HsaEX6055205 @ hg19
Exon Skipping
Gene
ENSG00000168356 | SCN11A
Description
sodium channel, voltage-gated, type XI, alpha subunit [Source:HGNC Symbol;Acc:10583]
Coordinates
chr3:38908812-38913199:-
Coord C1 exon
chr3:38912936-38913199
Coord A exon
chr3:38912182-38912235
Coord C2 exon
chr3:38908812-38908949
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTTTTCTGCTTTTGTTGCAGGCA
3' ss Score
11.3
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
Exon sequences
Seq C1 exon
GTGGTGGTCAATGCTCTCATAGGTGCCATACCTGCCATTCTGAATGTTTTGCTTGTCTGCCTCATTTTCTGGCTCGTATTTTGTATTCTGGGAGTATACTTCTTTTCTGGAAAATTTGGGAAATGCATTAATGGAACAGACTCAGTTATAAATTATACCATCATTACAAATAAAAGTCAATGTGAAAGTGGCAATTTCTCTTGGATCAACCAGAAAGTCAACTTTGACAATGTGGGAAATGCTTACCTCGCTCTGCTGCAAGTG
Seq A exon
GCAACATTTAAGGGCTGGATGGATATTATATATGCAGCTGTTGATTCCACAGAG
Seq C2 exon
AAAGAACAACAGCCAGAGTTTGAGAGCAATTCACTCGGTTACATTTACTTCGTAGTCTTTATCATCTTTGGCTCATTCTTCACTCTGAATCTCTTCATTGGCGTTATCATTGACAACTTCAACCAACAGCAGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168356-'21-22,'21-21,22-22=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(40.3=100)
A:
PF0052026=Ion_trans=FE(7.9=100)
C2:
PF0052026=Ion_trans=PD(16.2=76.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGGGAAATGCTTACCTCGC
R:
ACGCCAATGAAGAGATTCAGAGT
Band lengths:
138-192
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)