Variant report

Variant	rs11753940
Chromosome Location	chr6:64442472-64442473
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	chr6:64282444..64284956-chr6:64441888..64443717,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112245	Chromatin interaction

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs11754041	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11754728	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11755371	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11755458	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11755460	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11756799	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11756833	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11757713	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11757834	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11758365	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11758738	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1197983	0.87[CEU][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1333096	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1333097	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1572115	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1681939	0.87[CEU][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs16894562	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1905593	0.87[CEU][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1999579	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2008452	0.86[ASN][1000 genomes]
rs2295184	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.90[GIH][hapmap];0.81[JPT][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34254442	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3757350	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3778647	0.92[ASN][1000 genomes]
rs3778648	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3800491	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3800492	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3800493	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3823446	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs41271589	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs52546	0.82[ASN][1000 genomes]
rs55678650	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55802833	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56008921	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56088368	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56172936	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56300303	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56302757	0.87[ASN][1000 genomes]
rs56360535	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57217151	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57280061	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57305989	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57319124	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57657484	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57888259	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57891105	0.82[ASN][1000 genomes]
rs58198138	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58247688	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58531869	0.84[AFR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58669837	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59217667	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59674359	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60289981	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60564402	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs60622008	0.85[ASN][1000 genomes]
rs60694786	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60949185	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61079290	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61094361	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61268055	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61369019	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61606312	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66462731	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66481681	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66514362	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs66520187	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs66589841	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66752943	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66804407	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66882701	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs66960758	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs66973400	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67044231	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67050101	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67069403	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67149738	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs67169857	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs67342772	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs67362704	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67632239	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67632720	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67674014	0.92[ASN][1000 genomes]
rs67722441	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67725686	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs67727731	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67733371	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs67767936	0.87[EUR][1000 genomes]
rs67856629	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67890600	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67904296	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs67935772	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67939679	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67958548	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67959580	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs68128834	0.92[ASN][1000 genomes]
rs68132675	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs68177305	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6911092	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6928683	0.86[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs6933866	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72884618	0.88[AMR][1000 genomes]
rs72884634	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72884640	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72886339	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72886350	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72888273	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72890149	0.85[ASN][1000 genomes]
rs7758431	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs958324	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830674	chr6:64355412-64535801	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1022376	chr6:64386826-64445195	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:64423600-64444400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
2	chr6:64424200-64450400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr6:64436400-64444600	Weak transcription	HepG2	liver
4	chr6:64436800-64445400	Weak transcription	Primary T cells from cord blood	blood
5	chr6:64437400-64459600	Weak transcription	Aorta	Aorta
6	chr6:64437800-64445000	Weak transcription	Primary hematopoietic stem cells	blood
7	chr6:64441200-64443200	Enhancers	Muscle Satellite Cultured Cells	--
8	chr6:64441200-64443200	Enhancers	HUVEC	blood vessel
9	chr6:64441400-64443600	Enhancers	Hela-S3	cervix
10	chr6:64441600-64442800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr6:64441600-64442800	Enhancers	Osteobl	bone
12	chr6:64441600-64443200	Enhancers	HMEC	breast
13	chr6:64441600-64443800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr6:64441800-64442800	Enhancers	NH-A	brain
15	chr6:64441800-64442800	Enhancers	NHLF	lung
16	chr6:64441800-64443200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr6:64441800-64443400	Enhancers	NHDF-Ad	bronchial
18	chr6:64442000-64443000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr6:64442000-64451800	Weak transcription	Fetal Intestine Small	intestine
20	chr6:64442000-64451800	Weak transcription	Small Intestine	intestine
21	chr6:64442200-64444600	Weak transcription	NHEK	skin
22	chr6:64442400-64445400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:64442400-64450200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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