GgaEX1051153 @ galGal4
Exon Skipping
Gene
ENSGALG00000010943 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr7:19140426-19143101:+
Coord C1 exon
chr7:19140426-19140707
Coord A exon
chr7:19142498-19142608
Coord C2 exon
chr7:19142966-19143101
Length
111 bp
Sequences
Splice sites
3' ss Seq
CTAAAGAAAGCAAATATCAGCTT
3' ss Score
-11.45
5' ss Seq
AAGGTGATT
5' ss Score
5.88
Exon sequences
Seq C1 exon
GTGGTTGTGAATGCCCTTTTAGGAGCAATTCCATCCATCATGAACGTGCTTCTCGTTTGTCTTATATTCTGGCTAATTTTCAGCATCATGGGAGTAAATCTGTTTGCTGGGAAGTTCTACTACTGTGTTAACACCACAACTGATGAAAGGTTTGAAGTCGACCAAATCAACAATTTTAGTCAGTGCGAGGAACTCATAAAAAACAATCAAAGTGCCCGATGGAAAAACGTGAAAGTAAACTTTGATAATGTAGGATTTGGGTATCTTTCTTTGCTTCAAGTA
Seq A exon
CTTGATTTTCAGGTAATGCTTTAAATGCAAAGAATCTGTGGGATTTTTTCACTCTTAAGAACGGAATGAAGGCCATAATTCATAAACGTTTATCAAGAAGATGTTTATAAG
Seq C2 exon
TCTCAAGTACAGACTTGTTTAGGTTGTGGTGGACCCAAGAAAACAACCTCATAGAGGTGAATATCATTGTTCTAATGATAAGTTCAGTGATAAGTGTCAATGGATGAATTACAGATAGAAGATTCTACTGCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010943-'31-32,'31-31,32-32
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=1.000 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
PF065128=Na_trans_assoc=PD(1.1=25.0)
C2:
PF065128=Na_trans_assoc=PD(7.8=83.3)
Main Inclusion Isoform:
ENSGALT00000017814fB11729
Main Skipping Isoform:
ENSGALT00000017814fB1912
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGAGTAAATCTGTTTGCTGGG
R:
AGGTTGTTTTCTTGGGTCCACC
Band lengths:
243-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]