Variant report

Variant	rs7747677
Chromosome Location	chr6:12159112-12159113
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	chr6:12158453..12160780-chr6:12288410..12290344,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs12662314	0.80[ASN][1000 genomes]
rs12663812	0.82[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs12664849	0.82[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs16872348	0.80[ASN][1000 genomes]
rs2157492	0.85[ASN][1000 genomes]
rs2228211	0.82[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs28769650	0.84[ASN][1000 genomes]
rs3777756	0.85[ASN][1000 genomes]
rs3777757	0.85[ASN][1000 genomes]
rs3777764	0.82[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs3777767	0.84[ASN][1000 genomes]
rs3777772	0.82[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs3777774	0.82[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs3777777	0.84[ASN][1000 genomes]
rs3800499	0.82[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs4317394	0.80[ASN][1000 genomes]
rs4443504	0.84[ASN][1000 genomes]
rs4484521	0.81[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs4714187	0.82[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs55637995	0.80[ASN][1000 genomes]
rs6910367	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs6917623	0.84[ASN][1000 genomes]
rs6931770	0.84[ASN][1000 genomes]
rs72828103	0.84[ASN][1000 genomes]
rs72828104	0.84[ASN][1000 genomes]
rs72828110	0.85[ASN][1000 genomes]
rs7449638	0.82[ASN][1000 genomes]
rs7741589	0.82[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830586	chr6:12130076-12295334	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:12122200-12161800	Weak transcription	Rectal Smooth Muscle	rectum
2	chr6:12137000-12163600	Weak transcription	Small Intestine	intestine
3	chr6:12139000-12161600	Weak transcription	HepG2	liver
4	chr6:12140200-12161800	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr6:12140600-12161400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr6:12140600-12161400	Weak transcription	Pancreas	Pancrea
7	chr6:12140600-12161400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr6:12140600-12161400	Weak transcription	Spleen	Spleen
9	chr6:12140600-12161600	Weak transcription	Esophagus	oesophagus
10	chr6:12140600-12161800	Weak transcription	Gastric	stomach
11	chr6:12140600-12163600	Weak transcription	Primary hematopoietic stem cells	blood
12	chr6:12140600-12163600	Weak transcription	Psoas Muscle	Psoas
13	chr6:12140600-12163800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr6:12140800-12160400	Weak transcription	Primary B cells from cord blood	blood
15	chr6:12140800-12160400	Weak transcription	Primary T cells fromperipheralblood	blood
16	chr6:12140800-12160600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:12140800-12161000	Weak transcription	Adipose Nuclei	Adipose
18	chr6:12140800-12161400	Weak transcription	Thymus	Thymus
19	chr6:12140800-12161600	Weak transcription	Primary B cells from peripheral blood	blood
20	chr6:12140800-12161600	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr6:12140800-12161800	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr6:12140800-12161800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr6:12140800-12161800	Weak transcription	Primary T helper cells PMA-I stimulated	--
24	chr6:12140800-12162800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr6:12141000-12161600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr6:12141000-12161600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr6:12141000-12161800	Weak transcription	Stomach Smooth Muscle	stomach
28	chr6:12141200-12162400	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr6:12141800-12161600	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr6:12148000-12161800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr6:12148800-12161400	Weak transcription	Left Ventricle	heart
32	chr6:12149400-12159400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr6:12149400-12160200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr6:12149400-12160200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr6:12149400-12160400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr6:12149400-12160400	Weak transcription	HSMMtube	muscle
37	chr6:12149400-12160600	Weak transcription	Fetal Thymus	thymus
38	chr6:12149400-12161000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr6:12149400-12161800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr6:12149400-12163600	Weak transcription	HMEC	breast
41	chr6:12149600-12161800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr6:12149800-12160400	Weak transcription	NHDF-Ad	bronchial
43	chr6:12150200-12160600	Weak transcription	Primary T helper cells fromperipheralblood	blood
44	chr6:12150200-12160800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr6:12150200-12161400	Weak transcription	Ovary	ovary
46	chr6:12150200-12161600	Weak transcription	Brain Germinal Matrix	brain
47	chr6:12150200-12161800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr6:12150400-12160200	Weak transcription	HSMM	muscle
49	chr6:12150400-12165800	Weak transcription	Pancreatic Islets	Pancreatic Islet
50	chr6:12150600-12160400	Weak transcription	K562	blood

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