Variant report

Variant	rs10513387
Chromosome Location	chr3:150915329-150915330
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	chr3:150911256..150912948-chr3:150913991..150916075,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1017348	0.89[CEU][hapmap]
rs10513393	0.88[CEU][hapmap]
rs1221002	0.89[CEU][hapmap]
rs13321176	0.88[CEU][hapmap]
rs13322794	0.94[CEU][hapmap];0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1549829	1.00[CEU][hapmap];0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1554120	1.00[CEU][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17204437	0.88[CEU][hapmap]
rs17282940	0.83[CEU][hapmap]
rs17282947	0.83[CEU][hapmap]
rs17290219	1.00[CEU][hapmap];0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17304673	1.00[ASN][1000 genomes]
rs1920393	1.00[ASN][1000 genomes]
rs1920397	0.89[CEU][hapmap]
rs2567325	0.83[CEU][hapmap]
rs55936523	0.87[AFR][1000 genomes]
rs6773020	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6792089	0.88[CEU][hapmap]
rs722133	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73155751	1.00[ASN][1000 genomes]
rs73155773	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73155774	0.91[EUR][1000 genomes]
rs73155776	0.87[AFR][1000 genomes]
rs7614811	0.87[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9814936	0.88[CEU][hapmap]
rs9817216	0.88[CEU][hapmap];1.00[ASN][1000 genomes]
rs9818251	0.92[CEU][hapmap];0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9819885	0.88[CEU][hapmap]
rs9821749	1.00[ASN][1000 genomes]
rs9821937	0.83[CEU][hapmap];1.00[ASN][1000 genomes]
rs9831242	0.88[CEU][hapmap]
rs9836053	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9838990	0.83[CEU][hapmap]
rs9848789	0.88[CEU][hapmap]
rs9850762	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9854017	0.83[CEU][hapmap];1.00[ASN][1000 genomes]
rs9854126	0.94[CEU][hapmap];0.87[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9856118	0.83[CEU][hapmap]
rs9859854	0.83[CEU][hapmap]
rs9868643	0.82[CEU][hapmap]
rs9871229	1.00[ASN][1000 genomes]
rs9871624	0.94[CEU][hapmap]
rs9872645	0.88[CEU][hapmap]
rs9876268	0.88[CEU][hapmap]
rs9876933	0.83[CEU][hapmap]
rs9881116	0.94[CEU][hapmap];1.00[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	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2757897	chr3:150791625-150957485	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2759188	chr3:150791625-150957485	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150878000-150946000	Weak transcription	Placenta	Placenta
2	chr3:150890600-150923400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr3:150896200-150927800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr3:150896600-150918200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr3:150897200-150916200	Weak transcription	Fetal Intestine Small	intestine
6	chr3:150898600-150917200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr3:150899000-150917000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr3:150900400-150917200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr3:150900600-150917000	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr3:150900800-150917200	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr3:150901200-150917600	Weak transcription	Fetal Thymus	thymus
12	chr3:150901200-150917800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr3:150901400-150916200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr3:150901800-150918000	Strong transcription	Primary neutrophils fromperipheralblood	blood
15	chr3:150902200-150916400	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr3:150904800-150916200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr3:150907000-150917400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr3:150907200-150916200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr3:150907400-150915800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr3:150907400-150916800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr3:150908800-150933200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr3:150909000-150917200	Weak transcription	Dnd41	blood
23	chr3:150909000-150918800	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr3:150909600-150916200	Weak transcription	Fetal Intestine Large	intestine
25	chr3:150911600-150918600	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr3:150911800-150928600	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr3:150912000-150917800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr3:150912400-150916200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr3:150912400-150917200	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr3:150914200-150915400	Strong transcription	Primary hematopoietic stem cells	blood
31	chr3:150914200-150915600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr3:150914200-150915800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
33	chr3:150914600-150915400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr3:150914600-150916200	Strong transcription	Primary T cells from cord blood	blood
35	chr3:150914600-150917600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
36	chr3:150915000-150915400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr3:150915000-150916200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
38	chr3:150915000-150917000	Enhancers	Liver	Liver
39	chr3:150915200-150915400	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood
40	chr3:150915200-150915400	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
41	chr3:150915200-150915400	Enhancers	Primary T killer memory cells from peripheral blood	blood
42	chr3:150915200-150915400	Enhancers	Fetal Lung	lung
43	chr3:150915200-150915800	Flanking Active TSS	HepG2	liver
44	chr3:150915200-150916200	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
45	chr3:150915200-150917600	Genic enhancers	Primary T cells fromperipheralblood	blood

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