Variant report

Variant	rs2061580
Chromosome Location	chr3:160733161-160733162
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	chr3:160732451..160734009-chr3:160957436..160960399,2	MCF-7	breast:

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10513560	0.82[CHB][hapmap];0.87[CHD][hapmap];0.93[JPT][hapmap]
rs11709802	0.85[JPT][hapmap]
rs12494844	0.82[CEU][hapmap]
rs12496196	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs12498008	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13318781	0.82[CEU][hapmap]
rs13325518	0.97[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.88[TSI][hapmap];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1374786	0.90[ASN][1000 genomes]
rs1530635	0.90[ASN][1000 genomes]
rs1530636	0.82[CHB][hapmap];0.87[CHD][hapmap];0.93[JPT][hapmap]
rs1562465	0.82[CHB][hapmap];0.93[JPT][hapmap]
rs1562466	1.00[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1599382	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16831756	0.88[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16831757	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16831758	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1868104	0.81[GIH][hapmap];0.86[JPT][hapmap]
rs1903422	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1971240	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2028988	0.81[GIH][hapmap];0.86[JPT][hapmap]
rs4490410	0.82[CEU][hapmap]
rs4608736	0.90[ASN][1000 genomes]
rs4679927	0.90[ASN][1000 genomes]
rs56990390	0.83[ASN][1000 genomes]
rs57009978	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58189630	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59483687	0.89[ASN][1000 genomes]
rs60875417	0.96[ASN][1000 genomes]
rs62282273	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441345	0.82[CHB][hapmap];0.84[CHD][hapmap];0.93[JPT][hapmap]
rs6763532	0.85[JPT][hapmap]
rs6774203	0.82[CHB][hapmap];0.84[CHD][hapmap];0.87[JPT][hapmap]
rs6787694	1.00[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs6797498	0.86[JPT][hapmap]
rs6798966	0.87[ASN][1000 genomes]
rs731363	0.88[CEU][hapmap]
rs73158252	0.83[ASN][1000 genomes]
rs73158255	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73158257	0.83[ASN][1000 genomes]
rs7610732	0.86[JPT][hapmap]
rs778644	0.90[ASN][1000 genomes]
rs778647	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs778650	0.87[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.87[JPT][hapmap];0.90[ASN][1000 genomes]
rs778651	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs778652	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs778655	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs778656	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs778658	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs778661	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs778662	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs796610	1.00[CHB][hapmap];0.94[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs814092	0.90[ASN][1000 genomes]
rs898676	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs898678	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs898679	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9818081	1.00[CHB][hapmap];0.94[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9825118	0.80[CEU][hapmap]
rs9846316	0.93[CEU][hapmap]
rs9850546	0.98[ASN][1000 genomes]
rs9858335	0.84[CHD][hapmap]
rs9879296	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160732000-160734200	Enhancers	Colon Smooth Muscle	Colon
2	chr3:160732400-160733800	Enhancers	Left Ventricle	heart
3	chr3:160732600-160733400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:160732600-160733600	Enhancers	Stomach Smooth Muscle	stomach
5	chr3:160732600-160733800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:160732800-160733200	Weak transcription	Rectal Smooth Muscle	rectum
7	chr3:160732800-160733400	Enhancers	Fetal Heart	heart
8	chr3:160732800-160745000	Weak transcription	Psoas Muscle	Psoas
9	chr3:160733000-160733600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr3:160733000-160733800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr3:160733000-160734200	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr3:160733000-160735200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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