Variant report

Variant	rs1889227
Chromosome Location	chr1:98224795-98224796
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10518643	1.00[GIH][hapmap]
rs10875103	0.87[ASW][hapmap];0.93[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12074249	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs1333720	0.87[ASW][hapmap];0.93[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1333721	1.00[GIH][hapmap]
rs13376217	1.00[GIH][hapmap]
rs1413224	0.87[ASW][hapmap];0.93[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17117167	1.00[GIH][hapmap]
rs17117175	1.00[GIH][hapmap]
rs17117194	1.00[GIH][hapmap]
rs17117198	1.00[GIH][hapmap]
rs17117203	1.00[GIH][hapmap]
rs17117207	1.00[GIH][hapmap]
rs17117214	1.00[GIH][hapmap]
rs17117218	1.00[GIH][hapmap]
rs17117222	1.00[GIH][hapmap]
rs17117228	1.00[GIH][hapmap]
rs17117234	1.00[GIH][hapmap]
rs17117251	1.00[GIH][hapmap]
rs1855376	1.00[GIH][hapmap]
rs1889228	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3920740	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4360558	1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59356371	1.00[EUR][1000 genomes]
rs61211497	1.00[EUR][1000 genomes]
rs72963706	1.00[EUR][1000 genomes]
rs72979788	1.00[EUR][1000 genomes]
rs72981731	1.00[EUR][1000 genomes]
rs72981733	1.00[EUR][1000 genomes]
rs72981745	1.00[EUR][1000 genomes]
rs72981751	1.00[EUR][1000 genomes]
rs72981754	1.00[EUR][1000 genomes]
rs72981756	1.00[EUR][1000 genomes]
rs72981760	1.00[EUR][1000 genomes]
rs72981761	1.00[EUR][1000 genomes]
rs72981763	1.00[EUR][1000 genomes]
rs72981765	1.00[EUR][1000 genomes]
rs72981766	1.00[EUR][1000 genomes]
rs72981768	1.00[EUR][1000 genomes]
rs72981771	1.00[EUR][1000 genomes]
rs72981774	1.00[EUR][1000 genomes]
rs7517110	1.00[EUR][1000 genomes]
rs7545029	1.00[GIH][hapmap]
rs7553077	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533039	chr1:97665736-98343102	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv530049	chr1:97883261-98384614	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv830714	chr1:98025090-98229416	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv1012958	chr1:98081528-98864746	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv871740	chr1:98165091-98322379	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
6	nsv871472	chr1:98165091-98342417	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
7	nsv870596	chr1:98165091-98365310	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
8	nsv871625	chr1:98165091-98564736	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
9	nsv871050	chr1:98187755-98365310	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	esv1799805	chr1:98198206-98349028	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv871651	chr1:98200719-98365310	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:98177200-98254600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr1:98183600-98279600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:98187200-98243400	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr1:98200800-98231200	Weak transcription	Dnd41	blood
5	chr1:98204000-98256600	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr1:98204200-98257000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr1:98205600-98231000	Weak transcription	HSMM	muscle
8	chr1:98206400-98226400	Weak transcription	Primary hematopoietic stem cells	blood
9	chr1:98207000-98254800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr1:98214600-98227200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr1:98218000-98231400	Weak transcription	NHDF-Ad	bronchial
12	chr1:98218400-98227200	Weak transcription	Primary B cells from cord blood	blood
13	chr1:98220000-98227800	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr1:98221200-98231000	Weak transcription	Psoas Muscle	Psoas
15	chr1:98221800-98225000	Weak transcription	NHLF	lung
16	chr1:98223000-98239000	Weak transcription	Lung	lung
17	chr1:98223800-98225200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr1:98224000-98225000	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr1:98224000-98225200	Enhancers	Colon Smooth Muscle	Colon
20	chr1:98224000-98225800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr1:98224000-98227600	Strong transcription	Primary T cells from cord blood	blood
22	chr1:98224200-98225000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr1:98224200-98225000	Enhancers	Adipose Nuclei	Adipose
24	chr1:98224200-98225000	Enhancers	Fetal Stomach	stomach
25	chr1:98224200-98225000	Enhancers	HSMMtube	muscle
26	chr1:98224200-98225400	Enhancers	Osteobl	bone
27	chr1:98224200-98225600	Enhancers	Muscle Satellite Cultured Cells	--
28	chr1:98224200-98225600	Enhancers	Liver	Liver
29	chr1:98224400-98224800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr1:98224400-98224800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr1:98224400-98224800	Enhancers	Aorta	Aorta
32	chr1:98224400-98224800	Enhancers	Fetal Kidney	kidney
33	chr1:98224400-98224800	Enhancers	Fetal Muscle Leg	muscle
34	chr1:98224400-98224800	Enhancers	Gastric	stomach
35	chr1:98224400-98224800	Enhancers	Left Ventricle	heart
36	chr1:98224400-98224800	Enhancers	Ovary	ovary
37	chr1:98224400-98224800	Enhancers	Sigmoid Colon	Sigmoid Colon
38	chr1:98224400-98224800	Enhancers	Skeletal Muscle Female	skeletal muscle
39	chr1:98224400-98225000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr1:98224400-98225200	Enhancers	Brain Hippocampus Middle	brain
41	chr1:98224400-98225200	Enhancers	Duodenum Smooth Muscle	Duodenum
42	chr1:98224400-98225800	Enhancers	Fetal Lung	lung
43	chr1:98224600-98224800	Enhancers	Esophagus	oesophagus
44	chr1:98224600-98225000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr1:98224600-98225000	Enhancers	Duodenum Mucosa	Duodenum
46	chr1:98224600-98225000	Enhancers	Right Ventricle	heart
47	chr1:98224600-98225000	Enhancers	Small Intestine	intestine
48	chr1:98224600-98225000	Enhancers	A549	lung

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