HsaALTD1041858-1/2 @ hg38
Alternative 5'ss
Gene
ENSG00000196876 | SCN8A
Description
sodium voltage-gated channel alpha subunit 8 [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr12:51780202-51780771:+
Coord C1 exon
chr12:51780202-51780271
Coord A exon
NA
Coord C2 exon
chr12:51780649-51780771
Length
0 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
TCTCTTCTGTTTCTGTGTAGGTC
3' ss Score
11.97
Exon sequences
Seq C1 exon
GTACCATTAAATTTGTCTGGCTTAATTTAATGGGGACTTCTGGGACCTGCAGAGACTGTAAAGGGCGAGG
Seq A exon
NA
Seq C2 exon
GTCTCTTTAGTCAGCCTTATAGCTAATGCCCTGGGCTACTCGGAACTAGGTGCCATAAAGTCCCTTAGGACCCTAAGAGCTTTGAGACCCTTAAGAGCCTTATCACGATTTGAAGGGATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196876-50-46,51-46-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0052026=Ion_trans=FE(17.4=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGTCTGGCTTAATTTAATGGGGAC
R:
CCTCATCCCTTCAAATCGTGA
Band lengths:
182-516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains