Variant report

Variant	rs17651169
Chromosome Location	chr3:143463838-143463839
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	chr3:143461586..143463512-chr3:143463686..143466474,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs16854224	1.00[CEU][hapmap];1.00[GIH][hapmap];0.87[TSI][hapmap];0.98[EUR][1000 genomes]
rs16854227	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs17591646	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17591660	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17650950	0.92[CEU][hapmap]
rs17651016	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17651124	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17651150	1.00[CEU][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2069040	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58187430	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58881945	1.00[EUR][1000 genomes]
rs60468477	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67785207	0.98[EUR][1000 genomes]
rs73154705	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154706	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154708	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154709	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154710	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154712	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154713	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154715	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154716	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154717	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154718	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154719	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73154721	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154722	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs73154727	0.84[AMR][1000 genomes]
rs7616384	1.00[CEU][hapmap];1.00[GIH][hapmap];0.87[TSI][hapmap];0.98[EUR][1000 genomes]
rs7628206	0.98[EUR][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	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv877567	chr3:143438124-143478454	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	esv3418674	chr3:143457005-143558357	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143394200-143470200	Weak transcription	Primary B cells from cord blood	blood
2	chr3:143438400-143469800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr3:143442200-143470200	Weak transcription	Monocytes-CD14+_RO01746	blood
4	chr3:143447400-143469800	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr3:143450800-143488600	Weak transcription	Ovary	ovary
6	chr3:143457200-143488600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:143458000-143494400	Weak transcription	Psoas Muscle	Psoas
8	chr3:143460600-143468200	Weak transcription	Fetal Lung	lung
9	chr3:143460600-143469000	Weak transcription	Primary T cells from cord blood	blood
10	chr3:143462400-143464800	Weak transcription	Esophagus	oesophagus
11	chr3:143463400-143464600	Enhancers	Brain Germinal Matrix	brain

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