DreEX0064548 @ danRer10
Exon Skipping
Gene
ENSDARG00000018032 | scn8ab
Description
sodium channel, voltage gated, type VIII, alpha subunit b [Source:ZFIN;Acc:ZDB-GENE-060906-2]
Coordinates
chr6:39444930-39460806:-
Coord C1 exon
chr6:39460678-39460806
Coord A exon
chr6:39454063-39454154
Coord C2 exon
chr6:39444930-39445151
Length
92 bp
Sequences
Splice sites
3' ss Seq
TGTTGCGATCCATTCTGCAGGTA
3' ss Score
9.18
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
Exon sequences
Seq C1 exon
GTACACCTTCACAGGAATCTACACTTTCGAGTCTCTCACAAAGATTGTGGCTCGAGGTTTCTGTATAGACGACTTCACCTTCCTCAGAGACCCCTGGAACTGGCTGGATTTCATGGTCATCTCTATGGC
Seq A exon
GTATATTACAGAGTTTGTAAACCTAGGCAATGTGTCAGCTCTGCGCACATTCAGGGTGCTGAGGGCTTTGAAAACTGTTGCTGTGATTCCAG
Seq C2 exon
GGCTGAAAACCATTGTGGGAGCTTTGATCCAGTCAGTGAAGAAGCTGTCGGATGTGATGATTCTGACTGTGTTTTGTCTGAGTGTGTTCGCCCTAATCGGTCTCCAGCTGTTTATGGGTAATCTTCGGCAAAAATGTGTCATCTGGCCAGTCAATTCAACAGAAACCTACCTGGCCAACGGCAGCAAGGGTTTCGACTTTAACGAATACATCATGAATGATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000018032-'8-7,'8-5,9-7
Average complexity
ME(5_9-6_10[100=100])
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(17.1=100)
A:
PF0052026=Ion_trans=FE(39.7=100)
C2:
PF0052026=Ion_trans=FE(29.5=100)
Main Inclusion Isoform:
ENSDART00000151299fB5419
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCTCAGAGACCCCTGGAAC
R:
CCCATAAACAGCTGGAGACCG
Band lengths:
168-260
Functional annotations
There are 1 annotated functions for this event
PMID: 15664175
Mutually exclusive exons 5A and 5N alter voltage-dependent gating and/or interactions with a blocking subunit. From Vuong et al, Nat Rev Neurosci 2016.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]