Variant report

Variant	rs4508787
Chromosome Location	chr3:69241585-69241586
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	chr3:69237366..69240116-chr3:69241157..69243942,2	MCF-7	breast:
2	chr3:69241267..69243514-chr3:69247620..69250040,3	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[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11712024	1.00[CEU][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12053848	1.00[CEU][hapmap]
rs12172924	0.82[ASN][1000 genomes]
rs12637416	0.81[AFR][1000 genomes]
rs13059488	0.82[ASN][1000 genomes]
rs13059687	0.81[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs13082480	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28529735	1.00[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4358306	0.88[ASN][1000 genomes]
rs4407408	0.83[EUR][1000 genomes]
rs4425262	0.83[EUR][1000 genomes]
rs4450819	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4461426	0.83[EUR][1000 genomes]
rs4493438	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4504171	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs4508786	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs4522769	0.83[EUR][1000 genomes]
rs4541413	1.00[CEU][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4560302	0.83[EUR][1000 genomes]
rs4563416	0.83[EUR][1000 genomes]
rs4621333	0.83[EUR][1000 genomes]
rs4624565	0.84[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs4855361	0.84[AMR][1000 genomes]
rs6549187	1.00[CEU][hapmap]
rs67268350	0.86[ASN][1000 genomes]
rs6765309	0.89[AFR][1000 genomes]
rs6792358	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs6804718	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[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];0.84[ASN][1000 genomes]
rs9831516	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9833167	0.84[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9836305	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9838728	1.00[CEU][hapmap];0.87[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs9847983	0.82[ASN][1000 genomes]
rs9853587	1.00[CEU][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9853744	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9860235	0.88[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9872199	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9875511	0.87[AFR][1000 genomes];0.80[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:92 , 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	chr3:69230600-69243000	Weak transcription	Fetal Kidney	kidney
13	chr3:69230600-69248600	Weak transcription	Aorta	Aorta
14	chr3:69230600-69248600	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr3:69230800-69248600	Weak transcription	Ovary	ovary
16	chr3:69231000-69243600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr3:69231200-69246800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr3:69231200-69248600	Weak transcription	Left Ventricle	heart
19	chr3:69231200-69248600	Weak transcription	Small Intestine	intestine
20	chr3:69231400-69246400	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr3:69231400-69246600	Weak transcription	Fetal Brain Male	brain
22	chr3:69231400-69248400	Weak transcription	Rectal Smooth Muscle	rectum
23	chr3:69231400-69249600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr3:69231600-69248600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr3:69231800-69249600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr3:69232000-69247400	Weak transcription	Hela-S3	cervix
27	chr3:69232000-69248800	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr3:69232000-69249400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr3:69232000-69275600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr3:69232200-69248600	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr3:69232400-69246600	Strong transcription	Placenta	Placenta
32	chr3:69232400-69247400	Weak transcription	Stomach Mucosa	stomach
33	chr3:69232400-69248400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr3:69232400-69248400	Weak transcription	Brain Angular Gyrus	brain
35	chr3:69232600-69242800	Weak transcription	HSMMtube	muscle
36	chr3:69232600-69246000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr3:69232800-69249200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr3:69233200-69247200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr3:69233200-69247800	Strong transcription	Fetal Intestine Large	intestine
40	chr3:69233400-69242800	Strong transcription	HUVEC	blood vessel
41	chr3:69233400-69246600	Strong transcription	Skeletal Muscle Female	skeletal muscle
42	chr3:69233600-69241600	Strong transcription	Adipose Nuclei	Adipose
43	chr3:69233600-69247400	Strong transcription	Rectal Mucosa Donor 31	rectum
44	chr3:69233600-69247800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr3:69234000-69246600	Strong transcription	Rectal Mucosa Donor 29	rectum
46	chr3:69234000-69248200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr3:69234200-69243800	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr3:69235800-69246600	Strong transcription	Duodenum Mucosa	Duodenum
49	chr3:69236400-69248400	Weak transcription	HepG2	liver
50	chr3:69237000-69246800	Strong transcription	Liver	Liver

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