RnoEX6017185 @ rn6
Exon Skipping
Gene
ENSRNOG00000006639 | Scn9a
Description
sodium voltage-gated channel alpha subunit 9 [Source:RGD Symbol;Acc:69368]
Coordinates
chr3:52642380-52645636:-
Coord C1 exon
chr3:52645573-52645636
Coord A exon
chr3:52644306-52644447
Coord C2 exon
chr3:52642380-52642586
Length
142 bp
Sequences
Splice sites
3' ss Seq
AGTTTCTTGTTCATCTGTAGGCA
3' ss Score
8.48
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
Exon sequences
Seq C1 exon
AATATTTTTATTACTTGGAGGGATCCAAAGATGCTCTACTCTGCGGCTTCAGCACAGATTCAGG
Seq A exon
GCAGTGTCCAGAAGGCTACATCTGTGTGAAGGCTGGCAGAAACCCGGATTATGGCTACACGAGCTTTGACACATTCAGCTGGGCCTTCTTGGCCTTGTTTCGGCTAATGACTCAGGACTACTGGGAGAACCTTTACCAACAG
Seq C2 exon
ACTCTGCGTGCTGCTGGCAAAACCTACATGATTTTCTTTGTCGTGGTTATTTTTCTGGGCTCCTTTTACCTGATAAACTTGATCCTGGCTGTGGTAGCCATGGCGTATGAGGAACAGAACCAGGCCAACATCGAAGAAGCTAAACAGAAAGAGTTAGAATTTCAGCAGATGTTAGACCGACTCAAAAAGGAGCAGGAAGAAGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006639-'10-11,'10-10,11-11=AN
Average complexity
A_S
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=0.014
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(8.5=100)
A:
PF0052026=Ion_trans=FE(19.0=100),PF0253517=Zip=PU(10.1=39.6)
C2:
PF0052026=Ion_trans=PD(12.5=44.9),PF0253517=Zip=FE(36.2=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGCTCTACTCTGCGGCTTC
R:
CTCAGCTTCTTCCTGCTCCTT
Band lengths:
242-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]