Variant report

Variant	rs6570572
Chromosome Location	chr6:144012833-144012834
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:143996710..144001910-chr6:144005817..144014875,10	MCF-7	breast:
2	chr6:144011351..144015622-chr6:144016784..144019989,3	K562	blood:
3	chr6:144011387..144013559-chr6:144018568..144021455,2	MCF-7	breast:
4	chr6:143997575..144000803-chr6:144010017..144014247,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112419	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs11155318	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11155320	1.00[CEU][hapmap];0.83[CHB][hapmap];0.87[JPT][hapmap];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11962519	1.00[CEU][hapmap];0.87[CHB][hapmap];0.87[JPT][hapmap];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12530310	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13190772	0.96[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13191259	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13204954	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13220613	0.96[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs2024693	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2051008	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2092762	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2474150	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs3924968	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4299843	0.83[CHB][hapmap];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4523103	1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap];0.94[EUR][1000 genomes]
rs6570571	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6570573	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6913687	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6914940	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6916245	1.00[CHB][hapmap];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6931556	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7450663	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7738179	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7739094	0.86[JPT][hapmap]
rs7740883	0.82[CHB][hapmap];0.83[ASN][1000 genomes]
rs7741628	0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs7741901	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7741998	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs7747182	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7758298	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7760178	1.00[CHB][hapmap];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7762598	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7764549	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7766091	0.96[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7770812	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7771214	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7772898	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7773502	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs910419	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9321933	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9321934	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9376773	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9376774	0.87[CHB][hapmap];0.82[EUR][1000 genomes]
rs9376775	0.87[CHB][hapmap];0.82[EUR][1000 genomes]
rs9376777	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9390127	1.00[CHB][hapmap];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9399454	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9399456	1.00[CHB][hapmap];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9399459	0.87[CHB][hapmap];0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9403520	0.89[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9403522	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9484785	0.90[JPT][hapmap]
rs9484794	0.96[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9496712	0.85[JPT][hapmap]
rs9496718	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9496721	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9496729	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9496733	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap]
rs9496734	1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9496735	0.98[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][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	esv2758084	chr6:143916621-144079976	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2759476	chr6:143916621-144079976	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv886737	chr6:144010570-144033992	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144002000-144013000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr6:144003600-144015000	Weak transcription	Esophagus	oesophagus
3	chr6:144003600-144015000	Weak transcription	Gastric	stomach
4	chr6:144004400-144013000	Weak transcription	Fetal Kidney	kidney
5	chr6:144005000-144020400	Weak transcription	Fetal Muscle Trunk	muscle
6	chr6:144005600-144016000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr6:144005800-144015200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr6:144006000-144013200	Weak transcription	Small Intestine	intestine
9	chr6:144006000-144017800	Weak transcription	Fetal Heart	heart
10	chr6:144007800-144013200	Enhancers	HepG2	liver
11	chr6:144007800-144013600	Enhancers	H1 Cell Line	embryonic stem cell
12	chr6:144008000-144014000	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr6:144008600-144015000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:144008800-144015000	Weak transcription	NHEK	skin
15	chr6:144009000-144013400	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr6:144009000-144015200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr6:144009200-144015000	Weak transcription	HMEC	breast
18	chr6:144009200-144016200	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr6:144009400-144015600	Weak transcription	Primary monocytes fromperipheralblood	blood
20	chr6:144009400-144016600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr6:144009600-144013000	Weak transcription	Rectal Smooth Muscle	rectum
22	chr6:144009600-144015000	Weak transcription	Colon Smooth Muscle	Colon
23	chr6:144010000-144014000	Enhancers	HUES64 Cell Line	embryonic stem cell
24	chr6:144010200-144013600	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr6:144010200-144015200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr6:144010200-144019600	Weak transcription	Spleen	Spleen
27	chr6:144010400-144013000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr6:144010400-144013000	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr6:144010400-144013200	Weak transcription	Fetal Intestine Small	intestine
30	chr6:144010400-144015000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr6:144010400-144017800	Weak transcription	Ovary	ovary
32	chr6:144010400-144020000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr6:144010600-144013200	Enhancers	ES-I3 Cell Line	embryonic stem cell
34	chr6:144010600-144013400	Enhancers	iPS-18 Cell Line	embryonic stem cell
35	chr6:144010800-144013600	Enhancers	Muscle Satellite Cultured Cells	--
36	chr6:144011000-144013200	Enhancers	Osteobl	bone
37	chr6:144011200-144013400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr6:144011200-144013400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr6:144011200-144014400	Enhancers	Fetal Lung	lung
40	chr6:144011200-144016200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr6:144011400-144013400	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr6:144011400-144013400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr6:144011400-144016000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr6:144011600-144013200	Weak transcription	Aorta	Aorta
45	chr6:144011600-144013200	Weak transcription	Psoas Muscle	Psoas
46	chr6:144011600-144013400	Enhancers	HUES48 Cell Line	embryonic stem cell
47	chr6:144011600-144013800	Weak transcription	Right Ventricle	heart
48	chr6:144011600-144014000	Enhancers	HSMMtube	muscle
49	chr6:144011600-144014200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr6:144011600-144014200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

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