Variant report

Variant	rs6779965
Chromosome Location	chr3:177642059-177642060
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	chr3:177641109..177643204-chr3:177644421..177646584,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1075544	0.89[ASN][1000 genomes]
rs10936960	0.89[ASN][1000 genomes]
rs11919677	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11920776	0.88[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11922170	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12489750	0.82[EUR][1000 genomes]
rs12492409	0.81[CHB][hapmap];0.91[JPT][hapmap];0.82[EUR][1000 genomes]
rs12496207	0.96[ASN][1000 genomes]
rs13062823	0.82[CHB][hapmap];0.91[JPT][hapmap];0.82[EUR][1000 genomes]
rs13066104	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs13087011	0.88[ASN][1000 genomes]
rs13314585	0.85[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1362828	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1362829	0.86[ASN][1000 genomes]
rs1421157	0.89[ASN][1000 genomes]
rs1421158	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs1421160	0.86[ASN][1000 genomes]
rs1421161	0.89[ASN][1000 genomes]
rs1421162	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs1421163	0.84[ASN][1000 genomes]
rs1421164	0.83[ASN][1000 genomes]
rs1421166	0.86[ASN][1000 genomes]
rs1421167	0.86[ASN][1000 genomes]
rs1421170	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1421173	0.89[ASN][1000 genomes]
rs1582399	0.80[ASN][1000 genomes]
rs16828811	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs1895068	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs1895074	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1895075	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34300091	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34534264	0.82[EUR][1000 genomes]
rs3978728	0.91[CHB][hapmap];0.91[JPT][hapmap];0.81[EUR][1000 genomes]
rs57315928	0.89[ASN][1000 genomes]
rs6769109	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs6775970	0.86[ASN][1000 genomes]
rs6783796	0.85[ASN][1000 genomes]
rs6786110	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6804905	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs6807952	0.85[ASN][1000 genomes]
rs6808901	0.82[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs737553	0.89[ASN][1000 genomes]
rs737555	0.88[ASN][1000 genomes]
rs7616735	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7619802	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs7645977	0.88[ASN][1000 genomes]
rs7648771	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9830203	0.86[ASN][1000 genomes]
rs9838142	0.89[ASN][1000 genomes]
rs9862300	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs9875424	0.82[AFR][1000 genomes];0.89[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	nsv931055	chr3:177229521-177889872	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:177624400-177646600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:177638000-177649800	Weak transcription	Primary hematopoietic stem cells	blood

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