Variant report

Variant	rs628479
Chromosome Location	chr1:172134090-172134091
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:172133515..172135721-chr1:172140408..172143277,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10489297	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10910941	1.00[CHB][hapmap]
rs10911270	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11484597	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11584955	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11589142	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12123837	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12126381	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12129264	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12129806	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12135520	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16843855	1.00[CHB][hapmap]
rs16843860	1.00[CHB][hapmap]
rs17277008	1.00[CHB][hapmap]
rs17277127	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17346438	1.00[CHB][hapmap]
rs17346452	1.00[CHB][hapmap]
rs17346473	1.00[CHB][hapmap]
rs17350544	1.00[CHB][hapmap]
rs17350579	1.00[CHB][hapmap]
rs17350586	1.00[CHB][hapmap]
rs17361789	1.00[CHB][hapmap]
rs17361886	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17361920	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17361955	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2209096	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2209098	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2224782	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2421990	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2421991	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3915514	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4394690	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4540689	1.00[CHB][hapmap]
rs55935473	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56138708	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs593688	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61807788	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6694089	1.00[CHB][hapmap]
rs7535241	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs979021	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172114400-172137000	Weak transcription	Brain Angular Gyrus	brain
2	chr1:172123400-172149200	Weak transcription	Brain Anterior Caudate	brain
3	chr1:172125200-172137800	Weak transcription	Fetal Kidney	kidney
4	chr1:172125600-172137400	Weak transcription	NHLF	lung
5	chr1:172128400-172149800	Weak transcription	Aorta	Aorta
6	chr1:172131000-172137800	Weak transcription	Fetal Stomach	stomach
7	chr1:172132000-172134400	Enhancers	Fetal Heart	heart
8	chr1:172132200-172134800	Enhancers	Placenta Amnion	Placenta Amnion
9	chr1:172132400-172134800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr1:172132600-172134200	Enhancers	NHDF-Ad	bronchial
11	chr1:172132600-172134800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr1:172132600-172137400	Weak transcription	Right Ventricle	heart
13	chr1:172132800-172137200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr1:172132800-172137600	Weak transcription	Pancreas	Pancrea
15	chr1:172132800-172150000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr1:172133000-172137200	Weak transcription	HSMM	muscle
17	chr1:172133000-172137400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr1:172133200-172137000	Weak transcription	Fetal Lung	lung
19	chr1:172133200-172137600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr1:172133400-172137600	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr1:172133600-172134200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr1:172133600-172134800	Enhancers	A549	lung
23	chr1:172133600-172137200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr1:172133800-172134200	Enhancers	Cortex derived primary cultured neurospheres	brain
25	chr1:172133800-172134200	Enhancers	Brain Hippocampus Middle	brain
26	chr1:172133800-172134200	Enhancers	Brain Inferior Temporal Lobe	brain
27	chr1:172133800-172134200	Enhancers	Brain Substantia Nigra	brain
28	chr1:172133800-172134200	Enhancers	Right Atrium	heart
29	chr1:172133800-172134800	Enhancers	Left Ventricle	heart
30	chr1:172133800-172134800	Enhancers	Sigmoid Colon	Sigmoid Colon
31	chr1:172133800-172137000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr1:172134000-172134200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr1:172134000-172137000	Weak transcription	Brain Cingulate Gyrus	brain
34	chr1:172134000-172137200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr1:172134000-172137400	Weak transcription	NH-A	brain
36	chr1:172134000-172137600	Weak transcription	Osteobl	bone
37	chr1:172134000-172139200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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