Variant report

Variant	rs9380156
Chromosome Location	chr6:30141042-30141043
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs12175655	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12660499	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17188015	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17188113	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17194460	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2074477	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2239531	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2284167	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2284171	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2517602	0.82[ASN][1000 genomes]
rs28730510	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3734837	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3815081	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs41272587	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs41272591	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4282437	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56307380	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62390201	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62390202	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9348838	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9366753	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9366754	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9368622	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9368624	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9378189	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9378221	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9391677	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9391802	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv884057	chr6:30140540-30149251	ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer Enhancers Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9380156	HCG18	Cis_1M	lymphoblastoid	RTeQTL
rs9380156	HLA-L	cis	lymphoblastoid	seeQTL
rs9380156	TRIM26	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30135600-30141200	Strong transcription	HepG2	liver
2	chr6:30139000-30152000	Weak transcription	Liver	Liver
3	chr6:30140400-30141200	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:30140400-30141200	Bivalent Enhancer	Fetal Intestine Small	intestine
5	chr6:30141000-30141200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links