Variant report

Variant	rs16825020
Chromosome Location	chr1:186147404-186147405
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	chr1:186138817..186141455-chr1:186147158..186149563,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143341	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10489752	1.00[CEU][hapmap]
rs11576689	1.00[CEU][hapmap]
rs11586165	0.85[EUR][1000 genomes]
rs12067376	1.00[CEU][hapmap]
rs16824945	1.00[CEU][hapmap]
rs16825012	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs16825022	1.00[CEU][hapmap];0.81[YRI][hapmap]
rs16825024	1.00[CEU][hapmap];0.81[YRI][hapmap]
rs41317489	0.85[EUR][1000 genomes]
rs41317491	0.85[EUR][1000 genomes]
rs6672327	1.00[CEU][hapmap]
rs6695626	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs72707448	0.85[EUR][1000 genomes]
rs72707452	0.85[EUR][1000 genomes]
rs72707455	0.85[EUR][1000 genomes]
rs72707472	0.85[EUR][1000 genomes]
rs72707476	0.85[EUR][1000 genomes]
rs72720904	0.85[EUR][1000 genomes]
rs72720910	0.85[EUR][1000 genomes]
rs72720911	0.85[EUR][1000 genomes]
rs7518663	0.85[EUR][1000 genomes]
rs7527214	1.00[CEU][hapmap]
rs7539719	1.00[CEU][hapmap]
rs7552194	1.00[CEU][hapmap]
rs9661710	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3424090	chr1:185679718-186270877	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv1004481	chr1:186095854-186750968	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv535223	chr1:186095854-186750968	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active 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 target site	60 gene(s)	inside rSNPs	diseases
4	nsv1007237	chr1:186137724-186226502	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:186114600-186160800	Weak transcription	Fetal Kidney	kidney
2	chr1:186133600-186160800	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr1:186133800-186147800	Weak transcription	Left Ventricle	heart
4	chr1:186134600-186152200	Weak transcription	NH-A	brain
5	chr1:186135000-186147800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr1:186136200-186152400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr1:186136200-186153200	Weak transcription	Fetal Lung	lung
8	chr1:186136200-186157600	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr1:186136800-186157000	Weak transcription	Aorta	Aorta
10	chr1:186137000-186152800	Weak transcription	Liver	Liver
11	chr1:186137200-186152000	Weak transcription	Adipose Nuclei	Adipose
12	chr1:186139200-186147600	Weak transcription	NHDF-Ad	bronchial
13	chr1:186140200-186148000	Weak transcription	Right Atrium	heart
14	chr1:186145000-186147800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr1:186145000-186158400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr1:186145400-186151200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr1:186147000-186148400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr1:186147000-186148600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr1:186147000-186148800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr1:186147000-186148800	Enhancers	HMEC	breast
21	chr1:186147200-186148600	Enhancers	NHEK	skin
22	chr1:186147400-186148000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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