GgaEX7001707 @ galGal4
Exon Skipping
Gene
ENSGALG00000027702 | SCN11A
Description
sodium channel, voltage gated, type XI alpha subunit [Source:HGNC Symbol;Acc:HGNC:10583]
Coordinates
chr2:5311746-5315709:+
Coord C1 exon
chr2:5311746-5311890
Coord A exon
chr2:5314060-5314254
Coord C2 exon
chr2:5315518-5315709
Length
195 bp
Sequences
Splice sites
3' ss Seq
TTTCCTTTTTTTTCTCACAGACT
3' ss Score
11.7
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
Exon sequences
Seq C1 exon
AGGAGAGTGCCCTGAAAACTACACATGTTTGAAACTTGGGAAAAATCCTGATTTTGGCTACACAAGTTTTGATCATTTTGGCTGGGCATTCCTTTCTTTATTCCGTCTGATGACACAGGATTCCTGGGAGCGTCTGTACAGACAA
Seq A exon
ACTATCCGTTCATCTGGGAAGAGCTACATTTTATTTTTTATAGCTGTCATCTTTTTATGCTCATTTTATCTCTTCAACCTGATATTGGCTGTAGTAACTATGGCATATGAAGAGCAGAACAGAGCTACTCTTGCTGAAACACAGGCAAAGGAAAAATTACTTCAGGATGCTAAAAAAGTTCTAGAGAAAGAAAAG
Seq C2 exon
ATGTTGTCTACTGGAGAGAGTAATAAAGCCTCCCATATTGGATTTGAAATGTCAGTTGCTGGCTTAGAAAATTCAGAGGAAAAAGAGACAAGGGGAGAAAAGCCTGTTTCAAGGCAAAGTTTAATTGTAGGTAATCAAAGTAATGAGGAAAGTATGTTTCAGTCACAACCTAATCATTGCCATAAGAAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027702-'9-10,'9-9,11-10=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=0.328
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(19.1=100)
A:
PF0052026=Ion_trans=PD(12.4=47.7)
C2:
NO
Main Skipping Isoform:
ENSGALT00000042757fB11727
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAGTGCCCTGAAAACTACA
R:
ACAGGCTTTTCTCCCCTTGTC
Band lengths:
251-446
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]