MmuEX0041263 @ mm9
Exon Skipping
Gene
ENSMUSG00000075318 | Scn2a1
Description
sodium channel, voltage-gated, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:98248]
Coordinates
chr2:65586829-65605504:+
Coord C1 exon
chr2:65586829-65586933
Coord A exon
chr2:65589921-65590191
Coord C2 exon
chr2:65601691-65605504
Length
271 bp
Sequences
Splice sites
3' ss Seq
GCCTGTGTTATTTATTCCAGAAC
3' ss Score
8.89
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
Exon sequences
Seq C1 exon
TTTGGAGGTCAAGACATTTTTATGACAGAAGAACAGAAGAAATACTACAATGCAATGAAGAAGCTAGGCTCAAAGAAACCACAAAAACCGATACCTCGCCCTGCT
Seq A exon
AACAAGTTTCAAGGGATGGTCTTTGATTTTGTAACCAAACAAGTGTTTGACATCAGCATCATGATCCTCATCTGCCTCAACATGGTGACCATGATGGTGGAAACGGACGACCAGAGCCAAGAGATGACCAACATCCTGTATTGGATCAACCTGGTGTTCATCGTCCTGTTCACCGGCGAGTGTGTGCTCAAGCTTATCTCACTCCGTCATTATTATTTCACCATTGGATGGAACATTTTTGATTTTGTGGTGGTCATCCTCTCCATTGTAG
Seq C2 exon
GGATGTTTCTCGCGGAGCTGATAGAGAAGTATTTCGTGTCCCCTACCCTGTTCCGAGTCATCCGCCTGGCCAGGATTGGACGAATCCTACGCCTGATCAAAGGCGCCAAGGGGATCCGCACGCTGCTCTTTGCTCTGATGATGTCCCTTCCTGCGCTGTTTAACATCGGCCTCCTGCTTTTCCTGGTCATGTTCATCTACGCCATCTTTGGGATGTCCAACTTTGCCTACGTTAAGAGGGAAGTTGGGATTGATGACATGTTCAACTTTGAGACCTTTGGCAACAGCATGATCTGCCTGTTCCAAATCACCACTTCTGCGGGCTGGGATGGACTGCTGGCCCCTATACTAAATAGTGGACCTCCCGATTGTGACCCTGAAAAAGATCATCCTGGAAGCTCGGTGAAGGGAGACTGTGGGAACCCATCTGTGGGGATTTTCTTTTTTGTCAGCTACATCATCATATCCTTCCTGGTTGTGGTGAACATGTACATTGCTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075318-'31-32,'31-31,32-32
Average complexity
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=0.226
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(20.4=47.3)
C2:
PF0052026=Ion_trans=PD(79.1=41.9),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:
AAAAACCGATACCTCGCCCTG
R:
TGTTGCCAAAGGTCTCAAAGT
Band lengths:
308-579
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: