Variant report

Variant	rs10434861
Chromosome Location	chr6:16722942-16722943
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	chr6:16717139..16719939-chr6:16720526..16723481,3	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10456788	1.00[CEU][hapmap];0.90[TSI][hapmap];0.86[EUR][1000 genomes]
rs10456789	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10456790	1.00[CEU][hapmap];0.90[TSI][hapmap];0.86[EUR][1000 genomes]
rs10456791	0.86[EUR][1000 genomes]
rs10949379	0.86[EUR][1000 genomes]
rs12194640	0.86[CEU][hapmap]
rs16878970	1.00[CEU][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes]
rs16879003	1.00[CEU][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes]
rs3806144	1.00[CEU][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3812217	0.85[CHD][hapmap];0.93[JPT][hapmap]
rs6459484	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6915772	0.88[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9350015	1.00[CEU][hapmap];0.92[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap]
rs9358103	0.89[CHD][hapmap];0.93[JPT][hapmap]

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	nsv532022	chr6:16448152-16825567	ZNF genes & repeats Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1031423	chr6:16467215-16823725	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1015992	chr6:16469059-16846847	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv538148	chr6:16469059-16846847	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:16706200-16730600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:16706400-16742600	Weak transcription	Pancreas	Pancrea
3	chr6:16708000-16724200	Weak transcription	Spleen	Spleen
4	chr6:16713000-16724000	Weak transcription	Primary T cells from cord blood	blood
5	chr6:16713200-16731400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr6:16713600-16724000	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr6:16713800-16731200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr6:16713800-16747800	Weak transcription	Brain Germinal Matrix	brain
9	chr6:16714000-16723200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:16714000-16723800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr6:16714200-16723000	Weak transcription	GM12878-XiMat	blood
12	chr6:16714200-16724000	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr6:16714200-16724200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr6:16714200-16724400	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr6:16714400-16724600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr6:16714600-16724200	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr6:16714800-16724400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr6:16717400-16724000	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr6:16719000-16729000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr6:16719000-16731400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr6:16719200-16723000	Weak transcription	Liver	Liver
22	chr6:16719200-16724200	Weak transcription	Adipose Nuclei	Adipose
23	chr6:16719200-16736800	Weak transcription	Fetal Brain Female	brain
24	chr6:16719400-16723600	Weak transcription	Osteobl	bone
25	chr6:16719600-16724200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr6:16719800-16723000	Weak transcription	NHDF-Ad	bronchial
27	chr6:16719800-16727200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr6:16720000-16724600	Weak transcription	Stomach Smooth Muscle	stomach
29	chr6:16720200-16723800	Weak transcription	Primary monocytes fromperipheralblood	blood
30	chr6:16720200-16724600	Weak transcription	Aorta	Aorta
31	chr6:16720200-16725600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr6:16720200-16747800	Weak transcription	Fetal Brain Male	brain
33	chr6:16720400-16731000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr6:16720600-16723600	Weak transcription	Monocytes-CD14+_RO01746	blood
35	chr6:16720600-16724200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr6:16720600-16724200	Weak transcription	Ovary	ovary
37	chr6:16720600-16724400	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr6:16720600-16724600	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr6:16720600-16724800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr6:16721000-16727200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr6:16721200-16725800	Enhancers	Fetal Heart	heart
42	chr6:16721200-16726000	Weak transcription	Right Atrium	heart
43	chr6:16721400-16731200	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr6:16721800-16726200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr6:16721800-16732800	Enhancers	Fetal Intestine Large	intestine
46	chr6:16722000-16723000	Enhancers	Brain Hippocampus Middle	brain
47	chr6:16722000-16723200	Enhancers	Colon Smooth Muscle	Colon
48	chr6:16722000-16723200	Flanking Active TSS	NHEK	skin
49	chr6:16722000-16723400	Enhancers	iPS-20b Cell Line	embryonic stem cell
50	chr6:16722000-16723800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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