BtaEX6020626 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021339 | SCN8A
Description
sodium channel, voltage gated, type VIII alpha subunit [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr5:28211640-28219572:-
Coord C1 exon
chr5:28219468-28219572
Coord A exon
chr5:28216630-28216900
Coord C2 exon
chr5:28211640-28213345
Length
271 bp
Sequences
Splice sites
3' ss Seq
TTTCCTCCCTCCCCACCCAGAAC
3' ss Score
10.6
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
Exon sequences
Seq C1 exon
TTTGGAGGTCAGGACATCTTCATGACCGAAGAACAGAAGAAGTACTACAATGCCATGAAAAAGCTGGGCTCAAAGAAACCACAGAAGCCCATCCCCCGCCCTCTG
Seq A exon
AACAAAATCCAAGGGATCGTCTTTGATTTTGTCACTCAACAAGCCTTCGACATTGTTATCATGATGCTCATTTGCCTTAACATGGTGACGATGATGGTGGAGACAGATACTCAGAGCAAGCAGATGGAGAACATCCTCTACTGGATCAACCTGGTCTTCGTCATCTTCTTCACCTGTGAGTGTGTGCTCAAAATGTTTGCCTTGCGGCACTACTACTTCACCATTGGCTGGAACATCTTCGACTTCGTGGTGGTCATCCTCTCCATTGTGG
Seq C2 exon
GAATGTTCCTGGCTGATATCATTGAGAAATACTTTGTCTCCCCAACCCTGTTCCGAGTCATCCGATTGGCCCGTATTGGGCGCATCCTGCGTCTGATCAAAGGCGCAAAGGGAATTCGTACCCTGCTCTTTGCCTTAATGATGTCCTTGCCTGCTCTGTTCAACATCGGCCTTCTGCTCTTCCTGGTCATGTTCATCTTCTCCATCTTTGGGATGTCTAATTTTGCATACGTGAAGCACGAGGCTGGCATTGATGACATGTTCAACTTTGAGACCTTCGGCAACAGCATGATCTGCCTCTTTCAGATCACCACGTCGGCTGGTTGGGACGGCCTCCTGCTGCCCATCCTAAACCGCCCCCCTGACTGCAATTTGGATAAGGAACACCCAGGGAGTGGCTTTAAAGGAGACTGCGGGAACCCTTCAGTGGGCATCTTCTTCTTTGTGAGCTACATCATCATCTCCTTCCTGATTGTGGTGAACATGTACATTGCCATCATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021339-'28-32,'28-30,30-32=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=0.175
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(20.5=47.3)
C2:
PF0052026=Ion_trans=PD(79.0=43.3),PF0061222=IQ=WD(100=5.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGGGCTCAAAGAAACCAC
R:
ATGTCATCAATGCCAGCCTCG
Band lengths:
303-574
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]