BtaEX6009375 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30340804-30345171:+
Coord C1 exon
chr2:30340804-30340924
Coord A exon
chr2:30343028-30343115
Coord C2 exon
chr2:30345043-30345171
Length
88 bp
Sequences
Splice sites
3' ss Seq
TCCTTAACAATAACCTACATTAT
3' ss Score
-5.01
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
ACTTTTATAGTATTGAATAAAGGGAAGGCCATCTTCCGGTTCAGTGCCACCTCTGCCCTGTACATTTTAACTCCCTTCAATCCTCTTAGGAAAATAGCTATTAAGATTTTGGTACATTCAT
Seq A exon
TATTCAGCATGCTAATTATGTGCACTATTTTGACAAACTGTGTGTTTATGACAATGAGTAACCCTCCCGACTGGACAAAGAATGTAGA
Seq C2 exon
GTACACCTTCACAGGAATATATACTTTTGAATCACTTATAAAAATTATTGCAAGGGGCTTCTGTTTAGAAGATTTTACTTTCCTTCGAGACCCATGGAACTGGCTCGACTTCACTGTCATTACATTTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520-'1-2,'1-1,2-2=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
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:
NO
A:
PF0052026=Ion_trans=PU(0.7=6.7)
C2:
PF0052026=Ion_trans=FE(16.1=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGGCCATCTTCCGGTTCAG
R:
TCTAAACAGAAGCCCCTTGCA
Band lengths:
167-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]