Variant report

Variant	rs289834
Chromosome Location	chr2:152132130-152132131
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10207595	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11694240	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12622615	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13383563	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs172341	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs2113509	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2161841	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28638170	0.80[EUR][1000 genomes]
rs289830	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs289831	1.00[CEU][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs289836	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs289837	0.81[EUR][1000 genomes]
rs289838	0.81[CEU][hapmap];0.81[GIH][hapmap];0.83[TSI][hapmap];0.85[EUR][1000 genomes]
rs289839	0.93[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs289840	0.85[EUR][1000 genomes]
rs289882	0.93[CEU][hapmap];0.89[YRI][hapmap];0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs289883	0.93[CEU][hapmap];0.97[GIH][hapmap];0.92[MKK][hapmap];0.89[TSI][hapmap];0.89[YRI][hapmap];0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs289887	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs289916	0.93[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs394884	0.81[EUR][1000 genomes]
rs446791	0.81[GIH][hapmap];0.80[TSI][hapmap];0.81[EUR][1000 genomes]
rs453226	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4665119	0.85[AMR][1000 genomes]
rs4665120	0.81[CEU][hapmap];0.86[GIH][hapmap];0.85[AMR][1000 genomes]
rs4665123	0.85[CEU][hapmap]
rs55946491	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60381734	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6433369	0.81[ASW][hapmap]
rs6725961	0.93[ASW][hapmap];1.00[CEU][hapmap];0.88[GIH][hapmap];0.81[TSI][hapmap];0.89[YRI][hapmap]
rs6734376	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6744327	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.96[TSI][hapmap];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6744450	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6747930	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv523849	chr2:151718133-152143524	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	esv3693426	chr2:151725792-152295862	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv834417	chr2:151980473-152154950	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv1012891	chr2:152019809-152306897	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv1013484	chr2:152028515-152473913	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv535983	chr2:152028515-152473913	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
7	nsv1012139	chr2:152114637-152389516	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
8	nsv1011339	chr2:152114637-152392940	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 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	chr2:152118600-152133800	Weak transcription	Gastric	stomach
2	chr2:152118600-152142800	Weak transcription	Small Intestine	intestine
3	chr2:152118800-152133800	Weak transcription	Fetal Muscle Leg	muscle
4	chr2:152118800-152134000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr2:152118800-152144000	Weak transcription	Stomach Mucosa	stomach
6	chr2:152118800-152144200	Weak transcription	Psoas Muscle	Psoas
7	chr2:152119000-152133600	Weak transcription	Stomach Smooth Muscle	stomach
8	chr2:152119000-152134200	Weak transcription	NHLF	lung
9	chr2:152119000-152137000	Weak transcription	Osteobl	bone
10	chr2:152119000-152145000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr2:152119000-152145200	Weak transcription	Brain Cingulate Gyrus	brain
12	chr2:152119000-152145200	Weak transcription	NHEK	skin
13	chr2:152119000-152145800	Weak transcription	HSMM	muscle
14	chr2:152119200-152133200	Weak transcription	NHDF-Ad	bronchial
15	chr2:152119200-152133800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr2:152119400-152138200	Weak transcription	Hela-S3	cervix
17	chr2:152119400-152142800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr2:152119400-152144400	Weak transcription	A549	lung
19	chr2:152119400-152144800	Weak transcription	Brain Substantia Nigra	brain
20	chr2:152119400-152145200	Weak transcription	Brain Hippocampus Middle	brain
21	chr2:152119600-152133400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr2:152121200-152133000	Weak transcription	HSMMtube	muscle
23	chr2:152121200-152133800	Weak transcription	Pancreas	Pancrea
24	chr2:152121200-152138000	Weak transcription	K562	blood
25	chr2:152121200-152145000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr2:152121200-152145400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr2:152124400-152138400	Weak transcription	Brain Anterior Caudate	brain
28	chr2:152124600-152139200	Strong transcription	Primary neutrophils fromperipheralblood	blood
29	chr2:152125200-152145400	Weak transcription	Aorta	Aorta
30	chr2:152125800-152139200	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr2:152125800-152145200	Weak transcription	Right Ventricle	heart
32	chr2:152126000-152139200	Strong transcription	Primary T helper cells fromperipheralblood	blood
33	chr2:152126200-152139200	Strong transcription	Primary T helper cells PMA-I stimulated	--
34	chr2:152126200-152139200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr2:152126200-152139200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr2:152126200-152139400	Strong transcription	Primary monocytes fromperipheralblood	blood
37	chr2:152126200-152139400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr2:152126200-152139400	Strong transcription	Placenta	Placenta
39	chr2:152126200-152139800	Strong transcription	Monocytes-CD14+_RO01746	blood
40	chr2:152126200-152141200	Strong transcription	Dnd41	blood
41	chr2:152126400-152136400	Strong transcription	Rectal Mucosa Donor 31	rectum
42	chr2:152126400-152139200	Strong transcription	Primary T cells from cord blood	blood
43	chr2:152126400-152139200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr2:152126400-152139200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr2:152126400-152139200	Strong transcription	Adipose Nuclei	Adipose
46	chr2:152126400-152139400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
47	chr2:152126400-152139400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr2:152126400-152139400	Strong transcription	Liver	Liver
49	chr2:152126400-152139400	Strong transcription	Duodenum Mucosa	Duodenum
50	chr2:152126400-152139400	Strong transcription	Fetal Thymus	thymus

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