Variant report

Variant	rs1572551
Chromosome Location	chr1:169916580-169916581
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:169915601..169917304-chr1:169919424..169921809,3	MCF-7	breast:

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10489175	1.00[CEU][hapmap];0.81[AFR][1000 genomes]
rs10800488	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11577641	1.00[CEU][hapmap]
rs11579102	1.00[CEU][hapmap];0.96[AFR][1000 genomes]
rs11579254	1.00[CEU][hapmap];0.90[CHB][hapmap]
rs11581959	0.81[AFR][1000 genomes]
rs11582552	0.98[AFR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11584208	1.00[CEU][hapmap];0.84[CHB][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11585093	0.81[AFR][1000 genomes]
rs11588736	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs11589659	1.00[CEU][hapmap];0.81[AFR][1000 genomes]
rs11589671	1.00[CEU][hapmap]
rs11590604	1.00[CEU][hapmap]
rs1360294	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs16828209	1.00[CEU][hapmap]
rs16862683	1.00[CEU][hapmap]
rs16862870	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16862874	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16862902	1.00[CEU][hapmap];0.83[CHB][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16862943	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1928887	1.00[CEU][hapmap];0.83[CHB][hapmap];0.85[EUR][1000 genomes]
rs2150111	0.84[EUR][1000 genomes]
rs2420510	1.00[CEU][hapmap];0.81[AFR][1000 genomes]
rs2420511	1.00[CEU][hapmap]
rs35196850	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3753312	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs3766138	1.00[CEU][hapmap]
rs3766145	1.00[CEU][hapmap]
rs3766146	1.00[CEU][hapmap]
rs3766150	0.88[CEU][hapmap]
rs3817859	1.00[CEU][hapmap]
rs41496844	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4656202	1.00[CEU][hapmap];0.84[CHB][hapmap];0.85[EUR][1000 genomes]
rs4656720	0.81[AFR][1000 genomes]
rs4656722	0.81[AFR][1000 genomes]
rs4656726	1.00[CEU][hapmap]
rs4656730	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4656731	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4656732	1.00[CEU][hapmap];0.92[CHB][hapmap];0.82[JPT][hapmap];0.84[EUR][1000 genomes]
rs55806711	0.96[AFR][1000 genomes]
rs56041446	0.85[EUR][1000 genomes]
rs58111285	0.81[AFR][1000 genomes]
rs59916635	0.85[EUR][1000 genomes]
rs61806076	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61806098	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61807814	0.81[AFR][1000 genomes]
rs61807840	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61825319	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61825320	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61825343	0.85[EUR][1000 genomes]
rs61825344	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61825346	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61825347	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61825348	0.85[EUR][1000 genomes]
rs61825352	0.85[EUR][1000 genomes]
rs61825353	0.85[EUR][1000 genomes]
rs61825354	0.85[EUR][1000 genomes]
rs61825356	0.85[EUR][1000 genomes]
rs61825358	0.85[EUR][1000 genomes]
rs6685211	1.00[CEU][hapmap]
rs73026253	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73035088	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3451367	chr1:169630075-169976964	Strong transcription Flanking Active TSS Genic enhancers Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	esv1845220	chr1:169782006-169933886	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv1007190	chr1:169890542-169929582	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv997360	chr1:169892284-169946436	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1015110	chr1:169892661-169929582	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1013271	chr1:169892661-169960549	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv1010007	chr1:169895282-169946436	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv1003588	chr1:169895984-169946436	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv998382	chr1:169899427-169929582	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv1011978	chr1:169899427-169946436	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv997289	chr1:169899427-169960549	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv1012520	chr1:169899427-169969444	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
13	nsv1003803	chr1:169901733-169929582	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
14	nsv1001670	chr1:169901733-169956450	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
15	nsv1004999	chr1:169901733-169960549	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
16	nsv1009843	chr1:169903077-169950341	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
17	nsv1012222	chr1:169903862-169950341	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
18	nsv1006673	chr1:169913597-169946436	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
19	nsv1005982	chr1:169913597-169958219	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
20	nsv1001013	chr1:169913597-169960549	Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169878400-169946200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
2	chr1:169904000-169929800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:169904000-169934800	Weak transcription	Fetal Heart	heart
4	chr1:169904000-169949800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr1:169904000-170010400	Weak transcription	Aorta	Aorta
6	chr1:169909200-169946000	Weak transcription	Primary T cells from cord blood	blood
7	chr1:169910400-169946200	Weak transcription	Primary B cells from cord blood	blood
8	chr1:169911200-169948800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr1:169911400-169923000	Weak transcription	Liver	Liver
10	chr1:169911400-169946200	Weak transcription	Dnd41	blood
11	chr1:169911400-169948600	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr1:169911600-169918400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr1:169911600-169927000	Weak transcription	Fetal Intestine Large	intestine
14	chr1:169911600-169945800	Weak transcription	Fetal Muscle Leg	muscle
15	chr1:169911800-169946400	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr1:169911800-169949600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr1:169911800-169951200	Weak transcription	Brain Hippocampus Middle	brain
18	chr1:169911800-169968400	Weak transcription	Psoas Muscle	Psoas
19	chr1:169912000-169918600	Weak transcription	NHLF	lung
20	chr1:169912000-169922400	Weak transcription	HSMM	muscle
21	chr1:169912000-169946200	Weak transcription	Brain Cingulate Gyrus	brain
22	chr1:169912000-169953600	Weak transcription	Rectal Smooth Muscle	rectum
23	chr1:169912000-169966000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr1:169912000-169968600	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr1:169912400-169918000	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr1:169912400-169918200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr1:169912400-169950400	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr1:169912600-169918800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr1:169912800-169967200	Weak transcription	NHDF-Ad	bronchial
30	chr1:169913400-169953600	Weak transcription	Primary B cells from peripheral blood	blood
31	chr1:169913800-169917000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr1:169913800-169938800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr1:169913800-169968400	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr1:169914000-169920800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr1:169914000-169945800	Weak transcription	Adipose Nuclei	Adipose
36	chr1:169914000-169946200	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr1:169914000-169968400	Weak transcription	Ovary	ovary
38	chr1:169914200-169921200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr1:169914200-169923000	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr1:169914200-169945800	Weak transcription	Fetal Muscle Trunk	muscle
41	chr1:169914600-169923800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr1:169914600-169923800	Weak transcription	Esophagus	oesophagus
43	chr1:169914600-169933400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr1:169914600-169961800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr1:169914600-169968000	Weak transcription	Fetal Stomach	stomach
46	chr1:169914800-169946000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr1:169914800-169984000	Weak transcription	Left Ventricle	heart
48	chr1:169914800-169984800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr1:169914800-169988800	Weak transcription	Fetal Intestine Small	intestine
50	chr1:169915200-169950800	Weak transcription	Fetal Lung	lung

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