HsaALTA0005823-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000148200 | NR6A1
Description
nuclear receptor subfamily 6, group A, member 1 [Source:HGNC Symbol;Acc:7985]
Coordinates
chr9:127300371-127302466:-
Coord C1 exon
chr9:127302312-127302466
Coord A exon
chr9:127300596-127300598
Coord C2 exon
chr9:127300371-127300595
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CGCAAGACTTTTCTCTCCAGTAG
3' ss Score
3.08
Exon sequences
Seq C1 exon
ATATCGGAAGAAGAAATCGAAAGGATCATGTCTGGGCAGGAGTTTGAGGAAGAGGCCAATCACTGGAGCAACCATGGTGATAGTGACCACAGTTCCCCTGGGAACAGGGCTTCGGAGAGCAACCAGCCCTCACCAGGCTCCACACTGTCTTCCAG
Seq A exon
TAG
Seq C2 exon
GTCTGTGGAACTGAATGGATTCATGGCCTTCAGGGAACAGTACATGGGAATGTCTGTGCCTCCACATTACCAATATATACCGCACCTTTTTAGCTATTCTGGCCACTCACCACTTCTGCCCCAACAAGCTCGCAGCCTGGATCCCCAGTCATACAGTCTGATTCACCAGCTGTTATCAGCCGAGGACCTGGAACCATTGGGCACGCCCATGTTGATTGAAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148200-6-9,6-8-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.869 A=NA C2=0.061
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACAGGGCTTCGGAGAGCAA
R:
TGTACTGTTCCCTGAAGGCCA
Band lengths:
98-101
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)