RnoEX0078616 @ rn6
Exon Skipping
Gene
ENSRNOG00000006639 | Scn9a
Description
sodium voltage-gated channel alpha subunit 9 [Source:RGD Symbol;Acc:69368]
Coordinates
chr3:52614112-52625711:-
Coord C1 exon
chr3:52625235-52625711
Coord A exon
chr3:52620190-52620269
Coord C2 exon
chr3:52614112-52614229
Length
80 bp
Sequences
Splice sites
3' ss Seq
TAACCTTGTCACCTCTGCAGGGG
3' ss Score
8.37
5' ss Seq
CAGGTTACC
5' ss Score
-1.62
Exon sequences
Seq C1 exon
GTCCTGAACCTGTTTCTGGCTCTTTTGCTGAGTTCATTTAGTTCTGACAATCTTACAGCAATTGAGGAAGACACCGATGCAAACAACCTCCAGATCGCAGTGGCCAGAATTAAGAGGGGAATCAATTATGTGAAACAGACCCTGCGTGAATTCATTCTAAAATCATTTTCCAAAAAGCCAAAGGGCTCCAAGGACACAAAACGAACAGCAGATCCCAACAACAAGAAAGAAAACTATATTTCAAACCGTACCCTTGCGGAGATGAGCAAGGATCACAATTTCCTCAAAGAAAAGGATAGGATCAGTGGTTATGGCAGCAGTCTAGACAAAAGCTTTATGGATGAAAATGATTACCAGTCCTTTATCCATAACCCCAGCCTCACAGTGACAGTGCCAATTGCACCTGGGGAGTCTGATTTGGAGATTATGAACACAGAAGAGCTTAGCAGTGACTCAGACAGTGACTACAGCAAAGAG
Seq A exon
GGGTAAACACAGTGGAACGCCCCCAGGATACAGCTCTGTGCTGTAACTACTCAGAGACACATGTGACCACTTTTACACAG
Seq C2 exon
AAACGGAACCGATCAAGCTCTTCTGAGTGCAGCACTGTTGACAACCCTCTGCCAGGAGAAGAGGAGGCTGAAGCAGAGCCCGTAAACGCAGATGAGCCTGAAGCCTGCTTTACAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006639_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.319 A=1.000 C2=0.725
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.2=5.0),PF065128=Na_trans_assoc=PU(61.4=84.9)
A:
PF065128=Na_trans_assoc=PD(0.1=0.0)
C2:
PF065128=Na_trans_assoc=FE(17.7=100)
Main Inclusion Isoform:
ENSRNOT00000065126fB12998
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCATAACCCCAGCCTCACA
R:
CTGGCAGAGGGTTGTCAACAG
Band lengths:
169-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]