Variant report

Variant	rs4571589
Chromosome Location	chr6:145089665-145089666
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	chr6:145088837..145090387-chr6:145098679..145100455,2	MCF-7	breast:

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10499235	0.90[YRI][hapmap]
rs11155377	0.90[YRI][hapmap]
rs11756890	1.00[YRI][hapmap]
rs11969314	0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13219714	0.90[AMR][1000 genomes]
rs1406045	0.83[CHB][hapmap];0.89[JPT][hapmap]
rs1590054	0.83[CHB][hapmap];0.89[JPT][hapmap]
rs1969517	0.83[AMR][1000 genomes]
rs2328571	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes]
rs4131500	0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4243473	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4243474	0.80[CEU][hapmap];0.85[CHB][hapmap];0.82[AMR][1000 genomes]
rs4272231	0.80[CEU][hapmap];0.85[CHB][hapmap]
rs4295503	0.92[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4305737	0.92[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4360150	0.90[AMR][1000 genomes]
rs4385333	0.81[CEU][hapmap];0.86[CHB][hapmap];0.82[AMR][1000 genomes]
rs4446580	0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4463276	0.92[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4479957	0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4538733	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4896738	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes]
rs4896740	0.92[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6570644	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6901197	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6906020	0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6906948	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes]
rs7742259	0.80[CEU][hapmap];0.82[AMR][1000 genomes]
rs7748226	0.90[YRI][hapmap]
rs7750326	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs7755539	1.00[YRI][hapmap]
rs7756909	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7758369	0.81[CEU][hapmap];0.85[CHB][hapmap]
rs7758449	0.84[CHB][hapmap]
rs7759754	1.00[YRI][hapmap]
rs7761155	1.00[YRI][hapmap]
rs9283116	0.81[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9285504	0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9321988	0.82[AMR][1000 genomes]
rs9321990	0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9373425	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes]
rs9390197	0.83[CHB][hapmap];0.89[JPT][hapmap]
rs9390201	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9390208	0.92[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9399503	0.90[YRI][hapmap]
rs9403587	0.84[CHB][hapmap]
rs9403611	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1032838	chr6:144978504-145110121	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830833	chr6:145001310-145201143	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv1021098	chr6:145017386-145106441	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145011800-145090200	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr6:145011800-145096600	Weak transcription	Thymus	Thymus
3	chr6:145040000-145094600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr6:145040000-145114600	Weak transcription	NHLF	lung
5	chr6:145046000-145122200	Weak transcription	Colonic Mucosa	Colon
6	chr6:145047600-145096600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:145047600-145115000	Weak transcription	Esophagus	oesophagus
8	chr6:145047600-145115000	Weak transcription	Rectal Smooth Muscle	rectum
9	chr6:145049400-145098400	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr6:145054000-145095600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr6:145054200-145093400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr6:145054400-145100000	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr6:145059600-145096600	Weak transcription	Lung	lung
14	chr6:145059600-145097400	Weak transcription	Spleen	Spleen
15	chr6:145059800-145096600	Weak transcription	Fetal Stomach	stomach
16	chr6:145066200-145090200	Weak transcription	Fetal Kidney	kidney
17	chr6:145066200-145126200	Weak transcription	Stomach Mucosa	stomach
18	chr6:145066400-145090400	Weak transcription	Pancreas	Pancrea
19	chr6:145066400-145090600	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr6:145067800-145115800	Strong transcription	Monocytes-CD14+_RO01746	blood
21	chr6:145068800-145090600	Weak transcription	Small Intestine	intestine
22	chr6:145068800-145115000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr6:145069600-145093400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr6:145069800-145094200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr6:145069800-145101800	Weak transcription	Aorta	Aorta
26	chr6:145070000-145090600	Weak transcription	Left Ventricle	heart
27	chr6:145070000-145092600	Weak transcription	Fetal Intestine Small	intestine
28	chr6:145070200-145094000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr6:145070600-145094400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr6:145072200-145101800	Weak transcription	Fetal Intestine Large	intestine
31	chr6:145072600-145094800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
32	chr6:145072800-145093600	Weak transcription	Placenta	Placenta
33	chr6:145073200-145105400	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr6:145073400-145090200	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr6:145073800-145089800	Weak transcription	HUES64 Cell Line	embryonic stem cell
36	chr6:145074400-145094000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr6:145074600-145089800	Weak transcription	NHDF-Ad	bronchial
38	chr6:145074600-145094400	Weak transcription	Osteobl	bone
39	chr6:145075000-145108800	Strong transcription	Primary B cells from cord blood	blood
40	chr6:145075400-145089800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr6:145075600-145094400	Weak transcription	GM12878-XiMat	blood
42	chr6:145076000-145089800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr6:145076600-145089800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
44	chr6:145076800-145095000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
45	chr6:145078000-145093400	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr6:145078200-145089800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr6:145079000-145089800	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr6:145080000-145115000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr6:145080200-145089800	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr6:145080200-145094200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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