HsaALTA0005822-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000148200 | NR6A1
Description
nuclear receptor subfamily 6 group A member 1 [Source:HGNC Symbol;Acc:HGNC:7985]
Coordinates
chr9:124554328-124733349:-
Coord C1 exon
chr9:124733308-124733349
Coord A exon
chr9:124554559-124554570
Coord C2 exon
chr9:124554328-124554558
Length
12 bp
Sequences
Splice sites
5' ss Seq
CTAGTAAGT
5' ss Score
8.78
3' ss Seq
TCTAACTTGAACATGATCAGTTT
3' ss Score
1.04
Exon sequences
Seq C1 exon
GTTTCTGTCAGGATGAATTGGCAGAGCTTGACCCAGGCACTA
Seq A exon
TTTCTGTTTCAG
Seq C2 exon
ATGATCGGGCTGAACAACGAACCTGTCTCATTTGTGGGGACCGCGCTACAGGCTTGCACTATGGGATCATCTCCTGTGAGGGCTGCAAAGGGTTTTTCAAGCGGAGCATTTGCAACAAACGGGTATATCGATGCAGTCGTGACAAGAACTGTGTCATGTCTCGGAAGCAGAGGAACAGGTGCCAGTACTGCCGCCTGCTCAAATGCCTCCAGATGGGGATGAACCGGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148200-8-14,8-13-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.248 A=NA C2=0.026
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0010513=zf-C4=WD(100=89.7)
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTGGCAGAGCTTGACCCAG
R:
CCCATAGTGCAAGCCTGTAGC
Band lengths:
92-104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development