RnoEX6017181 @ rn6
Exon Skipping
Gene
ENSRNOG00000006639 | Scn9a
Description
sodium voltage-gated channel alpha subunit 9 [Source:RGD Symbol;Acc:69368]
Coordinates
chr3:52659775-52664209:-
Coord C1 exon
chr3:52663952-52664209
Coord A exon
chr3:52660150-52660269
Coord C2 exon
chr3:52659775-52659863
Length
120 bp
Sequences
Splice sites
3' ss Seq
GTCTCTTTTTCCTCCTGCAGACT
3' ss Score
11.84
5' ss Seq
TCATATCCT
5' ss Score
-34.24
Exon sequences
Seq C1 exon
ATGGCGATGCTGCCTCCTCCAGGACCTCAGAGTTTCGTTCACTTCACAAAACAGTCCCTTGCCCTCATTGAACAGCGTATTTCTGAAGAAAAAGCCAAGGAACACAAAGACGAAAAGAAAGATGATGAGGAAGAAGGCCCCAAGCCCAGCAGTGACTTGGAAGCTGGGAAACAGCTCCCCTTCATCTATGGAGACATTCCCCCTGGAATGGTGTCAGAGCCCCTGGAGGACCTGGACCCATACTATGCTGACAAAAAA
Seq A exon
ACTTTTATAGTATTGAACAAAGGGAAAGCAATCTTCCGTTTCAACGCCACCCCTGCTTTGTACATGCTGTCTCCCTTCAGTCCTCTAAGAAGAATATCTATTAAGATCTTAGTGCACTCA
Seq C2 exon
TTATTCAGCATGCTAATCATGTGCACAATTCTGACGAACTGCATATTCATGACCTTGAGCAACCCTCCAGAATGGACCAAAAATGTAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006639-'0-3,'0-2,3-3=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.485 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0052026=Ion_trans=PU(0.8=6.7)
Main Skipping Isoform:
ENSRNOT00000065126fB12997
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCAAGGAACACAAAGACGA
R:
TCCATTCTGGAGGGTTGCTCA
Band lengths:
242-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]