BtaEX6009376 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30321635-30343115:+
Coord C1 exon
chr2:30321635-30321898
Coord A exon
chr2:30340804-30340924
Coord C2 exon
chr2:30343028-30343115
Length
121 bp
Sequences
Splice sites
3' ss Seq
GTTGTGTTCCTATCTTACAGACT
3' ss Score
9.58
5' ss Seq
CATATCCTT
5' ss Score
-20.06
Exon sequences
Seq C1 exon
ATGGAACAAACAGTGCTTGTGCCACCAGGACCTGACAGCTTCAACTTCTTCACCAGAGAATCCCTTGCGGCTATTGAAAGACGCATTGCAGAAGAAAAGGCTAAGAATCCCAAACCAGACAAGAAAGACGATGATGAACATGGCCCAAAGCCAAATAGTGACTTGGAAGCCGGAAAGAACCTTCCTTTTATTTATGGAGACGTCCCTCCAGAGATGGTGTCAGAGCCCCTGGAGGACCTGGATCCCTACTATATCAATAAGAAA
Seq A exon
ACTTTTATAGTATTGAATAAAGGGAAGGCCATCTTCCGGTTCAGTGCCACCTCTGCCCTGTACATTTTAACTCCCTTCAATCCTCTTAGGAAAATAGCTATTAAGATTTTGGTACATTCAT
Seq C2 exon
TATTCAGCATGCTAATTATGTGCACTATTTTGACAAACTGTGTGTTTATGACAATGAGTAACCCTCCCGACTGGACAAAGAATGTAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520-'0-1,'0-0,1-1=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=0.364 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0052026=Ion_trans=PU(0.7=6.7)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCATTGCAGAAGAAAAGGCT
R:
TCCAGTCGGGAGGGTTACTC
Band lengths:
258-379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]