Variant report

Variant	rs2239642
Chromosome Location	chr6:75851698-75851699
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:75840955..75842935-chr6:75850816..75852541,2	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs16886197	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2274901	1.00[AMR][1000 genomes]
rs2300792	1.00[AMR][1000 genomes]
rs2300794	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3756790	1.00[AMR][1000 genomes]
rs3777503	1.00[AMR][1000 genomes]
rs9447452	0.87[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022377	chr6:75762463-75919592	Genic enhancers Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
2	nsv538309	chr6:75762463-75919592	Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Enhancers Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv830697	chr6:75763095-75915029	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
4	nsv1016804	chr6:75775846-76188585	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
5	nsv538310	chr6:75775846-76188585	Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
6	nsv463155	chr6:75789526-75980419	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	18 gene(s)	inside rSNPs	diseases
7	nsv603762	chr6:75789526-75980419	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	18 gene(s)	inside rSNPs	diseases
8	nsv1024079	chr6:75848556-76238519	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:75809600-75862000	Weak transcription	Fetal Kidney	kidney
2	chr6:75813000-75866200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:75817600-75862200	Strong transcription	HMEC	breast
4	chr6:75823400-75862600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr6:75824600-75868200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr6:75824600-75879600	Weak transcription	Fetal Intestine Small	intestine
7	chr6:75827400-75866000	Weak transcription	Left Ventricle	heart
8	chr6:75829600-75853800	Weak transcription	Rectal Smooth Muscle	rectum
9	chr6:75832400-75855000	Weak transcription	Pancreas	Pancrea
10	chr6:75835800-75852200	Strong transcription	Stomach Smooth Muscle	stomach
11	chr6:75838200-75862600	Strong transcription	NHEK	skin
12	chr6:75839800-75852000	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr6:75839800-75853800	Weak transcription	Psoas Muscle	Psoas
14	chr6:75840600-75852600	Strong transcription	Osteobl	bone
15	chr6:75841200-75861400	Weak transcription	Hela-S3	cervix
16	chr6:75841800-75855000	Weak transcription	Gastric	stomach
17	chr6:75842000-75865200	Strong transcription	HSMM	muscle
18	chr6:75842800-75852600	Strong transcription	HSMMtube	muscle
19	chr6:75843000-75852400	Strong transcription	Fetal Muscle Trunk	muscle
20	chr6:75843200-75852000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr6:75843200-75864800	Weak transcription	Lung	lung
22	chr6:75843800-75852000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr6:75844000-75851800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr6:75844000-75854200	Weak transcription	Colon Smooth Muscle	Colon
25	chr6:75844000-75861600	Weak transcription	Aorta	Aorta
26	chr6:75844600-75852400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr6:75844600-75855000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr6:75844800-75852200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr6:75845200-75855000	Weak transcription	Fetal Stomach	stomach
30	chr6:75845200-75855400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr6:75846000-75851800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr6:75846000-75856000	Strong transcription	Ovary	ovary
33	chr6:75846800-75852200	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr6:75847000-75858800	Strong transcription	Fetal Muscle Leg	muscle
35	chr6:75848200-75854200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr6:75848400-75854000	Weak transcription	Fetal Intestine Large	intestine
37	chr6:75848600-75854200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr6:75850000-75852000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr6:75850000-75852400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr6:75850800-75852600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
41	chr6:75851000-75852800	Strong transcription	Muscle Satellite Cultured Cells	--
42	chr6:75851000-75855600	Strong transcription	Adipose Nuclei	Adipose
43	chr6:75851000-75857600	Strong transcription	Placenta Amnion	Placenta Amnion
44	chr6:75851200-75853800	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr6:75851400-75852400	Strong transcription	NH-A	brain
46	chr6:75851600-75852600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr6:75851600-75854800	Genic enhancers	NHDF-Ad	bronchial
48	chr6:75851600-75856800	Genic enhancers	NHLF	lung

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