GgaEX1051151 @ galGal4
Exon Skipping
Gene
ENSGALG00000027702 | SCN11A
Description
sodium channel, voltage gated, type XI alpha subunit [Source:HGNC Symbol;Acc:HGNC:10583]
Coordinates
chr2:5311746-5314254:+
Coord C1 exon
chr2:5311746-5311890
Coord A exon
chr2:5313858-5313915
Coord C2 exon
chr2:5314060-5314254
Length
58 bp
Sequences
Splice sites
3' ss Seq
CTACAATTTATTTACTTGAGGCC
3' ss Score
-1.31
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
Exon sequences
Seq C1 exon
AGGAGAGTGCCCTGAAAACTACACATGTTTGAAACTTGGGAAAAATCCTGATTTTGGCTACACAAGTTTTGATCATTTTGGCTGGGCATTCCTTTCTTTATTCCGTCTGATGACACAGGATTCCTGGGAGCGTCTGTACAGACAA
Seq A exon
GCCATATGAACTCCTGATTAGATGCATTCGTAGACCCTCTCCATCACCTAGACCAGAG
Seq C2 exon
ACTATCCGTTCATCTGGGAAGAGCTACATTTTATTTTTTATAGCTGTCATCTTTTTATGCTCATTTTATCTCTTCAACCTGATATTGGCTGTAGTAACTATGGCATATGAAGAGCAGAACAGAGCTACTCTTGCTGAAACACAGGCAAAGGAAAAATTACTTCAGGATGCTAAAAAAGTTCTAGAGAAAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027702-'9-9,'9-8,10-9
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(19.1=100)
A:
PF0052026=Ion_trans=PD(0.5=33.3)
C2:
PF0052026=Ion_trans=PD(12.4=47.7)
Main Inclusion Isoform:
ENSGALT00000042757fB11727
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCCTGGGAGCGTCTGTACA
R:
CTGTTCTGCTCTTCATATGCCA
Band lengths:
148-206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]