BtaEX6009374 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30343028-30347746:+
Coord C1 exon
chr2:30343028-30343115
Coord A exon
chr2:30345043-30345171
Coord C2 exon
chr2:30347655-30347746
Length
129 bp
Sequences
Splice sites
3' ss Seq
TTTTGGATACTTGTCTCCAGGTA
3' ss Score
7.51
5' ss Seq
TGCGTAAGT
5' ss Score
9.73
Exon sequences
Seq C1 exon
TATTCAGCATGCTAATTATGTGCACTATTTTGACAAACTGTGTGTTTATGACAATGAGTAACCCTCCCGACTGGACAAAGAATGTAGA
Seq A exon
GTACACCTTCACAGGAATATATACTTTTGAATCACTTATAAAAATTATTGCAAGGGGCTTCTGTTTAGAAGATTTTACTTTCCTTCGAGACCCATGGAACTGGCTCGACTTCACTGTCATTACATTTGC
Seq C2 exon
ATATGTGACAGAGTTTGTGGACCTGGGCAATGTCTCCGCATTGAGAACATTCAGAGTTCTCCGAGCGCTGAAAACAATTTCAGTCATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520-'2-3,'2-2,3-3=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=PU(0.7=6.7)
A:
PF0052026=Ion_trans=FE(16.1=100)
C2:
PF0052026=Ion_trans=FE(11.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATTCAGCATGCTAATTATGTGCACT
R:
TGAAATTGTTTTCAGCGCTCGG
Band lengths:
170-299
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]