HsaALTA0005823-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000148200 | NR6A1
Description
nuclear receptor subfamily 6 group A member 1 [Source:HGNC Symbol;Acc:HGNC:7985]
Coordinates
chr9:124538092-124540187:-
Coord C1 exon
chr9:124540033-124540187
Coord A exon
chr9:124538317-124538319
Coord C2 exon
chr9:124538092-124538316
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
ENSG00000148200-29-19,29-18-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.874 A=NA C2=0.054
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
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