DreEX0064543 @ danRer10
Exon Skipping
Gene
ENSDARG00000005775 | scn8aa
Description
sodium channel, voltage gated, type VIII, alpha subunit a [Source:ZFIN;Acc:ZDB-GENE-000828-1]
Coordinates
chr23:27378539-27388389:-
Coord C1 exon
chr23:27388261-27388389
Coord A exon
chr23:27383949-27384040
Coord C2 exon
chr23:27378539-27378763
Length
92 bp
Sequences
Splice sites
3' ss Seq
GTGATCCTCCCTTATTTCAGATA
3' ss Score
9.91
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
Exon sequences
Seq C1 exon
GTATACTTTCACTGGAATTTATACGTTTGAATCAGCAGTAAAAATCATTGCCCGTGGATTCTGTATAGATGGCTTCACATTCCTTAGAGATCCATGGAACTGGCTGGATTTCATGGTCATCTCAATGGC
Seq A exon
ATATGTAACAGAGTTTGTGGACCTGGGGAATGTATCTGCGCTGAGAACATTCAGAGTTCTCCGAGCATTGAAAACTATCTCTGTCATTCCAG
Seq C2 exon
GTCTGAAGACCATTGTTGGCGCTTTGATCCAGTCTGTGAAGAAGCTGTCAGATGTGATGATCCTCACCGTGTTCTGCCTCAGTGTCTTTGCCCTCATTGGTCTGCAGCTCTTCATGGGGAATCTGCGGCAGAAGTGTGTCATCTGGCCCATCAACATCACAGAAATGTTCCCAGATGTCAATGGCAGCCGTGCATTCAACTGGGACGAGTACATCTTGAATGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005775_MULTIEX2-2/2=C1-C2
Average complexity
ME(1-2[100=100])
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
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(12.3=100)
C2:
PF0052026=Ion_trans=FE(29.8=100)
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:
AGATCCATGGAACTGGCTGGA
R:
CCGCAGATTCCCCATGAAGAG
Band lengths:
170-262
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]