Variant report

Variant	rs9866566
Chromosome Location	chr3:160543742-160543743
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160535684..160538516-chr3:160543407..160545193,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10513553	0.84[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.80[ASN][1000 genomes]
rs12487861	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12494732	0.86[JPT][hapmap]
rs12637922	0.83[EUR][1000 genomes]
rs13068380	0.88[EUR][1000 genomes]
rs13073659	0.83[EUR][1000 genomes]
rs13080397	0.85[JPT][hapmap]
rs1378654	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1378657	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1378658	0.84[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap]
rs1378660	0.83[EUR][1000 genomes]
rs1455869	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.89[YRI][hapmap];0.89[EUR][1000 genomes]
rs1598495	0.96[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1829716	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.96[YRI][hapmap];0.89[EUR][1000 genomes]
rs1839017	0.85[JPT][hapmap]
rs1851378	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1902282	0.82[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.89[ASN][1000 genomes]
rs1915929	0.88[ASN][1000 genomes]
rs2049214	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2049215	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2886909	0.83[EUR][1000 genomes]
rs4256178	0.86[JPT][hapmap]
rs59542611	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6775743	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6794047	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs718757	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs722871	0.83[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.80[ASN][1000 genomes]
rs7618832	1.00[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.97[YRI][hapmap];0.90[EUR][1000 genomes]
rs7630250	0.89[ASN][1000 genomes]
rs7633401	0.81[YRI][hapmap]
rs7648363	0.82[JPT][hapmap]
rs779058	0.89[ASN][1000 genomes]
rs972909	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9814394	0.90[EUR][1000 genomes]
rs9815499	1.00[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.97[YRI][hapmap];0.90[EUR][1000 genomes]
rs9833075	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9868489	0.84[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.80[ASN][1000 genomes]
rs9869116	0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 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
4	nsv432495	chr3:160534298-160548298	Active TSS Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160541800-160544800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr3:160542800-160549000	Enhancers	Fetal Heart	heart
3	chr3:160543000-160543800	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr3:160543000-160544800	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr3:160543200-160544000	Enhancers	Pancreatic Islets	Pancreatic Islet
6	chr3:160543200-160544000	Enhancers	Psoas Muscle	Psoas
7	chr3:160543200-160544000	Enhancers	Right Ventricle	heart
8	chr3:160543400-160544000	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr3:160543600-160544000	Enhancers	Left Ventricle	heart
10	chr3:160543600-160544000	Enhancers	Right Atrium	heart
11	chr3:160543600-160544800	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr3:160543600-160547200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr3:160543600-160547400	Enhancers	Skeletal Muscle Male	skeletal muscle

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