Variant report

Variant	rs6906715
Chromosome Location	chr6:54562690-54562691
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:54561752..54563922-chr6:54714449..54716896,3	MCF-7	breast:
2	chr6:54558970..54566519-chr6:54708534..54713743,16	MCF-7	breast:
3	chr6:54551257..54553977-chr6:54562035..54564580,2	MCF-7	breast:
4	chr6:54560120..54562700-chr6:54564068..54565878,2	MCF-7	breast:
5	chr6:54562484..54564963-chr6:54735331..54738094,2	MCF-7	breast:
6	chr6:54559522..54567174-chr6:54707552..54714330,37	MCF-7	breast:
7	chr6:54485033..54487186-chr6:54562620..54564688,2	MCF-7	breast:
8	chr6:54561977..54564257-chr6:54570191..54572297,2	MCF-7	breast:
9	chr6:54562310..54563986-chr6:54587468..54589771,2	MCF-7	breast:
10	chr6:54560989..54563870-chr6:54779771..54781666,2	MCF-7	breast:
11	chr6:54562300..54564099-chr6:54779694..54781853,2	MCF-7	breast:
12	chr6:54561293..54570100-chr6:54582505..54590247,14	MCF-7	breast:
13	chr6:54562066..54563606-chr6:54702788..54705608,2	MCF-7	breast:
14	chr6:54559803..54567776-chr6:54579525..54585377,11	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000168143	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1018141	0.88[EUR][1000 genomes]
rs10948842	0.88[EUR][1000 genomes]
rs11967781	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11967833	1.00[CEU][hapmap];0.87[CHB][hapmap];0.87[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12198936	1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12208090	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];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12211545	0.83[EUR][1000 genomes]
rs12527497	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12529276	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1395632	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1395635	1.00[CEU][hapmap];0.87[CHB][hapmap];0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1948954	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs1983140	0.91[CHB][hapmap]
rs2089411	0.89[EUR][1000 genomes]
rs34970714	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4712070	0.87[JPT][hapmap]
rs4715469	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs540890	0.86[EUR][1000 genomes]
rs6903280	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7746312	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7753256	0.88[EUR][1000 genomes]
rs9296764	0.92[CEU][hapmap];0.87[CHB][hapmap];0.88[AMR][1000 genomes];0.88[EUR][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	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54562400-54564200	Enhancers	NHEK	skin
2	chr6:54562400-54565400	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr6:54562600-54562800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr6:54562600-54563200	Enhancers	Placenta Amnion	Placenta Amnion
5	chr6:54562600-54565400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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