Variant report

Variant	rs212010
Chromosome Location	chr3:60050599-60050600
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:60044792..60047333-chr3:60050018..60052719,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs13060068	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs17061932	0.89[ASN][1000 genomes]
rs17061972	1.00[CHB][hapmap]
rs17257269	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs191926	0.87[EUR][1000 genomes]
rs191927	0.80[CEU][hapmap];0.87[EUR][1000 genomes]
rs212006	0.80[CEU][hapmap];0.84[EUR][1000 genomes]
rs212007	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs212009	0.86[EUR][1000 genomes]
rs212011	0.87[EUR][1000 genomes]
rs212036	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs212038	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs2223085	0.89[ASN][1000 genomes]
rs2361336	1.00[JPT][hapmap]
rs2366953	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2630154	0.87[EUR][1000 genomes]
rs2630165	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs2630182	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2630195	0.89[ASN][1000 genomes]
rs2630205	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2736763	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2736776	0.89[ASN][1000 genomes]
rs2736820	0.89[ASN][1000 genomes]
rs34267930	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34732137	0.89[ASN][1000 genomes]
rs3845974	1.00[CHB][hapmap]
rs4024129	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4024131	0.89[ASN][1000 genomes]
rs4679629	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4679631	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4679636	1.00[JPT][hapmap]
rs6446109	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs6446110	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs67136973	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6773600	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs6782148	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs6789112	1.00[JPT][hapmap]
rs6791450	1.00[JPT][hapmap]
rs6794055	1.00[JPT][hapmap]
rs6797474	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs6804216	1.00[JPT][hapmap]
rs6806074	1.00[JPT][hapmap]
rs7609578	1.00[JPT][hapmap]
rs7642268	1.00[JPT][hapmap]
rs9311748	1.00[JPT][hapmap]
rs969562	1.00[JPT][hapmap]
rs9833389	0.89[ASN][1000 genomes]
rs986651	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1014983	chr3:59884024-60558331	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv590387	chr3:59890976-60481459	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv834707	chr3:60005679-60184046	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:60042000-60051600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr3:60043000-60051400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:60045000-60054200	Enhancers	Primary T killer memory cells from peripheral blood	blood
4	chr3:60045800-60052400	Enhancers	Primary T cells from cord blood	blood
5	chr3:60046800-60051800	Enhancers	Thymus	Thymus
6	chr3:60047400-60052200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr3:60048200-60054000	Enhancers	Dnd41	blood
8	chr3:60048800-60050600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr3:60048800-60059400	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr3:60049000-60051800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
11	chr3:60049200-60052000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
12	chr3:60049400-60053200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
13	chr3:60049800-60052000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
14	chr3:60049800-60052200	Enhancers	Fetal Thymus	thymus
15	chr3:60050000-60051400	Enhancers	NH-A	brain
16	chr3:60050000-60052000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
17	chr3:60050200-60051200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr3:60050200-60051200	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr3:60050200-60051200	Enhancers	Muscle Satellite Cultured Cells	--
20	chr3:60050200-60051200	Enhancers	Stomach Mucosa	stomach
21	chr3:60050200-60051200	Enhancers	Osteobl	bone
22	chr3:60050200-60051400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr3:60050200-60051400	Enhancers	Placenta Amnion	Placenta Amnion
24	chr3:60050200-60051600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr3:60050200-60051600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr3:60050200-60051600	Enhancers	Cortex derived primary cultured neurospheres	brain
27	chr3:60050400-60050800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr3:60050400-60050800	Weak transcription	Primary T cells fromperipheralblood	blood
29	chr3:60050400-60050800	Enhancers	Primary T helper naive cells from peripheral blood	blood
30	chr3:60050400-60050800	Enhancers	Primary T helper cells PMA-I stimulated	--
31	chr3:60050400-60051000	Enhancers	HUES64 Cell Line	embryonic stem cell
32	chr3:60050400-60051200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr3:60050400-60051200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr3:60050400-60051200	Enhancers	Fetal Heart	heart
35	chr3:60050400-60051200	Enhancers	NHDF-Ad	bronchial
36	chr3:60050400-60051400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr3:60050400-60051600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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