HsaALTD0005697-3/6 @ hg38
Alternative 5'ss
Gene
ENSG00000153253 | SCN3A
Description
sodium voltage-gated channel alpha subunit 3 [Source:HGNC Symbol;Acc:HGNC:10590]
Coordinates
chr2:165139476-165140998:-
Coord C1 exon
chr2:165140798-165140998
Coord A exon
chr2:165140785-165140797
Coord C2 exon
chr2:165139476-165139608
Length
13 bp
Sequences
Splice sites
5' ss Seq
CCAGTATGT
5' ss Score
5.8
3' ss Seq
CATCAGTATTTGGTTTGCAGGGC
3' ss Score
5.44
Exon sequences
Seq C1 exon
TCTCTCTTGAGTATCCGTGGCTCCCTGTTTTCCCCAAGACGCAATAGCAAAACAAGCATTTTCAGTTTCAGAGGTCGGGCAAAGGATGTTGGATCTGAAAATGACTTTGCTGATGATGAACACAGCACATTTGAAGACAGCGAAAGCAGGAGAGACTCACTGTTTGTGCCGCACAGACATGGAGAGCGACGCAACAGTAAC
Seq A exon
GTTAGTCAGGCCA
Seq C2 exon
GGCACCACCACAGAAACGGAAGTCAGAAAGAGAAGGTTAAGCTCTTACCAGATTTCAATGGAGATGCTGGAGGATTCCTCTGGAAGGCAAAGAGCCGTGAGCATAGCCAGCATTCTGACCAACACAATGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000153253-17-25,18-25,19-25,20-25,21-25,22-25-3/6
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.628 A=NA C2=0.222
Domain overlap (PFAM):
C1:
PF119333=DUF3451=FE(46.2=100)
A:
NA
C2:
PF119333=DUF3451=PD(16.4=82.2)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
GGAGAGCGACGCAACAGTAAC
R:
AGGAATCCTCCAGCATCTCCA
Band lengths:
100-113
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains