BtaEX6020616 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021339 | SCN8A
Description
sodium channel, voltage gated, type VIII alpha subunit [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr5:28242705-28256759:-
Coord C1 exon
chr5:28256627-28256759
Coord A exon
chr5:28251268-28251506
Coord C2 exon
chr5:28242705-28242878
Length
239 bp
Sequences
Splice sites
3' ss Seq
TTGTTCTTGACTCACTACAGAGC
3' ss Score
6.51
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
Exon sequences
Seq C1 exon
GCTACAACTGAGGTGGAAATTAAGAAGAAAGGCCCTGGATCTCTCTTAGTTTCTATGGACCAACTGGCTTCCTATGGACGAAAGGACAGGATCAACAGTATATTGAGTGTTGTTACAAATACACTGGTGGAAG
Seq A exon
AGCTGGAAGAGTCTCAGAGGAAGTGCCCGCCATGCTGGTATAAATTTGCCAACACTTTCCTCATCTGGGAGTGTCACCCCTACTGGATAAAGCTGAAGGAGATCGTGAACTTGATTGTTATGGACCCTTTCGTGGACCTGGCCATCACCATCTGCATCGTCCTGAACACCCTCTTTATGGCAATGGAGCACCATCCTATGACGCCACAGTTTGAACACGTCTTGGCTGTAGGAAATCTG
Seq C2 exon
GTTTTCACTGGAATTTTCACAGCGGAAATGTTCCTGAAGCTCATAGCCATGGATCCCTACTATTATTTCCAAGAAGGTTGGAACATTTTTGATGGATTTATTGTCTCCCTCAGTTTAATGGAACTGAGTCTAGCAGACGTGGAGGGGCTTTCGGTGCTGCGATCTTTCCGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021339-'13-18,'13-16,15-18=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=0.022 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF119333=DUF3451=PD(16.7=84.4)
A:
PF0052026=Ion_trans=PU(1.6=3.8)
C2:
PF0052026=Ion_trans=FE(30.0=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:
GGTGGAAATTAAGAAGAAAGGCCC
R:
AATCGGAAAGATCGCAGCACC
Band lengths:
295-534
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]