Variant report

Variant	rs16895012
Chromosome Location	chr6:163893567-163893568
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:163892454..163895409-chr6:163896616..163898931,2	K562	blood:
2	chr6:163893040..163896029-chr6:163899899..163902855,3	K562	blood:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10484571	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10484572	0.92[YRI][hapmap];1.00[AMR][1000 genomes]
rs10484573	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11962850	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964510	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964587	0.88[AFR][1000 genomes]
rs11964910	1.00[AMR][1000 genomes]
rs11965425	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs11965709	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11966710	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11966885	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11966919	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11966922	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11966958	0.91[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11969530	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11970766	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16888837	0.90[YRI][hapmap];1.00[AMR][1000 genomes]
rs16895001	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16895056	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16895066	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16895078	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16895118	0.90[YRI][hapmap];1.00[AMR][1000 genomes]
rs16895125	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16895139	0.92[YRI][hapmap];1.00[AMR][1000 genomes]
rs3846780	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3903714	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56702350	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57292071	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57394768	1.00[AMR][1000 genomes]
rs57952819	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59845233	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60965967	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61306342	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62428365	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6937286	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784410	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784416	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73787639	0.88[AFR][1000 genomes]
rs73787643	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73787648	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73787650	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7754815	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7755028	0.92[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][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	nsv932127	chr6:163000261-163950870	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv534621	chr6:163731741-163950870	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv1797109	chr6:163834147-163908115	Genic enhancers Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1019551	chr6:163842358-163965216	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1017495	chr6:163856399-163981095	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv523664	chr6:163858237-163907885	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:163878800-163910200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr6:163880600-163896600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr6:163880600-163897600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:163880600-163903200	Weak transcription	Pancreas	Pancrea
5	chr6:163880600-163906600	Weak transcription	Gastric	stomach
6	chr6:163881800-163897600	Weak transcription	Ovary	ovary
7	chr6:163881800-163901000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr6:163881800-163910800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr6:163882000-163899800	Weak transcription	Placenta	Placenta
10	chr6:163882000-163900000	Weak transcription	Fetal Thymus	thymus
11	chr6:163882000-163906600	Weak transcription	Thymus	Thymus
12	chr6:163883000-163895800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr6:163883000-163900800	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr6:163883000-163900800	Weak transcription	NH-A	brain
15	chr6:163883000-163906800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr6:163883800-163897000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr6:163884000-163895800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:163887200-163900000	Weak transcription	Fetal Stomach	stomach
19	chr6:163888400-163902800	Weak transcription	Right Atrium	heart
20	chr6:163888400-163908200	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr6:163889400-163897400	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr6:163890000-163900200	Weak transcription	Liver	Liver
23	chr6:163890000-163906200	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr6:163890800-163893600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr6:163890800-163911400	Weak transcription	Osteobl	bone
26	chr6:163891000-163896000	Weak transcription	Brain Germinal Matrix	brain
27	chr6:163891200-163893600	Strong transcription	Monocytes-CD14+_RO01746	blood
28	chr6:163891200-163894200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr6:163891400-163894000	Weak transcription	Brain Cingulate Gyrus	brain
30	chr6:163891400-163894200	Weak transcription	Brain Anterior Caudate	brain
31	chr6:163891400-163898600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr6:163891400-163900000	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr6:163891400-163900000	Weak transcription	Lung	lung
34	chr6:163891400-163906400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr6:163891400-163910200	Weak transcription	HUVEC	blood vessel
36	chr6:163891600-163894200	Weak transcription	Brain Angular Gyrus	brain
37	chr6:163891600-163896400	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr6:163891600-163900200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr6:163891600-163905000	Weak transcription	K562	blood
40	chr6:163891800-163895200	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr6:163891800-163899400	Weak transcription	Primary T helper cells PMA-I stimulated	--
42	chr6:163891800-163902000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:163892000-163893800	Strong transcription	Primary monocytes fromperipheralblood	blood
44	chr6:163892000-163896200	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr6:163892000-163904200	Weak transcription	NHDF-Ad	bronchial
46	chr6:163892200-163893600	Strong transcription	HSMM	muscle
47	chr6:163892200-163899200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr6:163892200-163899800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr6:163892200-163911400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr6:163892400-163893600	ZNF genes & repeats	Fetal Kidney	kidney

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