Variant report

Variant	rs9397060
Chromosome Location	chr6:150211725-150211726
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	chr6:150183161..150188305-chr6:150206346..150214162,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000120256	Chromatin interaction
ENSG00000268592	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10457853	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17079029	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2342773	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4142628	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6557137	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6557163	1.00[CEU][hapmap];0.83[JPT][hapmap];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6904335	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6905778	0.90[EUR][1000 genomes]
rs6910351	1.00[CEU][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6915465	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6927913	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6936944	1.00[CEU][hapmap];0.83[JPT][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72997594	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7745070	0.91[EUR][1000 genomes]
rs7761734	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9322226	1.00[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9322227	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9322230	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9322231	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9371216	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9371502	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9371523	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9371539	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9371555	0.90[EUR][1000 genomes]
rs9383569	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9383573	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9383583	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9383916	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9383942	0.89[EUR][1000 genomes]
rs9383943	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9383944	0.91[EUR][1000 genomes]
rs9383945	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9397049	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9397053	1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9397056	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9397057	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9397071	0.90[EUR][1000 genomes]
rs9397387	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9397394	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9397399	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9397419	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9397447	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9397449	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9397451	0.88[CEU][hapmap];0.88[EUR][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	nsv886764	chr6:150114745-150393683	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv517022	chr6:150145001-150426272	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv886765	chr6:150198491-150288722	Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv1817805	chr6:150209592-150268708	Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150205600-150216000	Weak transcription	Right Atrium	heart
2	chr6:150205800-150216000	Weak transcription	Stomach Smooth Muscle	stomach
3	chr6:150206000-150216000	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr6:150208000-150211800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr6:150208400-150212600	Enhancers	Skeletal Muscle Male	skeletal muscle
6	chr6:150208400-150212600	Flanking Active TSS	Hela-S3	cervix
7	chr6:150209200-150212200	Enhancers	Skeletal Muscle Female	skeletal muscle
8	chr6:150209200-150212800	Enhancers	A549	lung
9	chr6:150209600-150215800	Weak transcription	Adipose Nuclei	Adipose
10	chr6:150209600-150216000	Weak transcription	Duodenum Mucosa	Duodenum
11	chr6:150209600-150222200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr6:150210200-150211800	Weak transcription	Esophagus	oesophagus
13	chr6:150210400-150211800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr6:150210600-150212800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:150211200-150212000	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
16	chr6:150211200-150212600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr6:150211400-150212000	Enhancers	Psoas Muscle	Psoas
18	chr6:150211400-150212200	Flanking Active TSS	HMEC	breast
19	chr6:150211400-150212200	Flanking Active TSS	NHEK	skin
20	chr6:150211400-150212400	Flanking Active TSS	HSMMtube	muscle
21	chr6:150211400-150212600	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr6:150211400-150212600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr6:150211600-150212000	Flanking Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr6:150211600-150212000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
25	chr6:150211600-150212000	Enhancers	Fetal Muscle Trunk	muscle
26	chr6:150211600-150212000	Enhancers	Placenta	Placenta
27	chr6:150211600-150212000	Flanking Active TSS	HSMM	muscle
28	chr6:150211600-150212200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr6:150211600-150212600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr6:150211600-150212600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr6:150211600-150212800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr6:150211600-150212800	Enhancers	NHDF-Ad	bronchial
33	chr6:150211600-150212800	Enhancers	Osteobl	bone

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