RnoEX6017195 @ rn6
Exon Skipping
Gene
ENSRNOG00000006639 | Scn9a
Description
sodium voltage-gated channel alpha subunit 9 [Source:RGD Symbol;Acc:69368]
Coordinates
chr3:52599666-52606402:-
Coord C1 exon
chr3:52606248-52606402
Coord A exon
chr3:52603232-52603405
Coord C2 exon
chr3:52599666-52599788
Length
174 bp
Sequences
Splice sites
3' ss Seq
ATTGAAATGTGTTTCCACAGGCT
3' ss Score
7.72
5' ss Seq
GATGTAAGT
5' ss Score
9.11
Exon sequences
Seq C1 exon
GTTGTGTGAGGAGATTTCCATGCTGCCAAGTTAATGTAGACTCTGGGAAAGGGAAAGTTTGGTGGACCATCAGGAAGACGTGCTACAGGATAGTTGAACACAGCTGGTTTGAAAGCTTCATCGTTCTCATGATCCTGCTCAGCAGTGGAGCTCTG
Seq A exon
GCTTTTGAAGATATCTATATTGAAAAGAAAAAGACCATTAAGATTATCCTGGAGTATGCTGACAAGATATTCACCTACATCTTCATTCTGGAAATGCTTCTAAAATGGGTCGCATATGGGTATAAAACATATTTCACTAATGCCTGGTGTTGGCTGGACTTCTTAATTGTTGAT
Seq C2 exon
GTGTCTCTAGTTACTTTAGTAGCCAACACTCTTGGCTACTCAGACCTTGGCCCCATTAAATCTCTACGGACACTGAGGGCCCTAAGACCCCTAAGAGCCTTGTCTAGATTTGAAGGAATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006639-'26-23,'26-22,27-23=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:
PF065128=Na_trans_assoc=PD(20.0=84.6)
A:
PF0052026=Ion_trans=PU(17.0=67.2)
C2:
PF0052026=Ion_trans=FE(17.5=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:
GAGGAGATTTCCATGCTGCCA
R:
CTTAGGGGTCTTAGGGCCCTC
Band lengths:
243-417
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]