RnoEX6017170 @ rn6
Exon Skipping
Gene
ENSRNOG00000053122 | Scn1a
Description
sodium voltage-gated channel alpha subunit 1 [Source:RGD Symbol;Acc:69364]
Coordinates
chr3:52443605-52447622:-
Coord C1 exon
chr3:52447347-52447622
Coord A exon
chr3:52445584-52445712
Coord C2 exon
chr3:52443605-52443696
Length
129 bp
Sequences
Splice sites
3' ss Seq
ATTTGGCTACTTGTTTCTAGGTA
3' ss Score
7.48
5' ss Seq
CGCGTAAGT
5' ss Score
9.93
Exon sequences
Seq C1 exon
GGAGGTCACACTAGGATGCATATTTAACAGAAGATAGAGAAATATAAGGAGATTGGAGATAATACGCATGCACACACTTGTCTATGGGTCCTGTTGAATGGAGATTTGGATTTTTCAGTGTTACTTAATTTTTTTAAAAATGTAATACATGAGCTTTCTTTCGTATGTTCCTTAACACTAACCTACATTATTCAGCATGTTAATTATGTGCACTATTTTGACGAACTGTGTATTTATGACAATGAGTAACCCTCCTGACTGGACAAAGAATGTAGA
Seq A exon
GTACACCTTCACAGGAATATATACCTTTGAATCACTAATAAAAATTATTGCAAGGGGCTTCTGTTTAGAAGATTTTACTTTCCTTCGTGACCCATGGAACTGGCTGGACTTCACTGTCATTACATTCGC
Seq C2 exon
ATATGTGACGGAGTTTGTGGACCTGGGCAATGTCTCAGCGTTGAGAACATTCAGAGTTCTTCGAGCATTGAAAACAATATCAGTCATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053122-'9-13,'9-12,10-13=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=PU(0.7=7.4)
A:
PF0052026=Ion_trans=FE(16.1=100)
C2:
PF0052026=Ion_trans=FE(11.6=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:
ACGCATGCACACACTTGTCTA
R:
GACATTGCCCAGGTCCACAAA
Band lengths:
247-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]