BtaEX6020625 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021339 | SCN8A
Description
sodium channel, voltage gated, type VIII alpha subunit [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr5:28216630-28220735:-
Coord C1 exon
chr5:28220598-28220735
Coord A exon
chr5:28219468-28219572
Coord C2 exon
chr5:28216630-28216900
Length
105 bp
Sequences
Splice sites
3' ss Seq
CCTCTTTTTCCCTCCTTTACTTT
3' ss Score
2.47
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
Exon sequences
Seq C1 exon
CCTGATGAGCAGCCTAAGTATGAGGACAACATCTACATGTACATCTACTTTGTCATCTTCATCATCTTCGGCTCCTTCTTCACCCTGAACCTGTTCATTGGTGTCATCATTGATAACTTCAATCAACAAAAGAAAAAG
Seq A exon
TTTGGAGGTCAGGACATCTTCATGACCGAAGAACAGAAGAAGTACTACAATGCCATGAAAAAGCTGGGCTCAAAGAAACCACAGAAGCCCATCCCCCGCCCTCTG
Seq C2 exon
AACAAAATCCAAGGGATCGTCTTTGATTTTGTCACTCAACAAGCCTTCGACATTGTTATCATGATGCTCATTTGCCTTAACATGGTGACGATGATGGTGGAGACAGATACTCAGAGCAAGCAGATGGAGAACATCCTCTACTGGATCAACCTGGTCTTCGTCATCTTCTTCACCTGTGAGTGTGTGCTCAAAATGTTTGCCTTGCGGCACTACTACTTCACCATTGGCTGGAACATCTTCGACTTCGTGGTGGTCATCCTCTCCATTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021339-'27-30,'27-29,28-30=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=PD(15.2=76.1)
A:
NO
C2:
PF0052026=Ion_trans=PU(20.5=47.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCTTCTTCACCCTGAACC
R:
AGCACACACTCACAGGTGAAG
Band lengths:
256-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]