RnoEX0078536 @ rn6
Exon Skipping
Gene
ENSRNOG00000053122 | Scn1a
Description
sodium voltage-gated channel alpha subunit 1 [Source:RGD Symbol;Acc:69364]
Coordinates
chr3:52408672-52414238:-
Coord C1 exon
chr3:52414085-52414238
Coord A exon
chr3:52413656-52413719
Coord C2 exon
chr3:52408672-52408953
Length
64 bp
Sequences
Splice sites
3' ss Seq
TATATTTCTATTTTATATAGGAT
3' ss Score
8.01
5' ss Seq
TGGGTACTG
5' ss Score
2.97
Exon sequences
Seq C1 exon
CATAGAGCCGCAATCGCTGTGTCCAAGCGTCAACCAGGCAGTCATTTTGTTTTGGGTTTTCCGTCTCTCTTTCAAAGCATGTGCTTCTACGCCACGCGACTGAGTAACGCATGCTGCATAGTGCTTGAGAAGGAGTTAGAAAGTAATGAATGAG
Seq A exon
GATAATCTTGCTCCAACTTGGATGGGGTGGAGCGGTGGTTCCTCCCCTCAGCCCCTTATTATGG
Seq C2 exon
GTGGTTGTGAATGCCCTGTTAGGAGCAATTCCATCCATCATGAATGTGCTTCTGGTTTGCCTTATATTCTGGCTAATTTTCAGCATCATGGGCGTAAATTTGTTTGCTGGCAAATTCTACCACTGTGTTAACACCACAACTGGTGACACATTTGAGATCACCGAAGTCAATAATCATTCTGATTGCCTAAAACTAATAGAAAGAAATGAGACTGCCCGGTGGAAAAATGTGAAAGTAAACTTTGATAATGTAGGATTTGGGTATCTTTCTTTGCTTCAAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053122-'30-32,'30-31,31-32
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(25.5=54.9)
A:
PF0052026=Ion_trans=PD(7.9=31.8)
C2:
PF0052026=Ion_trans=FE(40.6=100)
Main Inclusion Isoform:
ENSRNOT00000091259fB12978
Main Skipping Isoform:
ENSRNOT00000091259fB12980
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
TAACGCATGCTGCATAGTGCT
R:
ACGCCCATGATGCTGAAAATT
Band lengths:
145-209
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]