Variant report

Variant	rs912661
Chromosome Location	chr9:115611114-115611115
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:115605264..115607754-chr9:115609316..115612065,2	MCF-7	breast:

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10117017	0.81[CEU][hapmap];0.80[ASN][1000 genomes]
rs10117709	0.81[CEU][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs10122712	0.81[CEU][hapmap];0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs10481638	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10481671	0.83[EUR][1000 genomes]
rs10732374	0.81[CEU][hapmap];0.80[ASN][1000 genomes]
rs10733595	0.81[CEU][hapmap];0.80[ASN][1000 genomes]
rs10733596	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10733597	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739371	0.81[CEU][hapmap]
rs10739375	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759587	0.81[CEU][hapmap];0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs10759588	0.81[CEU][hapmap];0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs10759589	0.84[CEU][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10759591	0.82[CHB][hapmap];0.91[JPT][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759592	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759593	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10759595	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs10759596	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759597	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759598	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759599	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10759600	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10759601	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10817396	0.86[CEU][hapmap];0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs10817397	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10817398	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10817399	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10817400	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10817401	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1418408	0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs1475292	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1539340	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1539341	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1539342	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1539345	0.80[ASN][1000 genomes]
rs1970527	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1970528	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2645988	0.81[CEU][hapmap]
rs2796024	0.81[CEU][hapmap]
rs4366151	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4367629	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4979158	0.81[CEU][hapmap];0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs4979162	0.80[ASN][1000 genomes]
rs4979163	0.81[CEU][hapmap];0.82[ASN][1000 genomes]
rs4979164	0.81[CEU][hapmap];0.82[ASN][1000 genomes]
rs4979166	0.86[CEU][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs4979167	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4979168	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6477961	0.80[ASN][1000 genomes]
rs7856199	0.81[CEU][hapmap];0.80[ASN][1000 genomes]
rs7871799	0.81[CEU][hapmap];0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs787283	0.81[CEU][hapmap]
rs787288	0.81[CEU][hapmap]
rs7873644	0.81[CEU][hapmap];0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs883462	0.81[JPT][hapmap]
rs9299210	0.80[ASN][1000 genomes]
rs9299211	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9299212	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs999018	0.81[CEU][hapmap];0.81[JPT][hapmap];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758198	chr9:115240454-116002951	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	esv2759710	chr9:115240454-116002951	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv893733	chr9:115397206-115712068	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	esv2422302	chr9:115550339-115656433	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	esv2757351	chr9:115600623-115632898	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1047000	chr9:115610445-115884038	ZNF genes & repeats Strong transcription Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:115577600-115630400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr9:115582400-115630000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr9:115591400-115623200	Weak transcription	Fetal Heart	heart
4	chr9:115594200-115616000	Weak transcription	Small Intestine	intestine
5	chr9:115594200-115620400	Weak transcription	Thymus	Thymus
6	chr9:115594200-115634400	Weak transcription	NH-A	brain
7	chr9:115594400-115626800	Weak transcription	Colon Smooth Muscle	Colon
8	chr9:115596400-115613600	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr9:115598600-115615200	Weak transcription	Psoas Muscle	Psoas
10	chr9:115598800-115613200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr9:115599000-115623200	Weak transcription	Right Ventricle	heart
12	chr9:115599400-115612000	Weak transcription	Pancreas	Pancrea
13	chr9:115599400-115612800	Weak transcription	Placenta	Placenta
14	chr9:115599400-115613000	Weak transcription	Rectal Smooth Muscle	rectum
15	chr9:115599400-115615200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr9:115599400-115623600	Weak transcription	Right Atrium	heart
17	chr9:115599400-115625200	Weak transcription	Colonic Mucosa	Colon
18	chr9:115601000-115612400	Weak transcription	Aorta	Aorta
19	chr9:115601200-115641200	Weak transcription	Fetal Brain Male	brain
20	chr9:115601400-115612800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr9:115601600-115620600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr9:115601800-115613000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr9:115602000-115620600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr9:115602200-115613200	Weak transcription	Left Ventricle	heart
25	chr9:115602400-115611600	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr9:115602400-115612400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr9:115602400-115613000	Weak transcription	Duodenum Mucosa	Duodenum
28	chr9:115602400-115613200	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr9:115602400-115613400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr9:115602600-115612800	Weak transcription	Ovary	ovary
31	chr9:115602600-115614600	Weak transcription	Primary T helper cells fromperipheralblood	blood
32	chr9:115602600-115615200	Weak transcription	Primary T cells fromperipheralblood	blood
33	chr9:115602600-115626600	Weak transcription	Brain Germinal Matrix	brain
34	chr9:115602600-115626800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr9:115603000-115612200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr9:115604000-115613200	Weak transcription	Fetal Brain Female	brain
37	chr9:115604000-115613200	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr9:115604000-115626600	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chr9:115604200-115621200	Weak transcription	HepG2	liver
40	chr9:115604600-115611800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr9:115604800-115611800	Enhancers	Brain Hippocampus Middle	brain
42	chr9:115604800-115612000	Weak transcription	Fetal Muscle Trunk	muscle
43	chr9:115604800-115613000	Weak transcription	Gastric	stomach
44	chr9:115605200-115613000	Weak transcription	Liver	Liver
45	chr9:115605200-115613200	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr9:115605600-115611600	Weak transcription	Primary T cells from cord blood	blood
47	chr9:115606800-115611800	Enhancers	iPS-15b Cell Line	embryonic stem cell
48	chr9:115607200-115611800	Enhancers	HUES48 Cell Line	embryonic stem cell
49	chr9:115607200-115611800	Enhancers	Brain Cingulate Gyrus	brain
50	chr9:115607400-115614800	Weak transcription	Skeletal Muscle Male	skeletal muscle

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