RnoEX0078602 @ rn6
Exon Skipping
Gene
ENSRNOG00000005309 | Scn8a
Description
sodium voltage-gated channel alpha subunit 8 [Source:RGD Symbol;Acc:3638]
Coordinates
chr7:142596152-142608438:+
Coord C1 exon
chr7:142596152-142596280
Coord A exon
chr7:142598315-142598406
Coord C2 exon
chr7:142608217-142608438
Length
92 bp
Sequences
Splice sites
3' ss Seq
TGTGACCTCCCTCACTACAGATA
3' ss Score
9.16
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
Exon sequences
Seq C1 exon
GTACACATTCACAGGGATTTACACATTTGAATCACTAGTGAAAATCATCGCAAGAGGTTTCTGCATAGACGGCTTCACCTTCTTACGAGACCCGTGGAACTGGTTAGACTTCAGTGTCATCATGATGGC
Seq A exon
ATATGTGACAGAGTTTGTGGACCTGGGCAATGTCTCAGCGCTGAGAACATTCAGGGTTCTCCGAGCTTTGAAAACTATCTCTGTAATTCCAG
Seq C2 exon
GCCTGAAGACAATCGTGGGCGCCCTAATCCAGTCCGTGAAGAAGCTGTCGGACGTGATGATCCTGACAGTGTTCTGCCTGAGTGTTTTCGCCCTGATTGGCCTGCAGCTCTTCATGGGGAACCTTCGAAACAAGTGTGTCGTGTGGCCCATAAACTTCAACGAGAGCTACCTGGAGAACGGCACCAGAGGCTTTGACTGGGAGGAGTATATCAACAATAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005309-'10-13,'10-11,12-13
Average complexity
C1
Mappability confidence:
100%=100=80%
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(12.4=100)
C2:
PF0052026=Ion_trans=FE(29.5=100),PF057587=Ycf1=PU(19.4=72.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCGTGGAACTGGTTAGACT
R:
CGAAGGTTCCCCATGAAGAGC
Band lengths:
167-259
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]