BtaEX6020615 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021339 | SCN8A
Description
sodium channel, voltage gated, type VIII alpha subunit [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr5:28251268-28270758:-
Coord C1 exon
chr5:28270396-28270758
Coord A exon
chr5:28256627-28256759
Coord C2 exon
chr5:28251268-28251506
Length
133 bp
Sequences
Splice sites
3' ss Seq
TTGTTTTCTTTTTTTTTAAGGCT
3' ss Score
9.69
5' ss Seq
AAGGTATGT
5' ss Score
9.79
Exon sequences
Seq C1 exon
TCACTGCTCAGCATTCCAGGCTCCCCATTCCTCTCCCGCCACAACAGCAAGAGCAGCATCTTCAGCTTCAGGGGGCCCGGGCGGTTCCGGGACCCGGGCTCGGAGAATGAGTTTGCAGACGACGAGCACAGCACGGTGGAGGAGAGCGAGGGCCGCCGGGACTCGCTCTTCATCCCCATCCGGGCGCGCGAGCGCCGCAGCAGCTACAGTGGCTACAGCGGCTACAGCCAGGGCAGCCGCTCTTCGCGCATCTTCCCCAGCCTGCGGCGCAGCGTCAAGCGCAACAGCACAGTGGACTGCAATGGCGTGGTGTCCCTCATCGGCGGCCCCGGCTCCCACATCAGCGGGCGTCTCCTGCCAGAG
Seq A exon
GCTACAACTGAGGTGGAAATTAAGAAGAAAGGCCCTGGATCTCTCTTAGTTTCTATGGACCAACTGGCTTCCTATGGACGAAAGGACAGGATCAACAGTATATTGAGTGTTGTTACAAATACACTGGTGGAAG
Seq C2 exon
AGCTGGAAGAGTCTCAGAGGAAGTGCCCGCCATGCTGGTATAAATTTGCCAACACTTTCCTCATCTGGGAGTGTCACCCCTACTGGATAAAGCTGAAGGAGATCGTGAACTTGATTGTTATGGACCCTTTCGTGGACCTGGCCATCACCATCTGCATCGTCCTGAACACCCTCTTTATGGCAATGGAGCACCATCCTATGACGCCACAGTTTGAACACGTCTTGGCTGTAGGAAATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021339-'11-16,'11-15,13-16=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=0.397 A=0.022 C2=0.000
Domain overlap (PFAM):
C1:
PF0310514=SPX=PD(28.9=46.3),PF119333=DUF3451=FE(52.6=100)
A:
PF119333=DUF3451=PD(16.7=84.4)
C2:
PF0052026=Ion_trans=PU(1.6=3.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCAGCTACAGTGGCTACAG
R:
GGTGACACTCCCAGATGAGGA
Band lengths:
244-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]