MmuEX6101775 @ mm10
Exon Skipping
Gene
ENSMUSG00000075316 | Scn9a
Description
sodium channel, voltage-gated, type IX, alpha [Source:MGI Symbol;Acc:MGI:107636]
Coordinates
chr2:66501613-66508674:-
Coord C1 exon
chr2:66508520-66508674
Coord A exon
chr2:66504849-66505022
Coord C2 exon
chr2:66501613-66501735
Length
174 bp
Sequences
Splice sites
3' ss Seq
AAATGTGAATGTTTCCACAGGCT
3' ss Score
6.99
5' ss Seq
GATGTAAGT
5' ss Score
9.11
Exon sequences
Seq C1 exon
GCTGTGTGAGGAGATTTCCATGCTGCCAAGTTAACATAGACTCCGGGAAAGGGAAAGTTTGGTGGACCATCCGGAAGACCTGCTACAGGATAGTGGAGCACAGCTGGTTTGAAAGCTTCATTGTTCTCATGATCCTGCTCAGCAGTGGAGCTCTG
Seq A exon
GCTTTTGAGGATATATATATTGAAAAGAAAAAGACCATTAAGATTATCCTGGAGTATGCTGACAAGATATTCACCTACATCTTCATTCTGGAAATGCTTCTAAAATGGGTGGCATACGGGTATAAAACATATTTCACTAATGCCTGGTGTTGGCTGGACTTCTTAATTGTTGAT
Seq C2 exon
GTGTCTCTAGTTACTTTAGTAGCCAACACTCTTGGCTACTCAGACCTTGGCCCCATTAAATCTCTACGGACACTGAGGGCCCTAAGACCCCTAAGAGCTTTGTCTAGATTTGAAGGAATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075316-'30-28,'30-27,31-28=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:
PF065128=Na_trans_assoc=PD(20.0=84.6)
A:
PF0052026=Ion_trans=PU(17.0=67.2)
C2:
PF0052026=Ion_trans=FE(17.5=100)
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:
GAGGAGATTTCCATGCTGCCA
R:
CTTAGGGGTCTTAGGGCCCTC
Band lengths:
243-417
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