DreEX6023037 @ danRer10
Exon Skipping
Gene
ENSDARG00000018032 | scn8ab
Description
sodium channel, voltage gated, type VIII, alpha subunit b [Source:ZFIN;Acc:ZDB-GENE-060906-2]
Coordinates
chr6:39400178-39406642:-
Coord C1 exon
chr6:39406520-39406642
Coord A exon
chr6:39400405-39400689
Coord C2 exon
chr6:39400178-39400231
Length
285 bp
Sequences
Splice sites
3' ss Seq
TGTTGTTTTTTACCCTGTAGGTT
3' ss Score
10.89
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
Exon sequences
Seq C1 exon
GTGTCTATAGTCAGCCTTATAGCTAATGCGCTGGGCTACTCAGACTTGGGCCCCATAAAGTCCCTGAGAACTTTGAGGGCTCTCAGGCCCCTGAGAGCTTTGTCCCGGTTTGAGGGCATGAGG
Seq A exon
GTTGTGGTGAACGCTTTGGTGGGTGCCATTCCCTCCATCATGAATGTGCTGTTGGTGTGTTTGATCTTTTGGCTGATCTTCAGTATTATGGGTGTCAACCTGTTTGCTGGAAAGTACTATTACTGCTTCAACCAGACTGCAGAGGAGTATTTTCAAGTCGACGTTGTCAATAACAAGACCGAATGCTTTGCACTCATCAATGCAAACTACACAGAAGTTCGCTGGAAGAACGTAAAGATCAATTTCGATAATGTGGGCGCAGGTTACCTGGCACTCTTGCAAGTG
Seq C2 exon
GCTACATTCAAAGGCTGGATGGACATCATGTATGCTGCTGTGGATTCCAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000018032-'27-25,'27-24,28-25=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(17.4=100)
A:
PF0052026=Ion_trans=FE(40.9=100)
C2:
PF0052026=Ion_trans=FE(7.4=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TATAGTCAGCCTTATAGCTAATGCGC
R:
CTTTCTGGAATCCACAGCAGCA
Band lengths:
172-457
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]