DreEX6023029 @ danRer10
Exon Skipping
Gene
ENSDARG00000018032 | scn8ab
Description
sodium channel, voltage gated, type VIII, alpha subunit b [Source:ZFIN;Acc:ZDB-GENE-060906-2]
Coordinates
chr6:39435798-39441528:-
Coord C1 exon
chr6:39441322-39441528
Coord A exon
chr6:39440960-39441235
Coord C2 exon
chr6:39435798-39436091
Length
276 bp
Sequences
Splice sites
3' ss Seq
TCAATCCTTTCCATTGCTAGGCC
3' ss Score
8.13
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
Exon sequences
Seq C1 exon
ACTCTACGAGCTGCGGGAAAAACATACATGATCTTTTTCGTTCTGGTGATCTTTGTGGGATCGTTCTACCTGGTGAATCTGATCCTGGCTGTGGTGGCCATGGCCTATGAAGAACAGAACCAGGCCACCATTGAGGAGGCTGAACAGAAGGAAGCGGAGTTTAAAGCCATGCTGGAGCAGCTGAAGAAACAACAGGAGGAGGCACAG
Seq A exon
GCCAATGCCATGGCGACTTCAGCAGGTACAGTGTCTGAGGACGCAGTGGAGGACGATGGCGGAGGGCATCTGTCCCGCAGCTCCTCTGAAGTGTCCAAACTGAGCTCCAAGAGCGCCAAGGAGCGCAGGAACAGAAAGAAGAAGTGGAGGAAAGAGCAGGAGGAGAAGGGAGACAGTGAGAAAGTAGTGAAGTCAGAATCTGATGATGGCAGCAAGAGGAGCCGCTTCCGTTTCAGAGACAACAGGCTTGGGCGGAAGGCCTCCATCATGAATCAG
Seq C2 exon
TCGCTGTTGAGCATCCCTGGCTCGCCCTTCATGTCGCGCCGCAGCAGTATATTCAGCTTCAAGGGCTCAGAGAACGAGTTTGCAGACGATGAGCACAGCACGGTGGAGGAGAGCGAGGATCGCCGTGGCTCTCTCTTCGTCCCATACAGACGCAGCAGCTACAGCGGCTACAGTCAGGGCTCTTCTCGAATTAACCCGCTGGCTCCACACCCAGGCTGCAAGAGAAACAGCACGGTGGACTGCAATGGCGTGGTGTCTCTGATCGGGCCTGGACCTGGCCGACTACTGCCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000018032-'14-12,'14-11,15-12=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.058 A=0.935 C2=0.459
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(12.4=44.9),PF0043013=ATP-synt_B=PU(51.7=89.9),PF0310514=SPX=PU(19.6=55.1)
A:
PF0043013=ATP-synt_B=PD(46.7=60.9),PF0310514=SPX=FE(46.9=100),PF119333=DUF3451=PU(31.7=68.5)
C2:
PF0310514=SPX=PD(32.0=63.3),PF119333=DUF3451=FE(48.7=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
AACAGAACCAGGCCACCATTG
R:
GCCAGCGGGTTAATTCGAGAA
Band lengths:
298-574
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]