MmuEX0041263 @ mm10
Exon Skipping
Gene
ENSMUSG00000075318 | Scn2a
Description
sodium channel, voltage-gated, type II, alpha [Source:MGI Symbol;Acc:MGI:98248]
Coordinates
chr2:65748772-65767447:+
Coord C1 exon
chr2:65748772-65748876
Coord A exon
chr2:65751864-65752130
Coord C2 exon
chr2:65763634-65767447
Length
267 bp
Sequences
Splice sites
3' ss Seq
GCCTGTGTTATTTATTCCAGAAC
3' ss Score
8.89
5' ss Seq
ATTGTAGGT
5' ss Score
3.34
Exon sequences
Seq C1 exon
TTTGGAGGTCAAGACATTTTTATGACAGAAGAACAGAAGAAATACTACAATGCAATGAAGAAGCTAGGCTCAAAGAAACCACAAAAACCGATACCTCGCCCTGCT
Seq A exon
AACAAGTTTCAAGGGATGGTCTTTGATTTTGTAACCAAACAAGTGTTTGACATCAGCATCATGATCCTCATCTGCCTCAACATGGTGACCATGATGGTGGAAACGGACGACCAGAGCCAAGAGATGACCAACATCCTGTATTGGATCAACCTGGTGTTCATCGTCCTGTTCACCGGCGAGTGTGTGCTCAAGCTTATCTCACTCCGTCATTATTATTTCACCATTGGATGGAACATTTTTGATTTTGTGGTGGTCATCCTCTCCATT
Seq C2 exon
GGATGTTTCTCGCGGAGCTGATAGAGAAGTATTTCGTGTCCCCTACCCTGTTCCGAGTCATCCGCCTGGCCAGGATTGGACGAATCCTACGCCTGATCAAAGGCGCCAAGGGGATCCGCACGCTGCTCTTTGCTCTGATGATGTCCCTTCCTGCGCTGTTTAACATCGGCCTCCTGCTTTTCCTGGTCATGTTCATCTACGCCATCTTTGGGATGTCCAACTTTGCCTACGTTAAGAGGGAAGTTGGGATTGATGACATGTTCAACTTTGAGACCTTTGGCAACAGCATGATCTGCCTGTTCCAAATCACCACTTCTGCGGGCTGGGATGGACTGCTGGCCCCTATACTAAATAGTGGACCTCCCGATTGTGACCCTGAAAAAGATCATCCTGGAAGCTCGGTGAAGGGAGACTGTGGGAACCCATCTGTGGGGATTTTCTTTTTTGTCAGCTACATCATCATATCCTTCCTGGTTGTGGTGAACATGTACATTGCTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075318-'45-44,'45-43,46-44
Average complexity
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=0.226
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
Rat
(rn6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAACCGATACCTCGCCCTG
R:
TGTTGCCAAAGGTCTCAAAGT
Band lengths:
308-575
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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