Variant report

Variant	rs66769612
Chromosome Location	chr3:160091708-160091709
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160089127..160092102-chr3:160166087..160168050,2	K562	blood:
2	chr3:160089762..160091914-chr3:160096661..160098564,2	K562	blood:

Variant related genes	Relation type
ENSG00000213186	Chromatin interaction

Extended variants
information (count: 107 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:98)

rs_ID	r²[population]
rs10513550	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11920289	0.98[EUR][1000 genomes]
rs12233589	0.98[EUR][1000 genomes]
rs2275153	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2305401	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2305406	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs33999879	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3736627	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3773371	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3806629	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs41272959	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4532176	0.81[ASN][1000 genomes]
rs55815116	0.94[AFR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56119270	0.98[EUR][1000 genomes]
rs56124988	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56150006	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56343019	0.83[ASN][1000 genomes]
rs56396435	0.83[ASN][1000 genomes]
rs56401539	0.91[EUR][1000 genomes]
rs57030267	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57050097	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57277659	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57285344	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57328745	0.83[ASN][1000 genomes]
rs57555307	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58627305	0.98[EUR][1000 genomes]
rs58654032	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58776572	0.91[EUR][1000 genomes]
rs58915028	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59695030	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59700052	0.83[AFR][1000 genomes]
rs59799252	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60066272	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs60153357	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60222090	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60304551	0.88[AFR][1000 genomes]
rs60607858	0.91[EUR][1000 genomes]
rs60703878	0.88[AFR][1000 genomes]
rs60914777	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61066536	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272169	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272176	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272179	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272180	0.98[EUR][1000 genomes]
rs62272181	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62272185	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272187	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272188	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272190	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272191	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272193	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272196	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272197	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272198	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272205	0.84[EUR][1000 genomes]
rs62272207	0.98[EUR][1000 genomes]
rs62272231	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272236	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272237	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272245	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272247	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272249	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62272251	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62272254	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62272255	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62272256	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62272257	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62272258	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62272259	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62272780	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62272781	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62272783	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62272785	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62272787	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62272788	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62272790	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62272793	0.84[EUR][1000 genomes]
rs62272799	0.82[EUR][1000 genomes]
rs62272804	0.83[ASN][1000 genomes]
rs62272805	0.83[ASN][1000 genomes]
rs62272806	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62272831	0.83[ASN][1000 genomes]
rs62272833	0.83[ASN][1000 genomes]
rs62272836	0.83[ASN][1000 genomes]
rs62272838	0.83[ASN][1000 genomes]
rs66850724	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6764107	0.88[AFR][1000 genomes]
rs6772987	0.88[AFR][1000 genomes]
rs68069205	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73154582	0.83[ASN][1000 genomes]
rs73154583	0.83[ASN][1000 genomes]
rs73154587	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73155914	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7614701	0.98[EUR][1000 genomes]
rs7618017	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7645798	0.91[EUR][1000 genomes]
rs7648832	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9637414	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1000453	chr3:159853305-160366357	Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	259 gene(s)	inside rSNPs	diseases
3	nsv536779	chr3:159853305-160366357	Strong transcription Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	259 gene(s)	inside rSNPs	diseases
4	esv1800136	chr3:159950498-160278160	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
5	esv1801767	chr3:159950498-160279411	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
6	esv1801474	chr3:160012843-160153305	Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	206 gene(s)	inside rSNPs	diseases
7	nsv1008519	chr3:160038710-160292589	Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	255 gene(s)	inside rSNPs	diseases
8	esv1795255	chr3:160089896-160153305	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	205 gene(s)	inside rSNPs	diseases
9	esv1801686	chr3:160089896-160248363	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	211 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160055200-160103400	Weak transcription	Rectal Smooth Muscle	rectum
2	chr3:160056400-160098000	Weak transcription	Aorta	Aorta
3	chr3:160061400-160109600	Weak transcription	Fetal Heart	heart
4	chr3:160063400-160094000	Weak transcription	Fetal Brain Female	brain
5	chr3:160066400-160099200	Weak transcription	NHEK	skin
6	chr3:160067800-160097800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr3:160068600-160096000	Weak transcription	Gastric	stomach
8	chr3:160068800-160094000	Weak transcription	Adipose Nuclei	Adipose
9	chr3:160068800-160094000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr3:160069000-160115200	Weak transcription	Brain Cingulate Gyrus	brain
11	chr3:160070400-160092400	Weak transcription	HMEC	breast
12	chr3:160071400-160098200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr3:160071400-160102000	Weak transcription	Small Intestine	intestine
14	chr3:160071600-160099400	Weak transcription	Placenta	Placenta
15	chr3:160071800-160091800	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr3:160071800-160092000	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr3:160072000-160096400	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr3:160072600-160096200	Weak transcription	HepG2	liver
19	chr3:160073000-160092600	Weak transcription	Fetal Kidney	kidney
20	chr3:160073200-160097200	Weak transcription	Primary monocytes fromperipheralblood	blood
21	chr3:160073400-160099200	Weak transcription	HSMMtube	muscle
22	chr3:160073800-160092400	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr3:160073800-160092800	Weak transcription	Brain Anterior Caudate	brain
24	chr3:160073800-160108400	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr3:160074800-160101400	Weak transcription	Brain Angular Gyrus	brain
26	chr3:160075000-160094400	Weak transcription	Colon Smooth Muscle	Colon
27	chr3:160075600-160094000	Weak transcription	HSMM	muscle
28	chr3:160076200-160116200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr3:160077400-160098200	Weak transcription	Lung	lung
30	chr3:160079800-160093400	Weak transcription	Fetal Brain Male	brain
31	chr3:160081200-160102200	Weak transcription	HUVEC	blood vessel
32	chr3:160081800-160100000	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr3:160083000-160097000	Weak transcription	Right Ventricle	heart
34	chr3:160083400-160094000	Weak transcription	Duodenum Mucosa	Duodenum
35	chr3:160083400-160113000	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr3:160083600-160098000	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr3:160083800-160097400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr3:160083800-160108200	Weak transcription	GM12878-XiMat	blood
39	chr3:160083800-160116000	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr3:160084000-160104000	Weak transcription	Brain Hippocampus Middle	brain
41	chr3:160085800-160092200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr3:160087600-160098000	Weak transcription	H9 Cell Line	embryonic stem cell
43	chr3:160088200-160099800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr3:160088600-160091800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr3:160088800-160092200	Weak transcription	Primary T helper cells PMA-I stimulated	--
46	chr3:160088800-160093200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr3:160088800-160101400	Weak transcription	Hela-S3	cervix
48	chr3:160088800-160108600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
49	chr3:160088800-160108600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr3:160088800-160116200	Weak transcription	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links