Variant report

Variant	rs7640348
Chromosome Location	chr3:160515470-160515471
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160513259..160516252-chr3:160518883..160520924,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs12486979	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12637922	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13073659	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1378654	0.81[EUR][1000 genomes]
rs1378655	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1378656	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1378657	0.81[EUR][1000 genomes]
rs1378660	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1403048	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1455869	0.80[EUR][1000 genomes]
rs1598495	0.81[EUR][1000 genomes]
rs1829716	0.80[EUR][1000 genomes]
rs1851378	0.82[EUR][1000 genomes]
rs2049214	0.83[EUR][1000 genomes]
rs2049215	0.83[EUR][1000 genomes]
rs2886905	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2886909	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6441331	0.84[AMR][1000 genomes]
rs6781371	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6791128	0.91[CHB][hapmap];1.00[YRI][hapmap]
rs6794047	0.82[EUR][1000 genomes]
rs6805905	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7618832	0.81[EUR][1000 genomes]
rs7633816	0.95[CHB][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes]
rs7634342	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7640231	0.82[EUR][1000 genomes]
rs7642371	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7643513	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs897494	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs959960	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs972909	0.83[EUR][1000 genomes]
rs9809208	1.00[YRI][hapmap]
rs9810290	1.00[YRI][hapmap]
rs9814394	0.81[EUR][1000 genomes]
rs9815499	0.81[EUR][1000 genomes]
rs9820796	0.91[CHB][hapmap];1.00[YRI][hapmap]
rs9833075	0.81[EUR][1000 genomes]
rs9835634	0.91[CHB][hapmap];1.00[YRI][hapmap]
rs9883862	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1009249	chr3:160496237-160627378	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv536780	chr3:160496237-160627378	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160498400-160522600	Weak transcription	Right Ventricle	heart
2	chr3:160509000-160522600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr3:160509600-160519000	Weak transcription	Stomach Smooth Muscle	stomach
4	chr3:160511400-160518400	Weak transcription	Primary T cells from cord blood	blood
5	chr3:160511800-160519800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:160512200-160515600	Enhancers	Stomach Mucosa	stomach
7	chr3:160512600-160515600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr3:160512800-160519400	Weak transcription	Colon Smooth Muscle	Colon
9	chr3:160513400-160519000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr3:160513400-160522600	Weak transcription	Pancreas	Pancrea
11	chr3:160513600-160515600	Enhancers	Skeletal Muscle Female	skeletal muscle
12	chr3:160513800-160515600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr3:160513800-160519600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr3:160514000-160515600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr3:160514000-160515600	Enhancers	Adipose Nuclei	Adipose
16	chr3:160514200-160520000	Weak transcription	Left Ventricle	heart
17	chr3:160514400-160522600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr3:160514600-160515600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr3:160514800-160515600	Enhancers	Pancreatic Islets	Pancreatic Islet
20	chr3:160514800-160515600	Enhancers	Skeletal Muscle Male	skeletal muscle
21	chr3:160514800-160519200	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr3:160515000-160515800	Enhancers	Brain Cingulate Gyrus	brain
23	chr3:160515000-160518400	Weak transcription	Fetal Heart	heart
24	chr3:160515200-160515800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr3:160515200-160519200	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr3:160515200-160519200	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr3:160515400-160515600	Enhancers	Right Atrium	heart
28	chr3:160515400-160516000	Enhancers	Psoas Muscle	Psoas
29	chr3:160515400-160519000	Weak transcription	Liver	Liver
30	chr3:160515400-160526400	Weak transcription	H9 Cell Line	embryonic stem cell

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