RnoEX0078601 @ rn6
Exon Skipping
Gene
ENSRNOG00000005309 | Scn8a
Description
sodium voltage-gated channel alpha subunit 8 [Source:RGD Symbol;Acc:3638]
Coordinates
chr7:142596152-142598406:+
Coord C1 exon
chr7:142596152-142596280
Coord A exon
chr7:142598064-142598155
Coord C2 exon
chr7:142598315-142598406
Length
92 bp
Sequences
Splice sites
3' ss Seq
ACTTTGGTTTGATTCTGCAGGTA
3' ss Score
9.14
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
Exon sequences
Seq C1 exon
GTACACATTCACAGGGATTTACACATTTGAATCACTAGTGAAAATCATCGCAAGAGGTTTCTGCATAGACGGCTTCACCTTCTTACGAGACCCGTGGAACTGGTTAGACTTCAGTGTCATCATGATGGC
Seq A exon
GTATATAACAGAGTTTGTAAACCTAGGCAATGTTTCAGCTCTACGCACTTTCAGGGTACTGAGGGCTTTGAAAACTATTTCGGTAATCCCAG
Seq C2 exon
ATATGTGACAGAGTTTGTGGACCTGGGCAATGTCTCAGCGCTGAGAACATTCAGGGTTCTCCGAGCTTTGAAAACTATCTCTGTAATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005309-'10-11,'10-10,11-11
Average complexity
C1
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(12.4=100)
Main Inclusion Isoform:
ENSRNOT00000080923fB12992
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACATTCACAGGGATTTACACA
R:
CCTGAATGTTCTCAGCGCTGA
Band lengths:
182-274
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]