Variant report

Variant	rs9461105
Chromosome Location	chr6:25125021-25125022
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	chr6:25122897..25125650-chr6:25128706..25130794,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10214692	0.85[YRI][hapmap]
rs12197057	0.85[YRI][hapmap]
rs16890188	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1880274	1.00[EUR][1000 genomes]
rs2394370	1.00[EUR][1000 genomes]
rs56145792	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6456649	1.00[EUR][1000 genomes]
rs6456650	1.00[EUR][1000 genomes]
rs6941305	1.00[EUR][1000 genomes]
rs73729431	0.85[AFR][1000 genomes]
rs73729776	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73729778	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7753443	1.00[EUR][1000 genomes]
rs9461110	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9467436	1.00[EUR][1000 genomes]
rs9467437	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv1023989	chr6:24930362-25285679	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
4	nsv830611	chr6:25039374-25199112	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	nsv470806	chr6:25082262-25156197	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv462662	chr6:25084718-25165486	Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv601166	chr6:25084718-25165486	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers 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

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25091800-25127800	Weak transcription	Esophagus	oesophagus
2	chr6:25103800-25134800	Weak transcription	Psoas Muscle	Psoas
3	chr6:25104800-25136800	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr6:25108800-25125800	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr6:25110800-25133400	Weak transcription	Aorta	Aorta
6	chr6:25113000-25136800	Weak transcription	Osteobl	bone
7	chr6:25113600-25132800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr6:25114000-25130600	Weak transcription	Fetal Lung	lung
9	chr6:25114600-25125800	Weak transcription	GM12878-XiMat	blood
10	chr6:25114800-25125800	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr6:25114800-25127800	Weak transcription	Left Ventricle	heart
12	chr6:25116000-25137000	Weak transcription	Lung	lung
13	chr6:25120000-25127800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr6:25120600-25129800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr6:25120800-25127800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr6:25121000-25129800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr6:25121200-25127800	Strong transcription	Dnd41	blood
18	chr6:25121600-25127200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr6:25122000-25131600	Strong transcription	Fetal Thymus	thymus
20	chr6:25122200-25126200	Strong transcription	Primary B cells from cord blood	blood
21	chr6:25122600-25132000	Weak transcription	Duodenum Mucosa	Duodenum
22	chr6:25122600-25133800	Weak transcription	NHDF-Ad	bronchial
23	chr6:25122600-25137000	Weak transcription	Colonic Mucosa	Colon
24	chr6:25122600-25137000	Weak transcription	HSMM	muscle
25	chr6:25122800-25129400	Weak transcription	Ovary	ovary
26	chr6:25122800-25137000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr6:25123000-25126600	Strong transcription	Primary T cells from cord blood	blood
28	chr6:25123200-25127800	Weak transcription	Adipose Nuclei	Adipose
29	chr6:25123200-25127800	Weak transcription	Placenta	Placenta
30	chr6:25123200-25128000	Weak transcription	Colon Smooth Muscle	Colon
31	chr6:25123200-25128200	Weak transcription	Fetal Muscle Leg	muscle
32	chr6:25123200-25130800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr6:25123400-25125600	Weak transcription	Liver	Liver
34	chr6:25123600-25126200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr6:25123600-25126400	Strong transcription	Thymus	Thymus
36	chr6:25123600-25127600	Strong transcription	Primary T helper cells fromperipheralblood	blood
37	chr6:25123600-25136600	Weak transcription	HSMMtube	muscle
38	chr6:25123800-25125400	Enhancers	Primary monocytes fromperipheralblood	blood
39	chr6:25123800-25126400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr6:25123800-25129400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr6:25123800-25136800	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr6:25123800-25138400	Weak transcription	Pancreas	Pancrea
43	chr6:25124000-25125200	Enhancers	Fetal Brain Male	brain
44	chr6:25124000-25125400	Enhancers	Monocytes-CD14+_RO01746	blood
45	chr6:25124000-25125800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr6:25124000-25126200	Strong transcription	Stomach Smooth Muscle	stomach
47	chr6:25124000-25126400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr6:25124200-25125200	Enhancers	Primary neutrophils fromperipheralblood	blood
49	chr6:25124200-25125800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr6:25124200-25129000	Weak transcription	Sigmoid Colon	Sigmoid Colon

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