HsaALTA0005822-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000148200 | NR6A1
Description
nuclear receptor subfamily 6, group A, member 1 [Source:HGNC Symbol;Acc:7985]
Coordinates
chr9:127316607-127495628:-
Coord C1 exon
chr9:127495587-127495628
Coord A exon
chr9:127316838-127316849
Coord C2 exon
chr9:127316607-127316837
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
ENSG00000148200-1-5,1-4-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.293 A=NA C2=0.025
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0010513=zf-C4=WD(100=89.7)
Associated events
Other assemblies
Conservation
Rat
(rn6)
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)