Variant report

Variant	rs6570508
Chromosome Location	chr6:142713842-142713843
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	chr6:142712685..142714610-chr6:142728020..142729545,2	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1040525	0.86[TSI][hapmap];0.90[EUR][1000 genomes]
rs1040526	0.85[CEU][hapmap];0.92[EUR][1000 genomes]
rs11755163	1.00[YRI][hapmap]
rs1342060	0.82[EUR][1000 genomes]
rs1360194	0.85[CEU][hapmap];0.84[GIH][hapmap];0.86[TSI][hapmap];0.90[EUR][1000 genomes]
rs1418201	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs155259	0.81[EUR][1000 genomes]
rs1891308	0.84[GIH][hapmap];0.86[TSI][hapmap];0.85[EUR][1000 genomes]
rs2039986	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs2039987	0.81[EUR][1000 genomes]
rs2050157	0.84[GIH][hapmap];0.86[TSI][hapmap];0.85[EUR][1000 genomes]
rs225694	1.00[YRI][hapmap]
rs2294764	0.85[CEU][hapmap];0.90[EUR][1000 genomes]
rs2294771	0.89[EUR][1000 genomes]
rs262115	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs262119	0.81[EUR][1000 genomes]
rs262121	0.81[EUR][1000 genomes]
rs262129	0.81[EUR][1000 genomes]
rs263180	0.81[EUR][1000 genomes]
rs263181	0.81[EUR][1000 genomes]
rs263182	0.81[EUR][1000 genomes]
rs263183	0.81[EUR][1000 genomes]
rs263184	0.81[EUR][1000 genomes]
rs263186	0.81[EUR][1000 genomes]
rs263187	0.81[EUR][1000 genomes]
rs263188	0.81[EUR][1000 genomes]
rs263189	0.81[EUR][1000 genomes]
rs3748069	0.89[EUR][1000 genomes]
rs3817929	0.89[EUR][1000 genomes]
rs4896582	0.84[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6570507	0.91[ASW][hapmap];0.84[GIH][hapmap];1.00[LWK][hapmap];0.97[MKK][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6570509	0.80[CEU][hapmap];0.92[EUR][1000 genomes]
rs6570510	0.89[EUR][1000 genomes]
rs6909857	0.84[CEU][hapmap];0.91[EUR][1000 genomes]
rs6929442	0.89[EUR][1000 genomes]
rs6937121	0.91[ASW][hapmap];0.85[CEU][hapmap];0.81[GIH][hapmap];0.87[MKK][hapmap];0.89[TSI][hapmap];0.81[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs7741741	0.85[EUR][1000 genomes]
rs7753012	1.00[ASW][hapmap];0.85[CEU][hapmap];0.83[CHB][hapmap];0.84[CHD][hapmap];0.97[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];0.87[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap]
rs7754638	0.89[EUR][1000 genomes]
rs7755109	0.81[GIH][hapmap];0.86[TSI][hapmap];0.89[EUR][1000 genomes]
rs7756305	0.82[EUR][1000 genomes]
rs7763064	0.85[EUR][1000 genomes]
rs7770386	0.87[EUR][1000 genomes]
rs7774095	0.86[EUR][1000 genomes]
rs7776375	0.88[EUR][1000 genomes]
rs9373346	0.90[EUR][1000 genomes]
rs9389984	0.81[EUR][1000 genomes]
rs9389985	0.85[EUR][1000 genomes]
rs9389986	1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9389987	0.83[EUR][1000 genomes]
rs9399401	0.82[EUR][1000 genomes]
rs9403380	0.85[EUR][1000 genomes]
rs9403381	0.84[GIH][hapmap];0.82[EUR][1000 genomes]
rs9403382	0.87[EUR][1000 genomes]
rs9403383	0.80[CEU][hapmap];0.84[GIH][hapmap];0.93[TSI][hapmap];0.90[EUR][1000 genomes]
rs9403387	0.89[EUR][1000 genomes]
rs9496346	0.81[GIH][hapmap];0.86[TSI][hapmap];0.86[EUR][1000 genomes]
rs9496369	0.92[EUR][1000 genomes]
rs9496374	0.91[EUR][1000 genomes]
rs9496392	0.85[EUR][1000 genomes]
rs962554	0.90[EUR][1000 genomes]
rs972982	0.81[GIH][hapmap];0.86[TSI][hapmap];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv830825	chr6:142585242-142752575	Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142698600-142733200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr6:142699800-142718600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr6:142699800-142719200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:142700000-142714200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:142706200-142719600	Weak transcription	NHEK	skin
6	chr6:142706400-142717200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:142708000-142734800	Weak transcription	Esophagus	oesophagus
8	chr6:142708200-142718600	Weak transcription	Placenta	Placenta
9	chr6:142708200-142719400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr6:142709200-142721000	Weak transcription	Fetal Intestine Small	intestine
11	chr6:142709400-142718800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr6:142710000-142715200	Weak transcription	HUVEC	blood vessel
13	chr6:142710000-142721600	Weak transcription	NHLF	lung
14	chr6:142710200-142733400	Weak transcription	HSMM	muscle
15	chr6:142710600-142719600	Weak transcription	Small Intestine	intestine
16	chr6:142711400-142725000	Strong transcription	HepG2	liver
17	chr6:142711800-142716600	Enhancers	Primary T cells from cord blood	blood
18	chr6:142711800-142725200	Strong transcription	Liver	Liver
19	chr6:142712200-142735000	Weak transcription	Fetal Brain Male	brain
20	chr6:142712800-142715800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr6:142713000-142714600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr6:142713000-142714600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr6:142713000-142714600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr6:142713200-142714600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr6:142713200-142715800	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr6:142713600-142715600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr6:142713600-142716200	Weak transcription	Primary hematopoietic stem cells	blood
28	chr6:142713600-142717600	Strong transcription	Fetal Lung	lung
29	chr6:142713800-142716000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr6:142713800-142717400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr6:142713800-142718000	Strong transcription	A549	lung

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