BtaEX0031571 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30345043-30349039:+
Coord C1 exon
chr2:30345043-30345171
Coord A exon
chr2:30347655-30347746
Coord C2 exon
chr2:30348770-30349039
Length
92 bp
Sequences
Splice sites
3' ss Seq
GTGTGAACTCCCTATTTCAGATA
3' ss Score
8.98
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
Exon sequences
Seq C1 exon
GTACACCTTCACAGGAATATATACTTTTGAATCACTTATAAAAATTATTGCAAGGGGCTTCTGTTTAGAAGATTTTACTTTCCTTCGAGACCCATGGAACTGGCTCGACTTCACTGTCATTACATTTGC
Seq A exon
ATATGTGACAGAGTTTGTGGACCTGGGCAATGTCTCCGCATTGAGAACATTCAGAGTTCTCCGAGCGCTGAAAACAATTTCAGTCATTCCAG
Seq C2 exon
GTCTGAAAACCATCGTGGGGGCCCTGATCCAGTCTGTGAAAAAGCTCTCAGATGTCATGATCCTAACTGTGTTCTGTTTGAGTGTGTTCGCCCTGATTGGGCTGCAGCTCTTTATGGGCAACCTGCGGAATAAATGTGTGCAGTGGCCTCCCACCAACGCTTCCCTGGAGGAGCACACTGTAGAGAAGAACATAACCAAGAATTACAATGGCACATTTGTAAACGAAACGCGAAATGAGTTTGACTGGAAGTCGTATATTCAAGATTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520-'3-4,'3-3,4-4
Average complexity
S
Mappability confidence:
100%=100=75%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(16.1=100)
A:
PF0052026=Ion_trans=FE(11.6=100)
C2:
PF0052026=Ion_trans=FE(33.7=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGGCTCGACTTCACTGTCA
R:
GGAGGCCACTGCACACATTTA
Band lengths:
182-274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development