DreALTD0016496-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000018032 | scn8ab
Description
sodium channel, voltage gated, type VIII, alpha subunit b [Source:ZFIN;Acc:ZDB-GENE-060906-2]
Coordinates
chr6:39431435-39436091:-
Coord C1 exon
chr6:39435798-39436091
Coord A exon
chr6:39435765-39435797
Coord C2 exon
chr6:39431435-39431567
Length
33 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGG
5' ss Score
5.2
3' ss Seq
CATGTCTCTCCTGTCCTCAGACA
3' ss Score
10.89
Exon sequences
Seq C1 exon
TCGCTGTTGAGCATCCCTGGCTCGCCCTTCATGTCGCGCCGCAGCAGTATATTCAGCTTCAAGGGCTCAGAGAACGAGTTTGCAGACGATGAGCACAGCACGGTGGAGGAGAGCGAGGATCGCCGTGGCTCTCTCTTCGTCCCATACAGACGCAGCAGCTACAGCGGCTACAGTCAGGGCTCTTCTCGAATTAACCCGCTGGCTCCACACCCAGGCTGCAAGAGAAACAGCACGGTGGACTGCAATGGCGTGGTGTCTCTGATCGGGCCTGGACCTGGCCGACTACTGCCTGAG
Seq A exon
GTGAAAATAGATAAGGCAGCTTCTGATGACAGT
Seq C2 exon
ACAACAGAGGTAGAGGGGAAGAGGAAACACTCAGGTTCTCTTATGGTGTCCGTGGATCAGCTCAATACGTCCTTTAGCCGGAAAGAGCGAGCAAACAGTGCAATGACTGTTGTCACCAACACACTTGTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000018032-16-13,17-13-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.459 A=NA C2=0.133
Domain overlap (PFAM):
C1:
PF0310514=SPX=PD(32.0=63.3),PF119333=DUF3451=FE(48.7=100)
A:
NA
C2:
PF119333=DUF3451=PD(18.1=80.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATGGCGTGGTGTCTCTGAT
R:
AGCTGATCCACGGACACCATA
Band lengths:
114-147
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]