MmuEX1029334 @ mm10
Exon Skipping
Gene
ENSMUSG00000075318 | Scn2a
Description
sodium channel, voltage-gated, type II, alpha [Source:MGI Symbol;Acc:MGI:98248]
Coordinates
chr2:65688608-65702064:+
Coord C1 exon
chr2:65688608-65688814
Coord A exon
chr2:65690045-65690332
Coord C2 exon
chr2:65701717-65702064
Length
288 bp
Sequences
Splice sites
3' ss Seq
GCTTACATTGTGCCTTCTAGGCA
3' ss Score
7.76
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
Exon sequences
Seq C1 exon
ACCTTGCGTGCTGCTGGGAAAACATATATGATATTTTTCGTGCTTGTGATTTTCTTGGGCTCATTCTACCTAATAAATTTGATCCTGGCTGTGGTGGCCATGGCCTATGAAGAACAGAACCAGGCCACGCTGGAGGAAGCTGAACAGAAGGAGGCAGAGTTTCAGCAGATGCTGGAGCAACTTAAGAAGCAGCAAGAAGAAGCTCAG
Seq A exon
GCAGCAGCTGCAGCAGCGTCTGCAGAATCCAGAGACTTCAGTGGAGCAGGTGGGATAGGTGTTTTCTCGGAGAGTTCTTCCGTAGCTTCAAAGTTAAGTTCCAAGAGTGAAAAGGAGCTGAAAAACAGAAGGAAGAAAAAGAAACAGAAAGAGCAGGCTGGAGAGGAAGAGAAGGAAGATGCTGTGCGGAAATCTGCCTCTGAAGACAGCATACGAAAGAAAGGCTTCCGGTTTTCCCTAGAAGGGAGTAGACTGACCTACGAGAAGAGGTTTTCCTCTCCACACCAG
Seq C2 exon
TCTCTCTTGAGCATCCGAGGCTCCCTTTTTTCTCCGAGACGCAACAGTAGAGCAAGCCTTTTCAGCTTCAAAGGTCGGGTGAAGGATATTGGTTCTGAAAATGACTTTGCGGACGATGAACACAGCACGTTTGAGGACAACGACAGCAGGAGAGACTCTCTATTTGTACCACACAGACATGGAGAAAGGCGTCCCAGCAACGTTAGCCAGGCCAGCCGTGCCTCCCGGGGGATACCCACTCTACCCATGAATGGGAAGATGCACAGTGCAGTGGACTGCAACGGTGTGGTCTCCCTAGTTGGAGGCCCTTCTGCTCTCACATCTCCTGTGGGGCAGCTACTACCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075318-'18-16,'18-14,20-16
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=0.324 C2=0.598
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(11.6=44.9),PF0253517=Zip=FE(40.7=100),PF0043013=ATP-synt_B=PU(79.5=89.9)
A:
PF0253517=Zip=PD(44.9=78.1),PF0043013=ATP-synt_B=PD(17.9=14.6),PF119333=DUF3451=PU(30.8=71.9)
C2:
PF119333=DUF3451=FE(51.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGAACAGAACCAGGCCACG
R:
GGACGCCTTTCTCCATGTCTG
Band lengths:
293-581
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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