Variant report

Variant	rs9385874
Chromosome Location	chr6:140064093-140064094
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:140062822..140064897-chr6:140067790..140070616,2	K562	blood:
2	chr6:140059888..140061775-chr6:140062936..140065561,3	MCF-7	breast:
3	chr6:139695200..139697072-chr6:140062623..140064203,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10499213	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10499214	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11962730	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11963532	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11964275	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11965819	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12055436	0.82[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs12055472	0.81[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs12055843	0.88[ASN][1000 genomes]
rs12662206	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12664473	1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs17069206	0.88[JPT][hapmap]
rs17069225	0.88[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs1936210	0.90[ASN][1000 genomes]
rs1936214	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2096283	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2096284	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2154032	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2185923	0.89[ASN][1000 genomes]
rs2327993	0.89[ASN][1000 genomes]
rs4520026	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4535566	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4896488	0.83[AMR][1000 genomes]
rs55764205	0.88[ASN][1000 genomes]
rs55966840	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60052799	0.83[AMR][1000 genomes]
rs60350063	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs60758082	0.88[ASN][1000 genomes]
rs60870127	0.80[ASN][1000 genomes]
rs6570372	0.90[ASN][1000 genomes]
rs6570373	0.89[ASN][1000 genomes]
rs6570374	0.94[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6901783	1.00[CEU][hapmap];0.94[JPT][hapmap];0.81[EUR][1000 genomes]
rs6905478	0.94[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6911905	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6933318	1.00[CEU][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6933569	0.83[AMR][1000 genomes]
rs73556090	0.89[ASN][1000 genomes]
rs73558032	0.99[ASN][1000 genomes]
rs73775693	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7743796	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7752001	0.89[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs7752323	0.90[ASN][1000 genomes]
rs7756866	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7769567	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7772473	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7774968	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7776193	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9321752	0.87[ASN][1000 genomes]
rs9373246	0.84[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs9373247	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9373248	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9376452	0.88[JPT][hapmap]
rs9376457	0.89[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs9385875	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9385876	0.94[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9389715	0.90[ASN][1000 genomes]
rs9389717	0.88[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9399292	0.88[JPT][hapmap]
rs9399293	0.81[AMR][1000 genomes]
rs9403113	0.89[ASN][1000 genomes]
rs9403114	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403115	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403116	0.94[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv464065	chr6:140027836-140085873	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv604766	chr6:140027836-140085873	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv830820	chr6:140059279-140255292	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140054800-140072000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr6:140055000-140064600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:140060600-140065400	Weak transcription	Adipose Nuclei	Adipose
4	chr6:140060800-140064200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr6:140062800-140065800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr6:140063400-140064200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr6:140063400-140064200	Enhancers	Gastric	stomach
8	chr6:140063400-140064400	Enhancers	Muscle Satellite Cultured Cells	--
9	chr6:140063400-140064800	Enhancers	HSMMtube	muscle
10	chr6:140063400-140066600	Enhancers	NHDF-Ad	bronchial
11	chr6:140063600-140065400	Enhancers	HepG2	liver
12	chr6:140063600-140066200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr6:140063600-140067200	Weak transcription	Rectal Smooth Muscle	rectum
14	chr6:140063800-140066000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr6:140063800-140066000	Enhancers	HSMM	muscle
16	chr6:140063800-140066400	Enhancers	NHLF	lung
17	chr6:140063800-140069000	Weak transcription	Fetal Heart	heart
18	chr6:140064000-140065000	Enhancers	A549	lung
19	chr6:140064000-140065400	Enhancers	Ovary	ovary
20	chr6:140064000-140065400	Enhancers	Hela-S3	cervix
21	chr6:140064000-140065800	Enhancers	NH-A	brain
22	chr6:140064000-140065800	Enhancers	Osteobl	bone
23	chr6:140064000-140066600	Enhancers	HUVEC	blood vessel

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