Variant report

Variant	rs9853587
Chromosome Location	chr3:69244162-69244163
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	chr3:69243953..69247149-chr3:69247614..69251113,3	MCF-7	breast:
2	chr3:69242995..69248050-chr3:69248288..69251594,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114541	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11128114	0.83[EUR][1000 genomes]
rs11128118	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.95[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11712024	1.00[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12053848	1.00[CEU][hapmap]
rs12172924	0.87[ASN][1000 genomes]
rs12637416	0.83[ASW][hapmap];0.81[CHD][hapmap];0.91[JPT][hapmap];0.83[LWK][hapmap];0.89[YRI][hapmap];0.84[ASN][1000 genomes]
rs13059488	0.84[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs13059687	0.85[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.91[LWK][hapmap];0.93[MKK][hapmap];0.83[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs13082480	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs28529735	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4358306	0.81[ASN][1000 genomes]
rs4407408	0.83[EUR][1000 genomes]
rs4425262	0.83[EUR][1000 genomes]
rs4450819	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4461426	0.83[EUR][1000 genomes]
rs4493438	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4504171	1.00[CEU][hapmap];0.89[MEX][hapmap];0.83[EUR][1000 genomes]
rs4508786	0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4508787	1.00[CEU][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4522769	0.83[EUR][1000 genomes]
rs4541413	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.90[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4560302	0.83[EUR][1000 genomes]
rs4563416	0.83[EUR][1000 genomes]
rs4621333	0.83[EUR][1000 genomes]
rs4624565	0.84[CHB][hapmap];0.95[JPT][hapmap];0.86[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs4855361	0.84[AMR][1000 genomes]
rs6549187	1.00[CEU][hapmap]
rs6763046	0.83[GIH][hapmap]
rs6765309	0.87[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs6792358	1.00[CEU][hapmap];0.89[MEX][hapmap];0.83[EUR][1000 genomes]
rs6804718	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6804872	1.00[CEU][hapmap]
rs72926297	0.83[EUR][1000 genomes]
rs72930219	0.81[AMR][1000 genomes]
rs9310138	0.86[AMR][1000 genomes]
rs9831516	0.85[CHB][hapmap];0.90[CHD][hapmap];0.89[MEX][hapmap];0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9833167	0.83[CHB][hapmap];0.95[JPT][hapmap];0.86[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs9836305	0.85[CHB][hapmap];0.90[CHD][hapmap];0.88[MEX][hapmap];0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9838728	1.00[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs9847983	0.85[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs9853744	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9860235	0.90[JPT][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs9872199	0.85[CHB][hapmap];0.90[CHD][hapmap];0.89[MEX][hapmap];0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9875511	0.83[CHB][hapmap];0.94[JPT][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs9883017	1.00[CEU][hapmap];0.83[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	esv3398378	chr3:69240573-69271936	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69218400-69247400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr3:69218400-69247800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr3:69222800-69245400	Strong transcription	Primary neutrophils fromperipheralblood	blood
4	chr3:69226800-69246800	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr3:69228400-69246800	Weak transcription	Primary T cells from cord blood	blood
6	chr3:69228600-69248600	Weak transcription	Stomach Smooth Muscle	stomach
7	chr3:69228800-69245800	Strong transcription	Primary T helper cells PMA-I stimulated	--
8	chr3:69228800-69246000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr3:69229000-69248400	Weak transcription	Primary B cells from cord blood	blood
10	chr3:69229200-69246000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr3:69229600-69248200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr3:69230600-69248600	Weak transcription	Aorta	Aorta
13	chr3:69230600-69248600	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr3:69230800-69248600	Weak transcription	Ovary	ovary
15	chr3:69231200-69246800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr3:69231200-69248600	Weak transcription	Left Ventricle	heart
17	chr3:69231200-69248600	Weak transcription	Small Intestine	intestine
18	chr3:69231400-69246400	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr3:69231400-69246600	Weak transcription	Fetal Brain Male	brain
20	chr3:69231400-69248400	Weak transcription	Rectal Smooth Muscle	rectum
21	chr3:69231400-69249600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr3:69231600-69248600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr3:69231800-69249600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr3:69232000-69247400	Weak transcription	Hela-S3	cervix
25	chr3:69232000-69248800	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr3:69232000-69249400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr3:69232000-69275600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr3:69232200-69248600	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr3:69232400-69246600	Strong transcription	Placenta	Placenta
30	chr3:69232400-69247400	Weak transcription	Stomach Mucosa	stomach
31	chr3:69232400-69248400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:69232400-69248400	Weak transcription	Brain Angular Gyrus	brain
33	chr3:69232600-69246000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
34	chr3:69232800-69249200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr3:69233200-69247200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
36	chr3:69233200-69247800	Strong transcription	Fetal Intestine Large	intestine
37	chr3:69233400-69246600	Strong transcription	Skeletal Muscle Female	skeletal muscle
38	chr3:69233600-69247400	Strong transcription	Rectal Mucosa Donor 31	rectum
39	chr3:69233600-69247800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr3:69234000-69246600	Strong transcription	Rectal Mucosa Donor 29	rectum
41	chr3:69234000-69248200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr3:69235800-69246600	Strong transcription	Duodenum Mucosa	Duodenum
43	chr3:69236400-69248400	Weak transcription	HepG2	liver
44	chr3:69237000-69246800	Strong transcription	Liver	Liver
45	chr3:69238000-69246400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr3:69238200-69247000	Strong transcription	Dnd41	blood
47	chr3:69238200-69248400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr3:69239200-69246000	Weak transcription	HUES48 Cell Line	embryonic stem cell
49	chr3:69239200-69246400	Strong transcription	Fetal Thymus	thymus
50	chr3:69239600-69244200	Strong transcription	Primary hematopoietic stem cells short term culture	blood

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