Variant report

Variant	rs11061904
Chromosome Location	chr12:1768721-1768722
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	chr12:1768367..1774746-chr12:1797764..1801789,11	MCF-7	breast:

Variant related genes	Relation type
ENSG00000006831	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1860049	1.00[EUR][1000 genomes]
rs2041059	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2108398	1.00[EUR][1000 genomes]
rs2369974	1.00[EUR][1000 genomes]
rs2370054	1.00[EUR][1000 genomes]
rs35510932	1.00[EUR][1000 genomes]
rs4765838	1.00[EUR][1000 genomes]
rs4766411	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4766420	1.00[EUR][1000 genomes]
rs56369812	1.00[EUR][1000 genomes]
rs6489321	1.00[EUR][1000 genomes]
rs6489325	1.00[EUR][1000 genomes]
rs7133749	1.00[EUR][1000 genomes]
rs7135229	1.00[EUR][1000 genomes]
rs7297878	1.00[EUR][1000 genomes]
rs7304843	1.00[EUR][1000 genomes]
rs7308757	1.00[EUR][1000 genomes]
rs7314133	1.00[EUR][1000 genomes]
rs74061311	1.00[EUR][1000 genomes]
rs74061331	1.00[EUR][1000 genomes]
rs74061332	1.00[EUR][1000 genomes]
rs758026	1.00[EUR][1000 genomes]
rs758027	1.00[EUR][1000 genomes]
rs758169	1.00[EUR][1000 genomes]
rs7957003	1.00[EUR][1000 genomes]
rs7962777	1.00[EUR][1000 genomes]
rs7964434	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042863	chr12:1163817-1902302	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv541345	chr12:1163817-1902302	Strong transcription Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv898584	chr12:1607390-1783251	Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers 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	25 gene(s)	inside rSNPs	diseases
4	nsv832304	chr12:1710249-1868642	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	nsv468964	chr12:1749905-1769930	Strong transcription Genic enhancers Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
6	nsv556995	chr12:1749905-1769930	Strong transcription Genic enhancers Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:1752000-1769400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr12:1754200-1770600	Weak transcription	Colonic Mucosa	Colon
3	chr12:1754400-1769000	Weak transcription	HMEC	breast
4	chr12:1754600-1768800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr12:1755400-1769000	Weak transcription	Esophagus	oesophagus
6	chr12:1758000-1770800	Weak transcription	HSMMtube	muscle
7	chr12:1758400-1770600	Weak transcription	NH-A	brain
8	chr12:1758600-1769000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr12:1759800-1770600	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr12:1760000-1770200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr12:1760200-1770600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr12:1760600-1769400	Weak transcription	Fetal Brain Female	brain
13	chr12:1760600-1769800	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr12:1760800-1770800	Weak transcription	HSMM	muscle
15	chr12:1761000-1769200	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr12:1761000-1769800	Weak transcription	Stomach Smooth Muscle	stomach
17	chr12:1761200-1769800	Weak transcription	Fetal Lung	lung
18	chr12:1761400-1769200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr12:1761400-1770800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr12:1761600-1770800	Weak transcription	NHLF	lung
21	chr12:1761800-1769400	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr12:1762000-1769000	Weak transcription	Ovary	ovary
23	chr12:1762000-1769000	Weak transcription	K562	blood
24	chr12:1762600-1769400	Weak transcription	Colon Smooth Muscle	Colon
25	chr12:1762600-1769600	Weak transcription	Fetal Brain Male	brain
26	chr12:1763200-1769000	Weak transcription	Fetal Muscle Leg	muscle
27	chr12:1764200-1769400	Enhancers	Brain Substantia Nigra	brain
28	chr12:1764400-1770600	Weak transcription	Osteobl	bone
29	chr12:1764800-1769000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr12:1764800-1770800	Weak transcription	NHDF-Ad	bronchial
31	chr12:1765000-1769200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr12:1765000-1769200	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr12:1765000-1769200	Weak transcription	NHEK	skin
34	chr12:1765000-1770200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr12:1765400-1769000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr12:1765400-1769200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr12:1765800-1769000	Enhancers	Brain Angular Gyrus	brain
38	chr12:1765800-1769000	Enhancers	Brain Cingulate Gyrus	brain
39	chr12:1766000-1769000	Enhancers	Brain Anterior Caudate	brain
40	chr12:1766000-1769400	Enhancers	Brain Hippocampus Middle	brain
41	chr12:1766000-1769800	Enhancers	Left Ventricle	heart
42	chr12:1766400-1768800	Weak transcription	Lung	lung
43	chr12:1766400-1769000	Weak transcription	Fetal Muscle Trunk	muscle
44	chr12:1766600-1769400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
45	chr12:1766800-1769200	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr12:1767000-1769000	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr12:1767200-1769000	Weak transcription	Duodenum Mucosa	Duodenum
48	chr12:1767200-1769400	Weak transcription	A549	lung
49	chr12:1767400-1769400	Enhancers	Adipose Nuclei	Adipose
50	chr12:1767600-1768800	Weak transcription	Pancreas	Pancrea

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