Variant report

Variant	rs71551042
Chromosome Location	chr6:15256320-15256321
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	chr6:15254326..15257195-chr6:15265565..15267643,2	MCF-7	breast:

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs13191127	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13197919	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13198600	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13203059	1.00[AFR][1000 genomes]
rs13203659	1.00[AFR][1000 genomes]
rs13203744	1.00[AFR][1000 genomes]
rs13206138	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13206695	0.82[EUR][1000 genomes]
rs13209122	0.88[EUR][1000 genomes]
rs13209721	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13210652	0.80[EUR][1000 genomes]
rs13213534	0.82[EUR][1000 genomes]
rs13215638	0.82[EUR][1000 genomes]
rs13216551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13216625	0.82[EUR][1000 genomes]
rs13219748	0.88[EUR][1000 genomes]
rs34048058	0.80[EUR][1000 genomes]
rs34144528	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34156913	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs34229995	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34340185	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs34390534	0.88[EUR][1000 genomes]
rs34470245	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34488826	0.96[EUR][1000 genomes]
rs34677259	0.88[EUR][1000 genomes]
rs34790337	0.80[EUR][1000 genomes]
rs34816087	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34816488	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34934295	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35070076	1.00[AFR][1000 genomes]
rs35147300	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35378362	0.88[EUR][1000 genomes]
rs35659244	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs35660009	0.82[EUR][1000 genomes]
rs35981238	0.88[EUR][1000 genomes]
rs67845400	0.82[EUR][1000 genomes]
rs71533639	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71533640	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71533642	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71551024	1.00[AFR][1000 genomes]
rs71551025	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs71551028	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71551030	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71551032	0.88[EUR][1000 genomes]
rs71551033	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71551034	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71551035	0.85[EUR][1000 genomes]
rs71551040	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs71551041	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs71551043	1.00[EUR][1000 genomes]
rs71551045	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs71551046	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7740407	0.88[EUR][1000 genomes]
rs9383028	0.82[EUR][1000 genomes]
rs9476760	0.82[EUR][1000 genomes]
rs9476761	0.82[EUR][1000 genomes]
rs9476782	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9476783	0.88[EUR][1000 genomes]
rs9476784	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9476790	1.00[AMR][1000 genomes]
rs9476793	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9476794	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9476797	0.88[EUR][1000 genomes]
rs9476798	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830594	chr6:15171158-15261296	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv1030558	chr6:15234675-15449137	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv538142	chr6:15243960-15404893	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15250000-15256800	Weak transcription	Rectal Smooth Muscle	rectum
2	chr6:15250000-15262000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
3	chr6:15250200-15259200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr6:15250400-15256600	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr6:15250400-15257000	Enhancers	Thymus	Thymus
6	chr6:15250400-15257000	Enhancers	Dnd41	blood
7	chr6:15250400-15258600	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr6:15250400-15259200	Weak transcription	HMEC	breast
9	chr6:15250800-15256400	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr6:15251000-15257000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr6:15251200-15279400	Weak transcription	A549	lung
12	chr6:15251400-15257400	Enhancers	Primary B cells from peripheral blood	blood
13	chr6:15252200-15257000	Flanking Active TSS	GM12878-XiMat	blood
14	chr6:15252400-15260000	Genic enhancers	Fetal Thymus	thymus
15	chr6:15252600-15257200	Enhancers	Small Intestine	intestine
16	chr6:15253200-15262000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
17	chr6:15253200-15262200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
18	chr6:15253200-15269600	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr6:15253400-15257400	Enhancers	Primary neutrophils fromperipheralblood	blood
20	chr6:15253600-15257000	Enhancers	Primary T cells fromperipheralblood	blood
21	chr6:15253600-15261600	Enhancers	Skeletal Muscle Male	skeletal muscle
22	chr6:15253600-15262200	Enhancers	Skeletal Muscle Female	skeletal muscle
23	chr6:15253800-15256400	Genic enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr6:15253800-15257000	Enhancers	Sigmoid Colon	Sigmoid Colon
25	chr6:15253800-15258400	Genic enhancers	HUES64 Cell Line	embryonic stem cell
26	chr6:15253800-15261600	Enhancers	Brain Anterior Caudate	brain
27	chr6:15253800-15262000	Enhancers	Brain Cingulate Gyrus	brain
28	chr6:15254000-15257000	Enhancers	Left Ventricle	heart
29	chr6:15254000-15257000	Enhancers	Psoas Muscle	Psoas
30	chr6:15254000-15258200	Genic enhancers	K562	blood
31	chr6:15254000-15261800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
32	chr6:15254000-15262000	Enhancers	Brain Hippocampus Middle	brain
33	chr6:15254200-15256400	Enhancers	Esophagus	oesophagus
34	chr6:15254200-15269600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr6:15254400-15259800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr6:15254600-15263200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr6:15254600-15264800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr6:15254800-15256400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr6:15254800-15258200	Weak transcription	NHDF-Ad	bronchial
40	chr6:15254800-15259000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr6:15254800-15259000	Weak transcription	NH-A	brain
42	chr6:15254800-15260200	Enhancers	H1 Cell Line	embryonic stem cell
43	chr6:15254800-15262800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr6:15254800-15264200	Enhancers	iPS-18 Cell Line	embryonic stem cell
45	chr6:15254800-15269800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr6:15255000-15256400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr6:15255000-15256800	Weak transcription	NHLF	lung
48	chr6:15255000-15257200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr6:15255000-15257200	Weak transcription	Osteobl	bone
50	chr6:15255000-15261200	Enhancers	Fetal Muscle Leg	muscle

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