Variant report

Variant	rs3752306
Chromosome Location	chr20:1290016-1290017
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:1282248..1284954-chr20:1288783..1291101,2	MCF-7	breast:
2	chr20:1286013..1291003-chr20:1304965..1309000,4	K562	blood:
3	chr20:1205252..1207423-chr20:1288622..1291157,2	K562	blood:

Variant related genes	Relation type
ENSG00000234684	Chromatin interaction
ENSG00000125775	Chromatin interaction
ENSG00000244588	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs12624336	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3764715	0.94[ASN][1000 genomes]
rs3795139	0.95[ASN][1000 genomes]
rs3795140	0.92[ASN][1000 genomes]
rs3795141	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3795142	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3818331	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6134520	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1057939	chr20:824980-1316778	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv1057097	chr20:1030940-1314265	Active TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv1067393	chr20:1254805-1302796	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv912588	chr20:1269588-1300456	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv912589	chr20:1272686-1298397	Enhancers Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv912590	chr20:1278770-1298397	Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv912591	chr20:1283523-1296811	Strong transcription Flanking Active TSS Bivalent/Poised TSS Weak transcription Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a
8	nsv912592	chr20:1283523-1297516	Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a
9	nsv912593	chr20:1283523-1298397	Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv912594	chr20:1283523-1299968	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv912595	chr20:1283523-1313762	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:1272600-1294000	Weak transcription	Rectal Smooth Muscle	rectum
2	chr20:1273000-1294000	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr20:1275800-1293800	Weak transcription	Brain Substantia Nigra	brain
4	chr20:1278200-1294000	Weak transcription	Colon Smooth Muscle	Colon
5	chr20:1280600-1294000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr20:1281800-1294000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr20:1282000-1293800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr20:1282000-1293800	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr20:1282000-1294000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr20:1282000-1294400	Weak transcription	Stomach Mucosa	stomach
11	chr20:1282000-1298200	Weak transcription	A549	lung
12	chr20:1282200-1293600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr20:1282200-1294000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr20:1282200-1294000	Weak transcription	NHDF-Ad	bronchial
15	chr20:1282200-1294000	Weak transcription	NHEK	skin
16	chr20:1282200-1298600	Weak transcription	Thymus	Thymus
17	chr20:1282400-1294200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr20:1283800-1301800	Weak transcription	HSMMtube	muscle
19	chr20:1284000-1294000	Weak transcription	Osteobl	bone
20	chr20:1284200-1303600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr20:1284400-1293200	Weak transcription	Brain Angular Gyrus	brain
22	chr20:1284600-1290600	Strong transcription	Fetal Stomach	stomach
23	chr20:1285200-1293800	Strong transcription	Lung	lung
24	chr20:1285200-1298200	Weak transcription	K562	blood
25	chr20:1285800-1294400	Weak transcription	Primary T cells from cord blood	blood
26	chr20:1286200-1291000	Weak transcription	Left Ventricle	heart
27	chr20:1286400-1293400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr20:1286400-1294200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr20:1286600-1292400	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr20:1286600-1293800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr20:1286600-1293800	Strong transcription	Gastric	stomach
32	chr20:1286600-1293800	Weak transcription	Pancreas	Pancrea
33	chr20:1286600-1293800	Weak transcription	Right Ventricle	heart
34	chr20:1286600-1294000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr20:1286600-1294000	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr20:1286600-1294000	Weak transcription	Ovary	ovary
37	chr20:1286600-1294200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
38	chr20:1287000-1294000	Weak transcription	Fetal Muscle Leg	muscle
39	chr20:1287000-1294600	Weak transcription	Adipose Nuclei	Adipose
40	chr20:1287200-1291600	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr20:1287200-1293800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr20:1287200-1294000	Weak transcription	Aorta	Aorta
43	chr20:1287200-1294200	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr20:1287400-1293800	Weak transcription	NHLF	lung
45	chr20:1287400-1294000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr20:1287400-1294000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr20:1287400-1298200	Weak transcription	Liver	Liver
48	chr20:1287800-1293600	Weak transcription	Fetal Muscle Trunk	muscle
49	chr20:1288000-1290200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr20:1288000-1293800	Weak transcription	Stomach Smooth Muscle	stomach

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