Variant report

Variant	rs2900570
Chromosome Location	chr9:116710992-116710993
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:116704077..116708028-chr9:116709899..116712780,3	K562	blood:
2	chr9:116697012..116698991-chr9:116710633..116712599,2	MCF-7	breast:
3	chr9:116708924..116711614-chr9:116714873..116716503,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10119978	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10448275	1.00[CEU][hapmap]
rs10448276	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10513223	0.82[CEU][hapmap]
rs10739396	0.85[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[ASN][1000 genomes]
rs10759664	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.93[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10759665	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10759666	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10817536	0.81[EUR][1000 genomes]
rs10817537	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10817539	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs10817541	1.00[CEU][hapmap];0.89[CHD][hapmap];0.96[GIH][hapmap];0.90[JPT][hapmap];0.85[MEX][hapmap];0.86[TSI][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10982008	0.81[EUR][1000 genomes]
rs10982009	0.90[ASN][1000 genomes]
rs10982015	0.81[CHB][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10982017	1.00[CEU][hapmap];0.92[CHD][hapmap];0.87[GIH][hapmap];0.90[JPT][hapmap];0.90[MEX][hapmap];0.86[TSI][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12551141	0.95[CHB][hapmap]
rs1330166	0.85[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.83[TSI][hapmap];0.99[ASN][1000 genomes]
rs1536962	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1536965	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1536966	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1544102	0.81[CEU][hapmap];0.92[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs1888161	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs2026143	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2418260	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.93[LWK][hapmap];0.90[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2418261	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2761688	0.85[CEU][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs2773396	0.85[CEU][hapmap];0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs2900571	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs4979295	0.84[GIH][hapmap]
rs4979298	0.95[CHB][hapmap];0.82[CHD][hapmap];0.80[GIH][hapmap]
rs4979307	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7032101	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7038501	0.84[GIH][hapmap]
rs7046776	0.96[CEU][hapmap];0.89[TSI][hapmap];0.84[EUR][1000 genomes]
rs7867998	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs7869027	0.89[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs814680	0.96[CEU][hapmap];0.92[CHD][hapmap];0.87[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs814686	0.86[ASN][1000 genomes]
rs814696	0.85[CEU][hapmap];0.89[CHD][hapmap];0.87[GIH][hapmap];0.85[JPT][hapmap];0.80[TSI][hapmap];0.84[ASN][1000 genomes]
rs871806	1.00[CEU][hapmap];0.89[TSI][hapmap];0.81[EUR][1000 genomes]
rs871808	1.00[CEU][hapmap];0.82[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430093	chr9:116330446-117325446	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116692000-116719400	Weak transcription	HMEC	breast
2	chr9:116692400-116716800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr9:116692400-116717200	Weak transcription	A549	lung
4	chr9:116693800-116714200	Weak transcription	Fetal Kidney	kidney
5	chr9:116695600-116711600	Weak transcription	Liver	Liver
6	chr9:116695800-116716000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr9:116696000-116714800	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr9:116696200-116719800	Weak transcription	Gastric	stomach
9	chr9:116697600-116715000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr9:116703600-116714600	Weak transcription	NH-A	brain
11	chr9:116703600-116719800	Weak transcription	Fetal Muscle Trunk	muscle
12	chr9:116703800-116716000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr9:116703800-116716600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr9:116704200-116713000	Strong transcription	Fetal Stomach	stomach
15	chr9:116704200-116715400	Weak transcription	NHLF	lung
16	chr9:116704400-116714400	Weak transcription	NHDF-Ad	bronchial
17	chr9:116704400-116714600	Weak transcription	HSMMtube	muscle
18	chr9:116704400-116714600	Weak transcription	Osteobl	bone
19	chr9:116704400-116717000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr9:116704600-116712600	Weak transcription	Primary monocytes fromperipheralblood	blood
21	chr9:116704600-116716400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr9:116704800-116714600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr9:116705200-116714000	Weak transcription	HUVEC	blood vessel
24	chr9:116705400-116712000	Weak transcription	Brain Germinal Matrix	brain
25	chr9:116705400-116714600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr9:116705600-116712400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr9:116705800-116715800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr9:116705800-116716200	Weak transcription	Right Atrium	heart
29	chr9:116706200-116716400	Weak transcription	Aorta	Aorta
30	chr9:116706200-116716800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr9:116706800-116717000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr9:116707800-116714600	Weak transcription	HSMM	muscle
33	chr9:116707800-116717000	Weak transcription	Fetal Lung	lung
34	chr9:116708200-116712000	Strong transcription	Fetal Intestine Small	intestine
35	chr9:116708400-116711200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr9:116708600-116712200	Weak transcription	Fetal Brain Female	brain
37	chr9:116708600-116716800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr9:116708800-116713400	Enhancers	Breast Myoepithelial Primary Cells	Breast
39	chr9:116708800-116726400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr9:116709000-116712000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr9:116709000-116720600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr9:116709200-116712800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr9:116709200-116714000	Weak transcription	Pancreas	Pancrea
44	chr9:116709200-116716000	Weak transcription	Lung	lung
45	chr9:116709200-116716800	Weak transcription	Fetal Muscle Leg	muscle
46	chr9:116709400-116711600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr9:116710400-116712800	Weak transcription	Ovary	ovary
48	chr9:116710400-116719600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr9:116710800-116711000	Enhancers	Spleen	Spleen
50	chr9:116710800-116723000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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