RnoEX0078540 @ rn6
Exon Skipping
Gene
ENSRNOG00000053122 | Scn1a
Description
sodium voltage-gated channel alpha subunit 1 [Source:RGD Symbol;Acc:69364]
Coordinates
chr3:52406543-52416561:-
Coord C1 exon
chr3:52416439-52416561
Coord A exon
chr3:52408672-52408953
Coord C2 exon
chr3:52406543-52406596
Length
282 bp
Sequences
Splice sites
3' ss Seq
TCTCTCCGTTTGTGTATTAGGTG
3' ss Score
10.39
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
Exon sequences
Seq C1 exon
GTTTCATTGGTCAGTTTAACAGCAAATGCCTTGGGTTACTCTGAACTTGGGGCCATCAAGTCCCTAAGGACACTAAGAGCTCTGAGACCCCTAAGAGCCTTATCACGATTTGAAGGGATGAGG
Seq A exon
GTGGTTGTGAATGCCCTGTTAGGAGCAATTCCATCCATCATGAATGTGCTTCTGGTTTGCCTTATATTCTGGCTAATTTTCAGCATCATGGGCGTAAATTTGTTTGCTGGCAAATTCTACCACTGTGTTAACACCACAACTGGTGACACATTTGAGATCACCGAAGTCAATAATCATTCTGATTGCCTAAAACTAATAGAAAGAAATGAGACTGCCCGGTGGAAAAATGTGAAAGTAAACTTTGATAATGTAGGATTTGGGTATCTTTCTTTGCTTCAAGTT
Seq C2 exon
GCGACGTTTAAGGGTTGGATGGATATCATGTATGCAGCAGTTGATTCCAGAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053122_MULTIEX1-2/2=C1-C2
Average complexity
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=FE(17.5=100)
A:
PF0052026=Ion_trans=FE(40.6=100)
C2:
PF0052026=Ion_trans=FE(7.4=100)
Main Skipping Isoform:
ENSRNOT00000091259fB12977
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGGTCAGTTTAACAGCAAATGCC
R:
ATTTCTGGAATCAACTGCTGCA
Band lengths:
172-454
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]