RnoEX6017187 @ rn6
Exon Skipping
Gene
ENSRNOG00000006639 | Scn9a
Description
sodium voltage-gated channel alpha subunit 9 [Source:RGD Symbol;Acc:69368]
Coordinates
chr3:52636546-52642586:-
Coord C1 exon
chr3:52642380-52642586
Coord A exon
chr3:52639085-52639369
Coord C2 exon
chr3:52636546-52636917
Length
285 bp
Sequences
Splice sites
3' ss Seq
GGATTGTCCTGGTCCAACAGGCG
3' ss Score
6.06
5' ss Seq
CAGGTACTG
5' ss Score
9.04
Exon sequences
Seq C1 exon
ACTCTGCGTGCTGCTGGCAAAACCTACATGATTTTCTTTGTCGTGGTTATTTTTCTGGGCTCCTTTTACCTGATAAACTTGATCCTGGCTGTGGTAGCCATGGCGTATGAGGAACAGAACCAGGCCAACATCGAAGAAGCTAAACAGAAAGAGTTAGAATTTCAGCAGATGTTAGACCGACTCAAAAAGGAGCAGGAAGAAGCTGAG
Seq A exon
GCGATCGCTGCAGCCGCTGCTGAGTTCACGAGTATAGGGCGGAGCAGGATCATGGGACTCTCTGAGAGCTCTTCAGAAACCTCCAGGCTGAGCTCAAAGAGTGCCAAGGAGAGAAGAAACCGAAGAAAGAAAAAGAAACAGAAGATGTCCAGTGGCGAGGAAAAGGGTGACGATGAGAAGCTGTCCAAGTCAGGATCAGAGGAAAGCATCCGAAAGAAAAGTTTCCATCTCGGTGTGGAAGGGCACCACCGGACCCGGGAAAAGAGGCTGTCCACCCCCAACCAG
Seq C2 exon
TCGCCACTCAGCATTCGTGGGTCCCTGTTTTCTGCCAGGCGCAGCAGCAGGACGAGTCTGTTCAGTTTTAAGGGGCGAGGAAGAGATCTGGGATCTGAGACAGAATTCGCTGATGATGAGCATAGCATTTTTGGAGACAACGAGAGCAGAAGGGGTTCACTATTCGTACCCCATAGACCCCGGGAGCGGCGCAGCAGTAACATCAGTCAGGCCAGTAGGTCCCCGCCAGTGCTACCGGTGAACGGGAAGATGCACAGTGCAGTGGACTGCAATGGCGTCGTGTCGCTTGTTGATGGACCCTCAGCCCTCATGCTCCCCAATGGACAGCTTCTTCCAGAGGTGATAATAGATAAGGCAACTTCCGACGACAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006639-'12-13,'12-12,14-13=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=0.768 C2=0.589
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(12.5=44.9),PF0253517=Zip=FE(36.2=100)
A:
PF0253517=Zip=FE(50.0=100),PF119333=DUF3451=PU(30.2=73.7)
C2:
PF0253517=Zip=PD(1.6=2.4),PF119333=DUF3451=FE(53.0=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGCCAACATCGAAGAAGCT
R:
TGACTGATGTTACTGCTGCGC
Band lengths:
296-581
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]