MmuEX6101766 @ mm9
Exon Skipping
Gene
ENSMUSG00000075316 | Scn9a
Description
sodium channel, voltage-gated, type IX, alpha [Source:MGI Symbol;Acc:MGI:107636]
Coordinates
chr2:66378321-66385286:-
Coord C1 exon
chr2:66385080-66385286
Coord A exon
chr2:66381092-66381376
Coord C2 exon
chr2:66378321-66378692
Length
285 bp
Sequences
Splice sites
3' ss Seq
GGGTTGTCTTGGTCCAACAGGCG
3' ss Score
7.36
5' ss Seq
CAGGTACTG
5' ss Score
9.04
Exon sequences
Seq C1 exon
ACACTGCGTGCTGCTGGCAAAACCTACATGATTTTCTTTGTCGTGGTGATATTTCTGGGATCCTTTTACCTGATAAACTTGATCCTGGCTGTGGTAGCCATGGCGTACGAGGAACAGAACCAGGCCAACATCGAAGAAGCTAAACAGAAAGAGTTAGAATTTCAGCAGATGTTAGACCGACTCAAAAAAGAGCAGGAAGAAGCCGAG
Seq A exon
GCGATCGCTGCAGCCGCTGCTGAGTACACGAGTTTAGGGCGGAGCAGGATTATGGGACTCTCTGAGAGCTCTTCAGAAACCTCCAGGCTGAGCTCAAAGAGTGCCAAGGAGAGAAGAAACCGAAGAAAGAAAAAAAAACAGAAGCTGTCCAGTGGCGAGGAAAAGGGTGATGATGAGAAGCTGTCCAAGTCAGGGTCAGAGGAAAGCATCCGAAAGAAAAGCTTCCATCTCGGCGTGGAAGGGCACCACCGGGCCAGGGAAAAGAGGCTGTCCACCCCCAACCAG
Seq C2 exon
TCACCACTCAGCATTCGTGGGTCCTTGTTTTCTGCCAGGCGCAGCAGCAGAACAAGTCTCTTCAGTTTTAAGGGGCGAGGAAGAGATCTGGGATCTGAAACGGAATTTGCTGATGATGAGCATAGCATTTTTGGAGACAACGAGAGCAGAAGGGGTTCACTATTTGTACCCCATAGACCCCGGGAGCGGCGCAGCAGTAACATCAGCCAGGCCAGTAGGTCCCCACCAGTGCTGCCGGTGAACGGGAAGATGCACAGTGCAGTGGACTGCAATGGCGTGGTGTCGCTTGTTGATGGACCCTCAGCCCTCATGCTCCCCAATGGACAGCTTCTTCCAGAGGTGATAATAGATAAGGCAACTTCCGACGACAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075316-'16-17,'16-14,18-17=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=0.800 C2=0.602
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(12.5=44.9),PF0253517=Zip=FE(36.0=100)
A:
PF0253517=Zip=FE(49.7=100),PF119333=DUF3451=PU(30.2=73.7)
C2:
PF0253517=Zip=PD(1.1=1.6),PF119333=DUF3451=FE(53.0=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:
CAGGCCAACATCGAAGAAGCT
R:
CTGGCCTGGCTGATGTTACTG
Band lengths:
302-587
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: