Variant report

Variant	rs16961589
Chromosome Location	chr18:28849215-28849216
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1365290	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16961568	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16961573	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16961579	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16961588	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16961590	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16961592	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16961601	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16961605	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16961609	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16961613	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16961641	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs16961648	1.00[CEU][hapmap];0.93[AMR][1000 genomes]
rs16961657	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs16961679	1.00[CEU][hapmap];0.87[AMR][1000 genomes]
rs17728162	0.83[ASN][1000 genomes]
rs17728400	0.88[EUR][1000 genomes]
rs17801172	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17801274	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2912319	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56697971	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59592286	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59593146	0.88[EUR][1000 genomes]
rs59844732	0.93[AMR][1000 genomes]
rs60220975	0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs62087705	0.86[AMR][1000 genomes]
rs62087706	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62087750	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62087751	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62087754	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62087755	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62087756	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62088669	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62088670	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62088672	0.93[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs62088673	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62088674	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62088676	0.82[EUR][1000 genomes]
rs62088713	0.88[EUR][1000 genomes]
rs6506905	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6506907	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7234474	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7237750	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8096678	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9966811	1.00[CEU][hapmap]

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	esv3360998	chr18:28693111-28881812	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:28847600-28850400	Enhancers	Fetal Intestine Small	intestine
2	chr18:28847800-28849600	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr18:28847800-28850800	Enhancers	Fetal Intestine Large	intestine
4	chr18:28848000-28849400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr18:28848000-28849400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr18:28848000-28849800	Enhancers	NHEK	skin
7	chr18:28848200-28849400	Enhancers	HMEC	breast
8	chr18:28848200-28849600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr18:28848200-28854800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr18:28848800-28849400	Flanking Active TSS	GM12878-XiMat	blood
11	chr18:28848800-28849400	Enhancers	Hela-S3	cervix
12	chr18:28848800-28850800	Enhancers	Liver	Liver
13	chr18:28849000-28849400	Enhancers	NH-A	brain
14	chr18:28849000-28849600	Enhancers	Fetal Lung	lung
15	chr18:28849000-28849600	Enhancers	Rectal Mucosa Donor 31	rectum
16	chr18:28849000-28849600	Enhancers	HepG2	liver
17	chr18:28849000-28849800	Active TSS	Pancreatic Islets	Pancreatic Islet
18	chr18:28849000-28850000	Enhancers	Small Intestine	intestine
19	chr18:28849200-28849400	Active TSS	Duodenum Mucosa	Duodenum
20	chr18:28849200-28849400	Enhancers	Fetal Kidney	kidney
21	chr18:28849200-28849600	Flanking Active TSS	Stomach Mucosa	stomach
22	chr18:28849200-28849800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr18:28849200-28849800	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr18:28849200-28850000	Enhancers	Fetal Heart	heart
25	chr18:28849200-28853800	Weak transcription	A549	lung

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