MmuEX6101690 @ mm10
Exon Skipping
Gene
ENSMUSG00000057182 | Scn3a
Description
sodium channel, voltage-gated, type III, alpha [Source:MGI Symbol;Acc:MGI:98249]
Coordinates
chr2:65484346-65495396:-
Coord C1 exon
chr2:65494923-65495396
Coord A exon
chr2:65487854-65487881
Coord C2 exon
chr2:65484346-65484466
Length
28 bp
Sequences
Splice sites
3' ss Seq
CTCTTTTGATATCATTGTAGTAT
3' ss Score
5.55
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
Exon sequences
Seq C1 exon
GTTCTGAACCTCTTCCTGGCCTTATTGTTGAGTTCCTTTAGTTCAGACAACCTTGCTGCTACGGACGATGATAACGAAATGAACAACCTCCAGATCGCGGTGGGAAGGATGCAAAAGGGGATTGATTATGTGAAAAATAAGATACGGGAGTGCTTCCGAAAAGCGTTTTTTAGAAAGCCGAAAGTGATAGAAATCCACGAAGGGAACAAAATAGACAGCTGCATGTCCAATAACACGGGCGTAGTTGAAATAAGCAAAGAGCTTAACTACCTTAAAGACGGTAACGGAACCACCAGTGGCGTGGGTACTGGAAGCAGTGTGGAGAAATACGTAATTGATGAAAATGACTACATGTCATTCATCAACAACCCCAGCCTCACCGTGACGGTGCCAATTGCCGTGGGAGAGTCTGACTTTGAAAATTTAAACACGGAAGAGTTTAGCAGTGAGTCAGAACTGGAAGAAAGCAAGGAG
Seq A exon
TATCACAACTCTGGCAATATAAATGAAA
Seq C2 exon
AAATTAAATGCAACCAGCTCTTCTGAAGGAAGCACAGTTGACGTTGCTCCGCCCCGAGAAGGTGAACAAGCTGAAATTGAACCTGAGGAGGACCTTAAGCCAGAAGCTTGCTTTACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057182_MULTIEX1-3/3=C1-C2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=0.200 C2=0.696
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.2=5.1),PF065128=Na_trans_assoc=PU(60.9=84.8)
A:
PF065128=Na_trans_assoc=FE(6.0=100)
C2:
PF065128=Na_trans_assoc=FE(18.2=100)
Main Inclusion Isoform:
ENSMUST00000066432fB20320
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATTGCCGTGGGAGAGTCTG
R:
CCTTCAGAAGAGCTGGTTGCA
Band lengths:
112-140
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