MmuEX6101758 @ mm10
Exon Skipping
Gene
ENSMUSG00000064329 | Scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:MGI Symbol;Acc:MGI:98246]
Coordinates
chr2:66277562-66286048:-
Coord C1 exon
chr2:66285911-66286048
Coord A exon
chr2:66280696-66280800
Coord C2 exon
chr2:66277562-66277832
Length
105 bp
Sequences
Splice sites
3' ss Seq
TTTGATTTTTTTTTCTATACTTT
3' ss Score
-0.16
5' ss Seq
GGAGTAAGA
5' ss Score
4.36
Exon sequences
Seq C1 exon
GTTGAACTACAGCCTAAGTATGAGGAAAGCCTGTACATGTATTTGTACTTCGTCATCTTCATCATCTTCGGGTCCTTCTTTACCCTGAACCTGTTTATTGGTGTCATTATCGACAATTTCAACCAGCAAAAGAAGAAG
Seq A exon
TTTGGAGGTCAAGACATCTTTATGACAGAAGAACAGAAGAAATACTATAATGCAATGAAGAAATTAGGATCAAAAAAGCCACAAAAGCCTATCCCTCGACCTGGA
Seq C2 exon
AACAAATTTCAAGGAATGGTTTTTGACTTTGTAACCAGACAAGTGTTTGATATCAGCATCATGATCCTCATCTGTCTGAACATGGTGACCATGATGGTGGAAACGGATGACCAGAGCGATTATGTGACAAGCATTTTGTCACGCATCAACCTGGTGTTCATCGTCCTGTTCACCGGCGAGTGTGTGCTCAAGCTCATCTCGCTCCGCCATTATTATTTCACCATTGGATGGAACATTTTCGATTTTGTGGTGGTCATCCTCTCCATTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064329-'38-42,'38-41,39-42=AN
Average complexity
A_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=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(15.3=76.1)
A:
NO
C2:
PF0052026=Ion_trans=PU(20.4=47.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTCATCTTCATCATCTTCGGGT
R:
GAACACCAGGTTGATGCGTGA
Band lengths:
247-352
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