Variant report

Variant	rs12664686
Chromosome Location	chr6:150981965-150981966
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:150966591..150968646-chr6:150981306..150983343,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs17080062	1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs17080073	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17080108	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2345745	0.93[CEU][hapmap]
rs4869926	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4869927	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4869928	0.81[CEU][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4869930	0.93[CEU][hapmap]
rs4869931	0.93[CEU][hapmap]
rs55646755	0.83[EUR][1000 genomes]
rs58824807	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs59466561	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6899782	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6908127	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6929743	0.93[CEU][hapmap]
rs73010188	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9478775	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9478780	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs9478783	0.92[CEU][hapmap]
rs9480514	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9480526	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9480528	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9480529	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9480530	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9480531	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs9480533	0.86[CEU][hapmap]

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	nsv886772	chr6:150743364-151024280	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv886774	chr6:150931131-150983318	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1030326	chr6:150967665-151641372	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150959800-150987400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:150964800-150987400	Weak transcription	Brain Cingulate Gyrus	brain
3	chr6:150971600-150985400	Strong transcription	Primary B cells from peripheral blood	blood
4	chr6:150971600-150986800	Weak transcription	Left Ventricle	heart
5	chr6:150974800-150982000	Weak transcription	Fetal Muscle Leg	muscle
6	chr6:150974800-150988600	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr6:150975600-151002800	Weak transcription	Fetal Muscle Trunk	muscle
8	chr6:150975800-150988400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr6:150976000-150988600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:150977800-150988800	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr6:150977800-150989200	Weak transcription	HUVEC	blood vessel
12	chr6:150979200-150982200	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr6:150979400-150987000	Weak transcription	Right Atrium	heart
14	chr6:150979600-150983600	Enhancers	Fetal Stomach	stomach
15	chr6:150980000-150982600	Weak transcription	Primary B cells from cord blood	blood
16	chr6:150980600-150987000	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr6:150980600-150988400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr6:150980600-150988800	Weak transcription	Fetal Brain Female	brain
19	chr6:150980600-151008800	Weak transcription	Gastric	stomach
20	chr6:150980800-150982000	Weak transcription	Placenta	Placenta
21	chr6:150980800-150982000	Weak transcription	Spleen	Spleen
22	chr6:150980800-150983000	Weak transcription	Thymus	Thymus
23	chr6:150980800-150985800	Weak transcription	Lung	lung
24	chr6:150980800-150987000	Weak transcription	Brain Substantia Nigra	brain
25	chr6:150980800-150987000	Weak transcription	Rectal Smooth Muscle	rectum
26	chr6:150980800-150987000	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr6:150980800-150987400	Weak transcription	Duodenum Mucosa	Duodenum
28	chr6:150980800-150989000	Weak transcription	Small Intestine	intestine
29	chr6:150980800-150989600	Weak transcription	Brain Anterior Caudate	brain
30	chr6:150980800-150989600	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr6:150980800-151014800	Weak transcription	Pancreas	Pancrea
32	chr6:150981000-150982000	Weak transcription	Fetal Thymus	thymus
33	chr6:150981000-150982600	Weak transcription	Fetal Lung	lung
34	chr6:150981000-150985200	Weak transcription	Fetal Intestine Small	intestine
35	chr6:150981000-150987000	Weak transcription	Stomach Mucosa	stomach
36	chr6:150981000-150988800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr6:150981000-150989400	Weak transcription	Liver	Liver
38	chr6:150981200-150982800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr6:150981200-150983800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr6:150981200-150987200	Weak transcription	Fetal Kidney	kidney
41	chr6:150981200-150988400	Weak transcription	Fetal Heart	heart
42	chr6:150981200-150988800	Weak transcription	HMEC	breast
43	chr6:150981200-150989200	Weak transcription	Fetal Intestine Large	intestine

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