MmuEX6101759 @ mm9
Exon Skipping
Gene
ENSMUSG00000064329 | Scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:MGI Symbol;Acc:MGI:98246]
Coordinates
chr2:66108838-66118857:-
Coord C1 exon
chr2:66118753-66118857
Coord A exon
chr2:66115619-66115889
Coord C2 exon
chr2:66108838-66112119
Length
271 bp
Sequences
Splice sites
3' ss Seq
GTGTCTTTGTTTCTCTGCAGAAC
3' ss Score
12.36
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
Exon sequences
Seq C1 exon
TTTGGAGGTCAAGACATCTTTATGACAGAAGAACAGAAGAAATACTATAATGCAATGAAGAAATTAGGATCAAAAAAGCCACAAAAGCCTATCCCTCGACCTGGA
Seq A exon
AACAAATTTCAAGGAATGGTTTTTGACTTTGTAACCAGACAAGTGTTTGATATCAGCATCATGATCCTCATCTGTCTGAACATGGTGACCATGATGGTGGAAACGGATGACCAGAGCGATTATGTGACAAGCATTTTGTCACGCATCAACCTGGTGTTCATCGTCCTGTTCACCGGCGAGTGTGTGCTCAAGCTCATCTCGCTCCGCCATTATTATTTCACCATTGGATGGAACATTTTCGATTTTGTGGTGGTCATCCTCTCCATTGTAG
Seq C2 exon
GGATGTTTCTTGCGGAGCTAATAGAAAAGTATTTTGTGTCTCCTACCCTGTTCCGAGTCATCCGCCTGGCCAGGATTGGACGAATCCTACGCCTGATCAAAGGTGCCAAGGGGATCCGCACGCTGCTCTTTGCTCTGATGATGTCCCTTCCTGCGCTGTTTAACATCGGCCTCCTGCTTTTTCTCGTCATGTTCATCTACGCCATCTTTGGGATGTCCAACTTTGCCTATGTTAAGAGGGAAGTTGGGATTGATGACATGTTCAACTTTGAGACCTTCGGCAACAGCATGATCTGCCTGTTCCAAATCACCACCTCTGCGGGCTGGGATGGACTGCTGGCCCCCATCCTCAACAGCAAACCCCCTGACTGTGACCCTAATAAAGTTAACCCTGGAAGCTCGGTGAAGGGAGACTGTGGGAACCCATCTGTGGGGATTTTCTTTTTTGTCAGCTACATCATCATATCCTTCCTGGTTGTGGTGAACATGTACATTGCTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064329-'31-32,'31-31,32-32=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.122
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(20.4=47.3)
C2:
PF0052026=Ion_trans=PD(79.1=42.5),PF0061222=IQ=WD(100=5.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGCCTATCCCTCGACCTGG
R:
CGAAGGTCTCAAAGTTGAACATGT
Band lengths:
301-572
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: