Variant report

Variant	rs7652081
Chromosome Location	chr3:156542659-156542660
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:1 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:156541940-156545935	IMR90	lung:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:156268894..156273100-chr3:156541711..156545313,4	MCF-7	breast:
2	chr3:156390293..156396385-chr3:156542364..156548172,18	MCF-7	breast:
3	chr3:156390535..156395368-chr3:156542467..156546251,7	MCF-7	breast:
4	chr3:156527592..156531932-chr3:156540848..156546879,8	MCF-7	breast:
5	chr3:156391796..156394617-chr3:156542307..156544876,4	K562	blood:

No data

Variant related genes	Relation type
LEKR1	TF binding region
ENSG00000114850	Chromatin interaction
ENSG00000230457	Chromatin interaction
ENSG00000163659	Chromatin interaction
ENSG00000243926	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11918032	1.00[EUR][1000 genomes]
rs11918873	1.00[EUR][1000 genomes]
rs11918949	1.00[EUR][1000 genomes]
rs11921057	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11925276	1.00[EUR][1000 genomes]
rs12106760	1.00[EUR][1000 genomes]
rs12106846	1.00[EUR][1000 genomes]
rs12107991	1.00[EUR][1000 genomes]
rs12107994	1.00[EUR][1000 genomes]
rs16826610	1.00[EUR][1000 genomes]
rs56772168	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56984599	1.00[EUR][1000 genomes]
rs57676345	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58897582	1.00[EUR][1000 genomes]
rs61469347	1.00[EUR][1000 genomes]
rs6774975	1.00[EUR][1000 genomes]
rs6788106	1.00[EUR][1000 genomes]
rs6789293	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6793139	1.00[EUR][1000 genomes]
rs73012043	1.00[EUR][1000 genomes]
rs73013921	1.00[EUR][1000 genomes]
rs73013929	1.00[EUR][1000 genomes]
rs73013931	1.00[EUR][1000 genomes]
rs73013985	1.00[EUR][1000 genomes]
rs73014000	1.00[EUR][1000 genomes]
rs73015891	1.00[EUR][1000 genomes]
rs73017741	1.00[EUR][1000 genomes]
rs73019707	1.00[EUR][1000 genomes]
rs73019709	1.00[EUR][1000 genomes]
rs73019730	1.00[EUR][1000 genomes]
rs73019732	1.00[EUR][1000 genomes]
rs73019733	1.00[EUR][1000 genomes]
rs73021795	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73021801	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73025844	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73025863	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73025882	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73025895	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73025901	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73027741	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73027753	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73027764	1.00[AMR][1000 genomes]
rs73029518	1.00[EUR][1000 genomes]
rs73029521	1.00[EUR][1000 genomes]
rs73029526	1.00[EUR][1000 genomes]
rs7612186	1.00[EUR][1000 genomes]
rs7623810	1.00[EUR][1000 genomes]
rs7634624	1.00[EUR][1000 genomes]
rs7635251	1.00[AMR][1000 genomes]
rs7645166	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428745	chr3:156405054-156577840	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv877685	chr3:156444383-156611676	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
3	nsv877686	chr3:156489509-156557697	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156535400-156543400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:156536200-156543200	Weak transcription	Fetal Kidney	kidney
3	chr3:156536400-156543000	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr3:156536400-156543200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr3:156536400-156543200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr3:156536400-156543200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr3:156536400-156543200	Weak transcription	Thymus	Thymus
8	chr3:156537000-156543200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr3:156537000-156543400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr3:156537000-156543400	Weak transcription	Liver	Liver
11	chr3:156537000-156543600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr3:156537000-156543600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr3:156538000-156543400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr3:156538600-156543200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr3:156538600-156543400	Weak transcription	NHLF	lung
16	chr3:156538800-156543200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr3:156538800-156543200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:156538800-156543200	Weak transcription	NHDF-Ad	bronchial
19	chr3:156538800-156543400	Weak transcription	HSMMtube	muscle
20	chr3:156539000-156543200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr3:156539000-156543200	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr3:156539000-156543200	Weak transcription	HMEC	breast
23	chr3:156539000-156543200	Weak transcription	HSMM	muscle
24	chr3:156539000-156543200	Weak transcription	HUVEC	blood vessel
25	chr3:156539000-156543200	Weak transcription	Osteobl	bone
26	chr3:156539000-156543400	Weak transcription	NH-A	brain
27	chr3:156539200-156543200	Weak transcription	GM12878-XiMat	blood
28	chr3:156539200-156543400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr3:156541600-156543000	Enhancers	Rectal Mucosa Donor 31	rectum
30	chr3:156541800-156543200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr3:156541800-156543400	Enhancers	Fetal Intestine Large	intestine
32	chr3:156541800-156543600	Enhancers	Fetal Intestine Small	intestine
33	chr3:156541800-156543800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr3:156542000-156542800	Enhancers	Stomach Mucosa	stomach
35	chr3:156542000-156543400	Enhancers	NHEK	skin
36	chr3:156542200-156543200	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr3:156542200-156543400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
38	chr3:156542200-156543400	Enhancers	A549	lung
39	chr3:156542400-156542800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr3:156542400-156543000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr3:156542400-156543200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr3:156542400-156543200	Enhancers	Hela-S3	cervix
43	chr3:156542400-156543200	Enhancers	K562	blood
44	chr3:156542400-156543600	Enhancers	Sigmoid Colon	Sigmoid Colon
45	chr3:156542600-156543000	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr3:156542600-156543400	Enhancers	Duodenum Mucosa	Duodenum

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