MmuEX6101708 @ mm9
Exon Skipping
Gene
ENSMUSG00000075318 | Scn2a1
Description
sodium channel, voltage-gated, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:98248]
Coordinates
chr2:65519055-65520651:+
Coord C1 exon
chr2:65519055-65519144
Coord A exon
chr2:65520054-65520182
Coord C2 exon
chr2:65520560-65520651
Length
129 bp
Sequences
Splice sites
3' ss Seq
AACTCGGCTATTTTCCTCAGGTA
3' ss Score
6.37
5' ss Seq
TGCGTAAGT
5' ss Score
9.73
Exon sequences
Seq C1 exon
TTTATTCAATGTGCTTATCATGTGCACAATTCTTACCAACTGTGTATTTATGACCATGAGCAACCCTCCAGACTGGACAAAGAATGTGGA
Seq A exon
GTATACTTTTACAGGAATTTATACTTTTGAATCACTTATTAAAATACTTGCAAGGGGCTTTTGTCTAGAAGATTTCACATTTCTACGGGATCCCTGGAACTGGCTGGATTTCACAGTCATTACCTTTGC
Seq C2 exon
GTATGTAACAGAATTTGTAAACCTAGGCAATGTTTCAGCTCTTCGAACTTTCAGAGTCTTGAGAGCTTTGAAAACTATTTCTGTAATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075318-'5-6,'5-4,6-6=AN
Average complexity
A_C3
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:
PF0052026=Ion_trans=PU(0.7=6.5)
A:
PF0052026=Ion_trans=FE(16.0=100)
C2:
PF0052026=Ion_trans=FE(11.6=100)
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:
ATTCAATGTGCTTATCATGTGCA
R:
ACAGAAATAGTTTTCAAAGCTCTCA
Band lengths:
171-300
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: