RnoEX0078613 @ rn6
Exon Skipping
Gene
ENSRNOG00000006639 | Scn9a
Description
sodium voltage-gated channel alpha subunit 9 [Source:RGD Symbol;Acc:69368]
Coordinates
chr3:52583951-52591588:-
Coord C1 exon
chr3:52591484-52591588
Coord A exon
chr3:52590954-52591224
Coord C2 exon
chr3:52583951-52588483
Length
271 bp
Sequences
Splice sites
3' ss Seq
ACTTTTGGTTTCTTTTGCAGAAC
3' ss Score
11.73
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
Exon sequences
Seq C1 exon
CTTGGAGGTCAAGATATCTTTATGACAGAAGAACAGAAGAAATACTATAATGCAATGAAGAAGCTTGGGTCCAAGAAACCACAAAAACCAATTCCAAGGCCAGGG
Seq A exon
AACAAATTCCAAGGATGTATATTTGACTTAGTGACAAACCAAGCTTTTGATATCACCATCATGGTTCTTATATGCCTCAACATGGTAACCATGATGGTAGAAAAAGAGGGGCAAACTGAGTACATGGATTATGTTTTACACTGGATCAACATGGTCTTCATTATCCTGTTCACTGGGGAGTGTGTGCTGAAGCTAATCTCCCTCAGACATTACTACTTCACTGTGGGTTGGAACATTTTTGATTTTGTGGTAGTGATCCTCTCCATTGTAG
Seq C2 exon
GAATGTTTCTCGCTGAGATGATAGAGAAGTATTTCGTGTCCCCTACCCTGTTCCGAGTCATCCGCCTGGCCAGGATTGGACGAATCCTACGCCTGATCAAAGGCGCCAAGGGGATCCGCACTCTGCTCTTTGCTCTGATGATGTCCCTTCCTGCGCTGTTCAACATCGGCCTCCTGCTTTTCCTGGTCATGTTCATCTACGCCATCTTTGGGATGTCCAACTTTGCCTACGTTAAAAAGGAGGCTGGAATTAATGACATGTTCAACTTTGAGACTTTTGGCAACAGCATGATCTGCTTGTTCCAAATCACCACCTCTGCGGGCTGGGACGGACTGCTGGCCCCCATCCTCAACAGCGCACCTCCTGATTGTGACCCTAAAAAAGTTCACCCAGGAAGTTCAGTGGAAGGGGACTGTGGGAACCCATCCGTGGGGATTTTCTACTTTGTCAGCTACATCATCATATCCTTCCTGGTGGTGGTGAACATGTACATCGCTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006639-'33-29,'33-28,34-29
Average complexity
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=0.223
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(20.4=47.3)
C2:
PF0052026=Ion_trans=PD(79.1=42.2),PF0061222=IQ=WD(100=5.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACCAATTCCAAGGCCAGGG
R:
GCTGTTGCCAAAAGTCTCAAAGT
Band lengths:
308-579
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]