Variant report

Variant	rs7623206
Chromosome Location	chr3:160971518-160971519
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:160951586..160954326-chr3:160968656..160971619,2	K562	blood:
2	chr3:160946584..160950136-chr3:160968989..160972696,3	MCF-7	breast:
3	chr3:160970393..160971997-chr3:161083737..161085470,2	MCF-7	breast:
4	chr3:160938087..160941385-chr3:160967882..160971966,4	MCF-7	breast:
5	chr3:160970413..160971945-chr3:160972168..160974529,2	MCF-7	breast:
6	chr3:160963417..160965980-chr3:160971086..160973267,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169251	Chromatin interaction
ENSG00000271052	Chromatin interaction

Extended variants
information (count: 119 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:117)

rs_ID	r²[population]
rs1037888	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs10804790	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1154701	0.86[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12493960	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12495310	0.81[EUR][1000 genomes]
rs13083229	0.82[CEU][hapmap]
rs1382427	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1382428	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1478565	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1478568	0.82[CEU][hapmap]
rs1599374	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1599376	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1599378	0.89[AMR][1000 genomes]
rs1599386	0.80[ASN][1000 genomes]
rs1600209	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1609688	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs163327	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs163328	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs189270	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1993891	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2404340	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28515190	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs336541	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336543	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336548	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336567	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336569	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336570	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336572	0.96[CEU][hapmap]
rs336577	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336579	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336580	0.96[CEU][hapmap]
rs336583	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336585	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336586	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336589	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336590	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336591	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs336593	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs339101	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3849524	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4273380	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4290817	0.83[CEU][hapmap]
rs4350933	0.99[EUR][1000 genomes]
rs4370045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4414866	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4470535	0.81[EUR][1000 genomes]
rs4493448	0.98[EUR][1000 genomes]
rs4493449	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4518145	0.99[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs455386	0.80[EUR][1000 genomes]
rs4560315	0.81[EUR][1000 genomes]
rs456611	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs457272	0.89[EUR][1000 genomes]
rs459697	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4597724	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs460165	0.86[EUR][1000 genomes]
rs460508	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs461638	0.80[EUR][1000 genomes]
rs4616689	0.80[ASN][1000 genomes]
rs462413	0.80[EUR][1000 genomes]
rs462514	0.85[CEU][hapmap]
rs463928	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs464766	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs465985	0.81[EUR][1000 genomes]
rs466399	0.86[EUR][1000 genomes]
rs4856714	0.83[CEU][hapmap]
rs4856738	0.81[EUR][1000 genomes]
rs4856739	0.99[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4856767	0.83[CEU][hapmap]
rs62279921	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6441370	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6441371	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6441373	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6762645	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6765269	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6765270	0.89[AMR][1000 genomes]
rs6769642	0.80[ASN][1000 genomes]
rs6774276	0.86[CEU][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6774635	0.80[ASN][1000 genomes]
rs6775627	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6789388	0.85[CEU][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6791213	0.82[CEU][hapmap]
rs6794601	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs7611367	0.85[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7613358	0.83[CEU][hapmap]
rs7615592	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7622047	0.80[ASN][1000 genomes]
rs7629987	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7631479	0.92[CEU][hapmap]
rs7632797	0.85[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7633186	0.85[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7638668	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7647327	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7652267	0.82[CEU][hapmap]
rs7653233	0.99[EUR][1000 genomes]
rs7653361	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs898680	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs898681	1.00[CHB][hapmap]
rs9290065	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs9290073	0.96[EUR][1000 genomes]
rs9290074	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs975323	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9790314	0.98[EUR][1000 genomes]
rs9809522	0.81[EUR][1000 genomes]
rs980975	0.80[ASN][1000 genomes]
rs980976	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs9815222	0.82[CEU][hapmap]
rs9821201	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9831488	0.80[ASN][1000 genomes]
rs9834659	0.81[EUR][1000 genomes]
rs9846756	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9847866	0.80[ASN][1000 genomes]
rs9848239	0.80[ASN][1000 genomes]
rs9850455	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs9870059	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9872514	1.00[CEU][hapmap];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv1015063	chr3:160918307-161024070	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160939800-160995800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr3:160940000-160971600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:160940000-160977400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:160941000-160974800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:160941000-160983000	Weak transcription	Spleen	Spleen
6	chr3:160941000-160984600	Weak transcription	Small Intestine	intestine
7	chr3:160941000-160993400	Weak transcription	Pancreas	Pancrea
8	chr3:160941200-160973400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr3:160941400-160971800	Strong transcription	HUES48 Cell Line	embryonic stem cell
10	chr3:160941600-160975400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr3:160941800-160975200	Strong transcription	Monocytes-CD14+_RO01746	blood
12	chr3:160942200-160973200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
13	chr3:160942400-160975200	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr3:160942600-160971800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr3:160942600-160972600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
16	chr3:160942600-160973400	Strong transcription	Fetal Thymus	thymus
17	chr3:160942600-160975000	Strong transcription	HUES6 Cell Line	embryonic stem cell
18	chr3:160942600-160976600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:160942800-160971800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr3:160942800-160973800	Strong transcription	NH-A	brain
21	chr3:160942800-160978000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr3:160943600-160977200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr3:160946400-160972800	Strong transcription	HSMM	muscle
24	chr3:160947200-160972600	Weak transcription	Stomach Mucosa	stomach
25	chr3:160947400-160973600	Strong transcription	HUVEC	blood vessel
26	chr3:160948800-160971600	Weak transcription	Aorta	Aorta
27	chr3:160948800-160978000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr3:160950000-160978000	Strong transcription	HUES64 Cell Line	embryonic stem cell
29	chr3:160950200-160976600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr3:160950600-160972800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr3:160951000-160976600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:160951400-160973600	Weak transcription	Pancreatic Islets	Pancreatic Islet
33	chr3:160951400-160975200	Strong transcription	Osteobl	bone
34	chr3:160951600-160975000	Strong transcription	Muscle Satellite Cultured Cells	--
35	chr3:160951600-160976600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr3:160955000-160975400	Strong transcription	Fetal Intestine Large	intestine
37	chr3:160955800-160971800	Strong transcription	Placenta	Placenta
38	chr3:160955800-160972800	Strong transcription	Primary B cells from peripheral blood	blood
39	chr3:160955800-160973400	Strong transcription	Primary neutrophils fromperipheralblood	blood
40	chr3:160955800-160974600	Strong transcription	Duodenum Mucosa	Duodenum
41	chr3:160956400-160993000	Weak transcription	Esophagus	oesophagus
42	chr3:160957400-160973200	Strong transcription	Primary T cells fromperipheralblood	blood
43	chr3:160958600-160983600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr3:160959600-160973800	Strong transcription	Dnd41	blood
45	chr3:160964000-160972000	Strong transcription	Rectal Mucosa Donor 29	rectum
46	chr3:160964000-160972400	Strong transcription	Primary T helper cells PMA-I stimulated	--
47	chr3:160964000-160973200	Strong transcription	Cortex derived primary cultured neurospheres	brain
48	chr3:160964000-160973200	Strong transcription	Rectal Mucosa Donor 31	rectum
49	chr3:160964000-160974000	Strong transcription	Primary T helper cells fromperipheralblood	blood
50	chr3:160964200-160971800	Strong transcription	iPS-20b Cell Line	embryonic stem cell

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