Variant report

Variant	rs16888435
Chromosome Location	chr6:57127622-57127623
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	chr6:57126469..57129335-chr6:57130714..57132915,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10080526	0.95[ASN][1000 genomes]
rs10949013	0.93[CHB][hapmap];0.90[CHD][hapmap];0.85[ASN][1000 genomes]
rs10949014	0.93[CHB][hapmap];0.85[ASN][1000 genomes]
rs13210430	0.83[ASN][1000 genomes]
rs16888410	0.93[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.90[ASN][1000 genomes]
rs16888420	0.95[ASN][1000 genomes]
rs16888439	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs34331825	0.81[AFR][1000 genomes]
rs62415953	0.90[ASN][1000 genomes]
rs62415955	0.98[ASN][1000 genomes]
rs62415956	0.86[ASN][1000 genomes]
rs62418081	0.94[ASN][1000 genomes]
rs62418083	0.86[ASN][1000 genomes]
rs6900622	0.84[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6905517	0.83[ASN][1000 genomes]
rs6905598	0.85[ASN][1000 genomes]
rs6906645	0.93[CHB][hapmap];0.94[CHD][hapmap];0.85[ASN][1000 genomes]
rs6918565	0.90[ASN][1000 genomes]
rs9475804	1.00[ASN][1000 genomes]
rs9475805	0.93[CHB][hapmap];0.86[CHD][hapmap];0.85[ASN][1000 genomes]
rs9475808	1.00[ASN][1000 genomes]
rs984684	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv533050	chr6:56504480-57297586	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1034095	chr6:57102042-57162808	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv528165	chr6:57104266-57130574	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:57118400-57128200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:57123400-57130200	Weak transcription	Fetal Brain Male	brain
3	chr6:57123800-57130600	Enhancers	Colon Smooth Muscle	Colon
4	chr6:57125200-57133200	Enhancers	Rectal Smooth Muscle	rectum
5	chr6:57125600-57128800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr6:57126200-57128400	Enhancers	Skeletal Muscle Female	skeletal muscle
7	chr6:57126400-57128800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr6:57126400-57128800	Enhancers	Fetal Stomach	stomach
9	chr6:57126400-57129200	Enhancers	NHLF	lung
10	chr6:57126400-57130800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr6:57126600-57128400	Enhancers	Adipose Nuclei	Adipose
12	chr6:57126600-57128400	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr6:57126600-57128600	Enhancers	HSMMtube	muscle
14	chr6:57126600-57128800	Enhancers	HSMM	muscle
15	chr6:57126600-57129000	Enhancers	NH-A	brain
16	chr6:57126800-57128200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr6:57127000-57128800	Enhancers	Fetal Lung	lung
18	chr6:57127200-57127800	Enhancers	Ovary	ovary
19	chr6:57127200-57127800	Flanking Active TSS	Stomach Smooth Muscle	stomach
20	chr6:57127200-57128200	Flanking Active TSS	Osteobl	bone
21	chr6:57127200-57128400	Enhancers	Aorta	Aorta
22	chr6:57127200-57128800	Enhancers	Duodenum Smooth Muscle	Duodenum
23	chr6:57127200-57128800	Enhancers	Fetal Muscle Leg	muscle
24	chr6:57127400-57127800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr6:57127400-57128200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr6:57127400-57128800	Enhancers	HUVEC	blood vessel
27	chr6:57127400-57128800	Enhancers	NHEK	skin
28	chr6:57127600-57127800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
29	chr6:57127600-57127800	Flanking Active TSS	NHDF-Ad	bronchial
30	chr6:57127600-57128000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr6:57127600-57128200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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