MmuEX6069810 @ mm10
Exon Skipping
Gene
ENSMUSG00000034115 | Scn11a
Description
sodium channel, voltage-gated, type XI, alpha [Source:MGI Symbol;Acc:MGI:1345149]
Coordinates
chr9:119815208-119820015:-
Coord C1 exon
chr9:119819729-119820015
Coord A exon
chr9:119816501-119816619
Coord C2 exon
chr9:119815208-119815306
Length
119 bp
Sequences
Splice sites
3' ss Seq
GTGCTGTGATTTCTTCACAGACA
3' ss Score
8.59
5' ss Seq
TTCATATCC
5' ss Score
-14.87
Exon sequences
Seq C1 exon
TGTCTGAGCCAAGGGTGAAGATGGAGGAGAGGTACTATCCAGTGATCTTCCCAGACGAGAGGAATTTCCGCCCCTTCACTTTCGACTCTTTGGCTGCAATAGAGAAGCGGATCACCATCCAAAAGGAGAAGAAGAAATCCAAAGACAAGGCAGCAACTGAGCCCCAGCCTCGGCCTCAGCTCGACCTAAAGGCCTCCAGGAAGTTACCTAAGCTCTATGGCGACGTTCCCCCTGACCTTATAGCGAAGCCCCTGGAAGATCTGGACCCATTTTACAAAGACCATAAG
Seq A exon
ACATTCATGGTATTGAACAAGAAGAGAACAATCTATCGCTTCAGCGCCAAGAGGGCCTTGTTCATTCTGGGGCCTTTTAATCCCATCAGAAGCTTCATGATTCGCATCTCTGTCCATTC
Seq C2 exon
AGTCTTCAGCATGTTCATTATCTGCACAGTGATCATCAACTGTATGTTCATGGCTAATAATTCTTCTGTGGACAGTCGTCCTAGCAGTAACATTCCCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034115-'2-3,'2-2,4-3=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.191 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0052026=Ion_trans=PU(0.8=5.9)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGACAAGGCAGCAACTGAGC
R:
CGGGAATGTTACTGCTAGGACG
Band lengths:
244-363
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