MmuEX6056582 @ mm10
Exon Skipping
Gene
ENSMUSG00000023033 | Scn8a
Description
sodium channel, voltage-gated, type VIII, alpha [Source:MGI Symbol;Acc:MGI:103169]
Coordinates
chr15:101013239-101016598:+
Coord C1 exon
chr15:101013239-101013595
Coord A exon
chr15:101015624-101016094
Coord C2 exon
chr15:101016481-101016598
Length
471 bp
Sequences
Splice sites
3' ss Seq
GGCGGCTGCTGCTTCTATAGGTG
3' ss Score
6.59
5' ss Seq
GACGTAAGG
5' ss Score
7.23
Exon sequences
Seq C1 exon
CTCCGAGTCTTCAAATTGGCCAAGTCCTGGCCCACCCTGAACATGCTGATCAAGATCATTGGGAACTCCGTTGGCGCCCTGGGCAACCTGACCCTGGTGCTGGCCATCATTGTCTTCATCTTTGCCGTGGTGGGGATGCAGCTCTTTGGAAAGAGCTACAAGGAGTGCGTCTGTAAGATCAGCCAGGAGTGCAAGCTCCCGCGCTGGCACATGAACGACTTCTTCCACTCCTTCCTCATCGTCTTCCGAGTGCTGTGTGGGGAGTGGATCGAGACCATGTGGGATTGCATGGAAGTGGCCGGCCAGGCCATGTGCCTTATCGTGTTCATGATGGTCATGGTCATCGGCAACCTGGTG
Seq A exon
GTGCTGAACTTATTTCTGGCCTTGCTTCTGAGCTCCTTCAGCGCAGACAATCTGGCGGCCACGGACGACGACGGGGAAATGAACAACCTGCAGATATCGGTGATCCGGATCAAGAAGGGCGTGGCCTGGGCCAAAGTGAAGGTGCATGCCTTCATGCAGGCACACTTCAAGCAACGGGAGGCTGATGAAGTGAAACCTTTAGACGAGCTGTATGAGAAGAAGGCCAACTGCATCGCCAACCACACCGGCGTGGACATTCACAGGAACGGCGACTTCCAGAAAAATGGAAATGGCACCACTAGCGGCATCGGCAGCAGCGTGGAGAAGTACATCATCGACGAGGACCACATGTCCTTCATTAACAACCCAAACCTGACCGTGCGGGTGCCCATTGCTGTGGGCGAGTCTGATTTCGAGAACCTCAACACAGAGGATGTTAGCAGCGAGTCAGACCCCGAAGGCAGCAAAGAC
Seq C2 exon
AAACTGGACGATACCAGCTCCTCAGAAGGGAGTACCATCGACATCAAGCCTGAGGTGGAAGAAGTCCCAGTGGAGCAGCCTGAGGAATACTTGGATCCAGACGCCTGCTTCACGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023033-'48-45,'48-43,49-45
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=0.223 C2=0.575
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(62.1=100)
A:
PF0052026=Ion_trans=PD(4.2=5.1),PF065128=Na_trans_assoc=PU(61.0=84.7)
C2:
PF065128=Na_trans_assoc=FE(17.9=100)
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:
CCCACCCTGAACATGCTGATC
R:
CTGAGGAGCTGGTATCGTCCA
Band lengths:
352-823
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