCAGCATTCGTGGGTCCTTGTTTTCTGCCAGGCGCAGCAGCAGAACAAGTCTCTTCAGTTTTAAGGGGCGAGGAAGAGATCTGGGATCTGAAACGGAATTTGCTGATGATGAGCATAGCATTTTTGGAGACAACGAGAGCAGAAGGGGTTCACTATTTGTACCCCATAGACCCCGGGAGCGGCGCAGCAGTAACATCAGCCAGGCCAGTAGGTCCCCACCAGTGCTGCCGGTGAACGGGAAGATGCACAGTGCAGTGGACTGCAATGGCGTGGTGTCGCTTGTTGATGGACCCTCAGCCCTCATGCTCCCCAATGGACAGCTTCTTCCAGAG
Seq A exon
GGCACAACTAATCAGATGCGTAAAAAAAGGCTCTCTAGTTCTTACTTTTTGTCTGAGGACATGCTGAATGACCCACATCTCAGGCAAAGGGCCATGAGCAGAGCAAGCATTCTAACCAACACAGTAGAAG
Seq C2 exon
AACTTGAAGAATCTAGACAAAAATGTCCACCATGGTGGTACAGATTTGCTCACACATTTTTAATCTGGAATTGTTCTCCATATTGGATAAAATTCAAAAAGTTCATCTATTTTATTGTAATGGATCCTTTTGTAGATCTTGCAATTACCATTTGCATAGTTTTAAACACCTTGTTTATGGCTATGGAGCACCATCCAATGACGGATGAATTCAAAAATGTACTTGCAGTCGGGAACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075316-'19-19,'19-18,22-19=AN
Average complexity
A_C2
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.615 A=0.098 C2=0.000
Domain overlap (PFAM):
C1:
PF119333=DUF3451=FE(50.7=100)
A:
PF119333=DUF3451=PD(16.3=81.8)
C2:
PF0052026=Ion_trans=PU(1.6=3.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGTTGATGGACCCTCAGCC
R:
CCGTCATTGGATGGTGCTCC
Band lengths:
258-388
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