BtaEX0031581 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021339 | SCN8A
Description
sodium channel, voltage gated, type VIII alpha subunit [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr5:28256627-28280329:-
Coord C1 exon
chr5:28280036-28280329
Coord A exon
chr5:28270396-28270758
Coord C2 exon
chr5:28256627-28256759
Length
363 bp
Sequences
Splice sites
3' ss Seq
CTCTCCTCCTGCCCTTACAGTCA
3' ss Score
10.24
5' ss Seq
GAGGTGAAA
5' ss Score
2.91
Exon sequences
Seq C1 exon
GCGGCAGCGATGGCCACTTCAGCAGGAACTGTCTCAGAAGATGCCATAGAGGAAGAAGGTGAAGACGGGGCAGGCTCTCCCCGGAGCTCATCTGAAATCTCTAAACTGAGTTCCAAGAGTGCCAAGGAGAGACGGAACCGGAGAAAAAAGAGGAAGCAAAAGGAGCTCTCTGAAGGAGAGGAGAAGGGGGATCCTGAGAAGGTGTTCAAGTCAGAATCAGAAGATGGTATGAGGAGGAAGGGCTTTCGGCTCCCAGACAACAGAATAGGGAGGAAGTTTTCCATCATGAATCAG
Seq A exon
TCACTGCTCAGCATTCCAGGCTCCCCATTCCTCTCCCGCCACAACAGCAAGAGCAGCATCTTCAGCTTCAGGGGGCCCGGGCGGTTCCGGGACCCGGGCTCGGAGAATGAGTTTGCAGACGACGAGCACAGCACGGTGGAGGAGAGCGAGGGCCGCCGGGACTCGCTCTTCATCCCCATCCGGGCGCGCGAGCGCCGCAGCAGCTACAGTGGCTACAGCGGCTACAGCCAGGGCAGCCGCTCTTCGCGCATCTTCCCCAGCCTGCGGCGCAGCGTCAAGCGCAACAGCACAGTGGACTGCAATGGCGTGGTGTCCCTCATCGGCGGCCCCGGCTCCCACATCAGCGGGCGTCTCCTGCCAGAG
Seq C2 exon
GCTACAACTGAGGTGGAAATTAAGAAGAAAGGCCCTGGATCTCTCTTAGTTTCTATGGACCAACTGGCTTCCTATGGACGAAAGGACAGGATCAACAGTATATTGAGTGTTGTTACAAATACACTGGTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021339-'10-15,'10-14,11-15
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.908 A=0.397 C2=0.022
Domain overlap (PFAM):
C1:
PF0310514=SPX=FE(50.0=100),PF119333=DUF3451=PU(29.4=68.4)
A:
PF0310514=SPX=PD(28.9=46.3),PF119333=DUF3451=FE(52.6=100)
C2:
PF119333=DUF3451=PD(16.7=84.4)
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:
GATGGCCACTTCAGCAGGAAC
R:
GGAAGCCAGTTGGTCCATAGA
Band lengths:
358-721
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development