Variant report

Variant	rs894427
Chromosome Location	chr9:97643430-97643431
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97643198..97646263-chr9:97646433..97648842,3	MCF-7	breast:
2	chr9:97567997..97570144-chr9:97641806..97644523,2	MCF-7	breast:
3	chr9:97633916..97636147-chr9:97641921..97644696,2	MCF-7	breast:
4	chr9:97640769..97645412-chr9:97646279..97650520,7	MCF-7	breast:

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs1004813	1.00[JPT][hapmap]
rs10125566	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10217441	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10512252	1.00[JPT][hapmap]
rs10732407	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10739988	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10739990	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10739991	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10761362	0.97[AMR][1000 genomes]
rs10761363	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10821407	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10821411	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10993386	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1113967	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12551506	0.82[JPT][hapmap];0.84[AMR][1000 genomes]
rs12552838	0.84[AMR][1000 genomes]
rs12554043	1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12682668	1.00[JPT][hapmap]
rs12683896	0.84[AMR][1000 genomes]
rs12684072	1.00[JPT][hapmap]
rs12684139	1.00[JPT][hapmap]
rs12684154	1.00[JPT][hapmap]
rs12684461	1.00[JPT][hapmap]
rs12684470	1.00[JPT][hapmap]
rs12684781	1.00[JPT][hapmap]
rs12686277	1.00[JPT][hapmap]
rs12686500	1.00[JPT][hapmap]
rs1530331	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1542107	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1542108	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1571897	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs16905557	1.00[JPT][hapmap]
rs16911801	1.00[JPT][hapmap]
rs16911802	1.00[JPT][hapmap]
rs16911817	1.00[JPT][hapmap]
rs16911820	1.00[JPT][hapmap]
rs16911821	1.00[JPT][hapmap]
rs16911826	1.00[JPT][hapmap]
rs16911834	0.84[AMR][1000 genomes]
rs1806996	1.00[JPT][hapmap]
rs1904201	0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs2026399	0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs2078379	1.00[JPT][hapmap]
rs2095069	0.82[JPT][hapmap];0.84[AMR][1000 genomes]
rs2119953	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2406897	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2406898	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2897523	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3824493	1.00[JPT][hapmap]
rs3847309	1.00[JPT][hapmap]
rs3847310	1.00[JPT][hapmap]
rs3847311	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3886567	1.00[JPT][hapmap]
rs3886568	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3910730	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4332191	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4743972	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4743973	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4743976	1.00[CEU][hapmap]
rs4744387	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4744389	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4744402	0.86[AMR][1000 genomes]
rs6479568	1.00[JPT][hapmap]
rs6479576	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6479578	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6479579	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6479581	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6479582	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6479583	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6479589	1.00[CEU][hapmap]
rs66993340	0.81[AMR][1000 genomes]
rs67490803	0.84[AMR][1000 genomes]
rs7019602	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7022739	1.00[CEU][hapmap]
rs7022963	0.85[EUR][1000 genomes]
rs7025100	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7025934	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7026714	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7029570	0.82[JPT][hapmap];0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7030703	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs7031637	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs7035166	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7038519	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7044371	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7045005	1.00[JPT][hapmap]
rs7046900	0.84[AMR][1000 genomes]
rs72748601	0.84[AMR][1000 genomes]
rs7465900	1.00[JPT][hapmap]
rs7850601	1.00[JPT][hapmap]
rs7850680	1.00[JPT][hapmap]
rs7852844	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7864389	0.89[AMR][1000 genomes]
rs7867856	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7869736	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7870679	1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs894426	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs894428	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][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	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97630000-97645000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr9:97630600-97643600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr9:97630800-97644200	Weak transcription	Adipose Nuclei	Adipose
4	chr9:97631800-97645600	Weak transcription	Small Intestine	intestine
5	chr9:97632000-97646000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr9:97633400-97646800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr9:97633400-97671800	Weak transcription	Esophagus	oesophagus
8	chr9:97634000-97646600	Weak transcription	Spleen	Spleen
9	chr9:97634000-97646800	Weak transcription	Stomach Mucosa	stomach
10	chr9:97635200-97645600	Weak transcription	Placenta	Placenta
11	chr9:97635400-97644200	Weak transcription	Left Ventricle	heart
12	chr9:97635600-97644000	Weak transcription	Ovary	ovary
13	chr9:97637800-97645200	Weak transcription	NH-A	brain
14	chr9:97638200-97644000	Weak transcription	Primary B cells from cord blood	blood
15	chr9:97638400-97643800	Weak transcription	Primary B cells from peripheral blood	blood
16	chr9:97638400-97643800	Weak transcription	Primary hematopoietic stem cells	blood
17	chr9:97638400-97647600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr9:97638600-97644000	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr9:97638600-97661800	Weak transcription	Fetal Intestine Small	intestine
20	chr9:97640000-97644600	Enhancers	HSMM	muscle
21	chr9:97640200-97644000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr9:97640400-97643600	Weak transcription	Aorta	Aorta
23	chr9:97640400-97646400	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr9:97640600-97645400	Weak transcription	Brain Cingulate Gyrus	brain
25	chr9:97640600-97645400	Weak transcription	Brain Substantia Nigra	brain
26	chr9:97640800-97645600	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr9:97641000-97645600	Weak transcription	Brain Anterior Caudate	brain
28	chr9:97641000-97647400	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr9:97641000-97648600	Enhancers	Fetal Heart	heart
30	chr9:97641000-97650000	Weak transcription	Brain Angular Gyrus	brain
31	chr9:97641200-97643800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr9:97641200-97647800	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr9:97641400-97647400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr9:97641400-97647400	Weak transcription	Psoas Muscle	Psoas
35	chr9:97641600-97646600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr9:97641800-97647400	Weak transcription	Hela-S3	cervix
37	chr9:97641800-97647400	Weak transcription	K562	blood
38	chr9:97642600-97646400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr9:97642800-97643800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr9:97642800-97644400	Enhancers	HSMMtube	muscle
41	chr9:97642800-97644600	Enhancers	Breast Myoepithelial Primary Cells	Breast
42	chr9:97642800-97644800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr9:97642800-97644800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr9:97642800-97646200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr9:97642800-97648800	Enhancers	Fetal Lung	lung
46	chr9:97643000-97643600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
47	chr9:97643000-97643600	Enhancers	NHEK	skin
48	chr9:97643000-97644000	Enhancers	HMEC	breast
49	chr9:97643000-97644400	Enhancers	Muscle Satellite Cultured Cells	--
50	chr9:97643000-97644400	Enhancers	NHDF-Ad	bronchial

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