RnoEX6017169 @ rn6
Exon Skipping
Gene
ENSRNOG00000053122 | Scn1a
Description
sodium voltage-gated channel alpha subunit 1 [Source:RGD Symbol;Acc:69364]
Coordinates
chr3:52445584-52449824:-
Coord C1 exon
chr3:52449704-52449824
Coord A exon
chr3:52447347-52447434
Coord C2 exon
chr3:52445584-52445712
Length
88 bp
Sequences
Splice sites
3' ss Seq
TCCTTAACACTAACCTACATTAT
3' ss Score
-4.48
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
ACTTTTATAGTATTGAATAAAGGGAAGGCCATCTTCCGGTTCAGTGCCACTTCTGCCCTGTACATTTTAACTCCCTTCAATCCTCTTAGGAAAATAGCTATTAAGATTTTGGTACACTCAT
Seq A exon
TATTCAGCATGTTAATTATGTGCACTATTTTGACGAACTGTGTATTTATGACAATGAGTAACCCTCCTGACTGGACAAAGAATGTAGA
Seq C2 exon
GTACACCTTCACAGGAATATATACCTTTGAATCACTAATAAAAATTATTGCAAGGGGCTTCTGTTTAGAAGATTTTACTTTCCTTCGTGACCCATGGAACTGGCTGGACTTCACTGTCATTACATTCGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053122-'7-12,'7-11,9-12=AN
Average complexity
A_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=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(0.7=6.7)
C2:
PF0052026=Ion_trans=FE(16.1=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCACTTCTGCCCTGTACATT
R:
CAGTTCCATGGGTCACGAAGG
Band lengths:
178-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]