MmuEX6069823 @ mm10
Exon Skipping
Gene
ENSMUSG00000034115 | Scn11a
Description
sodium channel, voltage-gated, type XI, alpha [Source:MGI Symbol;Acc:MGI:1345149]
Coordinates
chr9:119781901-119790261:-
Coord C1 exon
chr9:119789908-119790261
Coord A exon
chr9:119783754-119784155
Coord C2 exon
chr9:119781901-119782014
Length
402 bp
Sequences
Splice sites
3' ss Seq
TCCCTTATTACTCACCCCAGGTG
3' ss Score
7.52
5' ss Seq
CAGGTATGG
5' ss Score
9.99
Exon sequences
Seq C1 exon
CTGAGGGTCTTCAAGTTAGCCAAATCCTGGCCCACATTAAACACTCTCATTAAGATCATCGGCCACTCCGTGGGTGCGCTCGGAAACCTGACTGTGGTCCTAACGATCGTGGTCTTCATCTTTTCCGTGGTTGGCATGCGGCTCTTTGGTGCCAAGTTTAACAAGACTTGCTCCACCTCTCCGGAGTCCCTCCGGCGCTGGCACATGGGTGATTTCTACCATTCCTTCCTGGTGGTGTTCCGCATCCTCTGTGGGGAGTGGATCGAGAACATGTGGGAATGCATGCAGGAGATGGAAGGCTCCCCGCTGTGTGTCATCGTCTTTGTGCTGATCATGGTGGTCGGGAAGCTCGTG
Seq A exon
GTGCTTAACCTCTTCATTGCCTTGCTGCTCAATTCCTTCAGCAATGAGGAAAAGGATGGGAACCCAGAAGGAGAGACCAGGAAAACCAAAGTGCAGCTAGCCCTGGATCGGTTCAGCCGAGCGTTCTACTTCATGGCGCGCGCTCTTCAGAATTTCTGTTGCAAGAGATGCAGGAGGCAAAACTCGCCAAAGCCAAATGAGGCAACAGAAAGCTTTGCTGGTGAGAGTAGAGACACAGCCACCCTGGATACAAGGTCCTGGAAGGAGTATGATTCAGAAATGACTCTGTACACTGGGCAGGCCGGGGCTCCACTGGCCCCACTGGCAAAAGAAGAGGACGATATGGAATGTTGTGGTGAATGTGATGCCTCACCTACCTCACAGCCTAGTGAGGAAGCTCAG
Seq C2 exon
GCCTGTGACCTCCCTCTGAAGACCAAGCGGCTCCCCAGCCCAGATGACCACGGGGTTGAAATGGAAGTGTTTTCCGAAGAAGATCCGAATTTAACCATACAGAGTGCTCGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034115-'17-17,'17-15,18-17
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=0.299 C2=0.526
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(61.6=100)
A:
PF0052026=Ion_trans=PD(4.2=6.0),PF065128=Na_trans_assoc=PU(47.0=81.3)
C2:
PF065128=Na_trans_assoc=FE(15.9=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCGGAAACCTGACTGTGGTC
R:
ACTTCCATTTCAACCCCGTGG
Band lengths:
344-746
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