MmuEX6069833 @ mm10
Exon Skipping
Gene
ENSMUSG00000034115 | Scn11a
Description
sodium channel, voltage-gated, type XI, alpha [Source:MGI Symbol;Acc:MGI:1345149]
Coordinates
chr9:119753759-119759944:-
Coord C1 exon
chr9:119759840-119759944
Coord A exon
chr9:119758407-119758677
Coord C2 exon
chr9:119753759-119755277
Length
271 bp
Sequences
Splice sites
3' ss Seq
CCTTTCTTTTTCCTCCTCAGAAC
3' ss Score
12
5' ss Seq
TTAGTAAGT
5' ss Score
7.79
Exon sequences
Seq C1 exon
TTAGGTGGCCAAGACATTTTTATGACAGAAGAACAGAAGAAATATTACAATGCAATGAAAAAGTTAGGAACCAAGAAGCCTCAAAAGCCCATCCCAAGGCCCCTG
Seq A exon
AACAAATGTCAAGCCTTCGTGTTCGATTTGGTCACAAGCCAGGTCTTTGACGTCATCATTCTGGGTCTTATTGTCACAAACATGATTATCATGATGGCTGAATCTGAAGGCCAGCCCAACGAAGTGAAGAAAATCTTTGATATTCTCAACATAGTCTTCGTGGTCATCTTTACCGTAGAGTGTCTCATCAAAGTCTTTGCTTTGAGGCAACACTACTTCACCAATGGCTGGAACTTATTTGATTGTGTGGTCGTGGTTCTTTCCATCATTA
Seq C2 exon
GTACCTTGGTTTCTGGCTTGGAGAACAGCAACGTCTTCCCGCCCACACTCTTCAGGATTGTCCGCTTGGCTCGGATCGGTCGAATCCTCAGACTGGTCCGGGCGGCTCGAGGAATCAGGACACTCCTTTTCGCGTTGATGATGTCTCTCCCCTCTCTCTTCAACATCGGTCTGCTTCTCTTTCTGGTGATGTTCATTTATGCCATCTTTGGGATGAACTGGTTTTCCAAAGTGAAGAGAGGCTCTGGGATTGATGACATCTTCAACTTTGACACTTTCTCGGGCAGCATGCTCTGCCTCTTCCAGATAACCACTTCAGCCGGCTGGGATGCTCTCCTCAACCCCATGCTGGAATCAAAAGCCTCTTGCAATTCCTCCTCCCAAGAGAGCTGTCAGCAGCCGCAGATAGCCATAGTCTACTTCGTCAGCTACATCATCATCTCCTTTCTCATTGTGGTTAACATGTACATAGCTGTGATTCTAGAGAACTTCAACACAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034115-'28-28,'28-26,29-28=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=0.000 A=0.000 C2=0.003
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(21.2=47.3)
C2:
PF0052026=Ion_trans=PD(78.3=46.4)
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:
CCAAGAAGCCTCAAAAGCCCA
R:
TGTCATCAATCCCAGAGCCTCT
Band lengths:
293-564
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