Variant report

Variant	rs16854224
Chromosome Location	chr3:143455010-143455011
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs16854227	1.00[CEU][hapmap];0.89[YRI][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17591646	1.00[CEU][hapmap];1.00[GIH][hapmap];0.87[TSI][hapmap];0.98[EUR][1000 genomes]
rs17591660	1.00[CEU][hapmap];1.00[GIH][hapmap];0.87[TSI][hapmap];0.98[EUR][1000 genomes]
rs17650950	0.92[CEU][hapmap]
rs17651016	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs17651124	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs17651150	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs17651169	1.00[CEU][hapmap];1.00[GIH][hapmap];0.87[TSI][hapmap];0.98[EUR][1000 genomes]
rs2069040	1.00[CEU][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58187430	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58306502	1.00[ASN][1000 genomes]
rs58518314	1.00[ASN][1000 genomes]
rs58881945	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60468477	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67534321	1.00[ASN][1000 genomes]
rs67785207	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73009477	1.00[ASN][1000 genomes]
rs73154705	0.98[EUR][1000 genomes]
rs73154706	0.98[EUR][1000 genomes]
rs73154708	0.98[EUR][1000 genomes]
rs73154709	0.98[EUR][1000 genomes]
rs73154710	0.98[EUR][1000 genomes]
rs73154712	0.98[EUR][1000 genomes]
rs73154713	0.98[EUR][1000 genomes]
rs73154715	0.98[EUR][1000 genomes]
rs73154716	0.98[EUR][1000 genomes]
rs73154717	0.98[EUR][1000 genomes]
rs73154718	0.98[EUR][1000 genomes]
rs73154719	0.95[EUR][1000 genomes]
rs73154721	0.98[EUR][1000 genomes]
rs7616384	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7628206	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	esv3411176	chr3:143423880-143457059	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv877567	chr3:143438124-143478454	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143394200-143470200	Weak transcription	Primary B cells from cord blood	blood
2	chr3:143438400-143469800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr3:143442200-143470200	Weak transcription	Monocytes-CD14+_RO01746	blood
4	chr3:143446800-143460400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr3:143447400-143469800	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr3:143450800-143457800	Weak transcription	Fetal Lung	lung
7	chr3:143450800-143488600	Weak transcription	Ovary	ovary
8	chr3:143451200-143455200	Weak transcription	HSMM	muscle
9	chr3:143451400-143458600	Weak transcription	Brain Hippocampus Middle	brain
10	chr3:143453600-143455800	Enhancers	Pancreatic Islets	Pancreatic Islet
11	chr3:143453800-143455400	Enhancers	HMEC	breast
12	chr3:143454600-143456600	Enhancers	Muscle Satellite Cultured Cells	--
13	chr3:143454600-143457200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr3:143454600-143457800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:143454600-143458000	Enhancers	NHEK	skin
16	chr3:143454800-143455800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:143454800-143455800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr3:143454800-143456600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:143454800-143456600	Enhancers	HUVEC	blood vessel

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