RnoEX6017199 @ rn6
Exon Skipping
Gene
ENSRNOG00000006639 | Scn9a
Description
sodium voltage-gated channel alpha subunit 9 [Source:RGD Symbol;Acc:69368]
Coordinates
chr3:52590954-52595989:-
Coord C1 exon
chr3:52595852-52595989
Coord A exon
chr3:52591484-52591588
Coord C2 exon
chr3:52590954-52591224
Length
105 bp
Sequences
Splice sites
3' ss Seq
TTTCTTTTTTATTCCTTTACCTT
3' ss Score
1.26
5' ss Seq
GGGGTAAAT
5' ss Score
4.46
Exon sequences
Seq C1 exon
GTAAATGAACAGCCGAAATACGAATACAGTCTCTACATGTACATTTACTTTGTCATCTTCATCATCTTCGGCTCATTCTTCACGTTGAACCTGTTCATTGGTGTCATCATAGATAATTTCAACCAACAGAAAAAAAAG
Seq A exon
CTTGGAGGTCAAGATATCTTTATGACAGAAGAACAGAAGAAATACTATAATGCAATGAAGAAGCTTGGGTCCAAGAAACCACAAAAACCAATTCCAAGGCCAGGG
Seq C2 exon
AACAAATTCCAAGGATGTATATTTGACTTAGTGACAAACCAAGCTTTTGATATCACCATCATGGTTCTTATATGCCTCAACATGGTAACCATGATGGTAGAAAAAGAGGGGCAAACTGAGTACATGGATTATGTTTTACACTGGATCAACATGGTCTTCATTATCCTGTTCACTGGGGAGTGTGTGCTGAAGCTAATCTCCCTCAGACATTACTACTTCACTGTGGGTTGGAACATTTTTGATTTTGTGGTAGTGATCCTCTCCATTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006639-'32-28,'32-27,33-28=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(15.3=76.1)
A:
NO
C2:
PF0052026=Ion_trans=PU(20.4=47.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGCTCATTCTTCACGTTGA
R:
ACTCCCCAGTGAACAGGATAA
Band lengths:
252-357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]