Variant report

Variant	rs9875587
Chromosome Location	chr3:150998988-150998989
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:150998943-150998988	MCF-7	breast:	n/a	n/a

Variant related genes	Relation type
P2RY14	TF binding region

Extended variants
information (count: 46 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10513393	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs13321176	0.86[EUR][1000 genomes]
rs1388625	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs17204437	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs17282940	0.90[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs17282947	0.90[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs17304673	0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs1920393	0.80[EUR][1000 genomes]
rs28386791	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs28734805	0.81[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs28810515	0.85[EUR][1000 genomes]
rs28831788	0.85[EUR][1000 genomes]
rs55751359	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs6780660	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6792089	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73157938	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73157954	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73157974	0.87[EUR][1000 genomes]
rs73157991	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9812617	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9814936	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9817216	0.88[EUR][1000 genomes]
rs9819885	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9821749	0.88[EUR][1000 genomes]
rs9821937	0.87[EUR][1000 genomes]
rs9831242	0.85[EUR][1000 genomes]
rs9834154	0.90[EUR][1000 genomes]
rs9838990	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs9840232	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs9841430	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9848789	0.90[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs9853676	0.86[EUR][1000 genomes]
rs9854017	0.88[EUR][1000 genomes]
rs9856118	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9859854	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9867524	0.90[EUR][1000 genomes]
rs9868643	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9871229	0.89[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9872645	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs9876268	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs9876933	0.90[EUR][1000 genomes]
rs9880395	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9881116	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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	esv2754555	chr3:150968302-151054302	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150977800-151000000	Weak transcription	Placenta	Placenta
2	chr3:150983000-151011000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:150983800-151000600	Weak transcription	Brain Substantia Nigra	brain
4	chr3:150984400-151022400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr3:150984600-151003600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr3:150984600-151003600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr3:150994600-150999600	Weak transcription	Stomach Smooth Muscle	stomach
8	chr3:150994600-151003600	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr3:150996200-151000200	Weak transcription	Brain Anterior Caudate	brain
10	chr3:150996200-151001000	Weak transcription	Stomach Mucosa	stomach
11	chr3:150996600-150999800	Weak transcription	NHDF-Ad	bronchial
12	chr3:150996600-151000600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr3:150996800-150999000	Enhancers	Primary B cells from cord blood	blood
14	chr3:150997000-151001000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr3:150997000-151001000	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr3:150997000-151001000	Weak transcription	Dnd41	blood
17	chr3:150997200-151001200	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr3:150997200-151001600	Weak transcription	Fetal Lung	lung
19	chr3:150997400-151001200	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr3:150997400-151001200	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr3:150997600-150999400	Enhancers	Primary neutrophils fromperipheralblood	blood
22	chr3:150997600-150999800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr3:150997600-151000800	Weak transcription	Duodenum Mucosa	Duodenum
24	chr3:150997600-151001200	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr3:150997600-151001800	Weak transcription	Fetal Stomach	stomach
26	chr3:150997800-150999600	Weak transcription	Rectal Smooth Muscle	rectum
27	chr3:150998400-151001800	Weak transcription	Fetal Thymus	thymus
28	chr3:150998600-151000800	Weak transcription	Primary T cells from cord blood	blood
29	chr3:150998600-151001000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr3:150998800-150999200	Weak transcription	Colon Smooth Muscle	Colon
31	chr3:150998800-151000400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr3:150998800-151000600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr3:150998800-151001200	Weak transcription	Primary hematopoietic stem cells	blood

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