Variant report

Variant	rs61806984
Chromosome Location	chr1:169299699-169299700
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:169249538..169251657-chr1:169297595..169299857,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10800430	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10919079	0.81[AMR][1000 genomes]
rs10919097	0.81[AMR][1000 genomes]
rs10919098	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10919100	0.81[AMR][1000 genomes]
rs10919104	0.81[AMR][1000 genomes]
rs10919111	0.81[AMR][1000 genomes]
rs10919131	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11802239	0.81[AMR][1000 genomes]
rs11805562	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11807896	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12058325	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12061069	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12061405	0.81[AMR][1000 genomes]
rs12063056	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12063719	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12063863	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12065030	0.97[ASN][1000 genomes]
rs12067139	0.97[ASN][1000 genomes]
rs12067351	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12070031	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs12073439	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12074013	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs12076519	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12081562	0.81[AMR][1000 genomes]
rs12082748	0.81[AMR][1000 genomes]
rs12083249	0.81[AMR][1000 genomes]
rs12088672	0.93[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12097260	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12561922	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1591734	0.82[ASN][1000 genomes]
rs3753298	0.81[AMR][1000 genomes]
rs3766052	0.81[AMR][1000 genomes]
rs3766064	0.81[AMR][1000 genomes]
rs3766082	0.81[AMR][1000 genomes]
rs3766088	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3766092	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3820057	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs57776592	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60011235	0.97[ASN][1000 genomes]
rs7515326	0.97[ASN][1000 genomes]
rs7544446	0.97[ASN][1000 genomes]
rs9628661	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3522071	chr1:168978325-169339044	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
2	esv3522072	chr1:168978325-169339044	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	nsv1010010	chr1:169189586-169347545	Active TSS Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv872531	chr1:169191860-169388193	Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1012919	chr1:169200982-169324750	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv872532	chr1:169275630-169363203	Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169260400-169310400	Weak transcription	Fetal Stomach	stomach
2	chr1:169265000-169320400	Weak transcription	Aorta	Aorta
3	chr1:169270200-169336400	Weak transcription	Stomach Smooth Muscle	stomach
4	chr1:169273600-169312400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr1:169276800-169304600	Weak transcription	Ovary	ovary
6	chr1:169277000-169306200	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr1:169280200-169304600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr1:169281600-169306600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr1:169282000-169306800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr1:169291000-169313200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr1:169294000-169305200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr1:169294600-169307400	Weak transcription	Gastric	stomach
13	chr1:169296400-169306600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr1:169296600-169307600	Weak transcription	A549	lung
15	chr1:169296600-169310400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr1:169296600-169324600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr1:169299600-169299800	ZNF genes & repeats	Fetal Intestine Small	intestine

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