Variant report

Variant	rs13325336
Chromosome Location	chr3:111451750-111451751
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs12632310	0.88[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs13317985	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13321524	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs13322494	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs28479130	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28534728	0.93[EUR][1000 genomes]
rs28648833	0.93[EUR][1000 genomes]
rs28675079	0.83[EUR][1000 genomes]
rs3821919	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs3922706	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3922707	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3922780	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4075549	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4276156	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4390898	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs4516581	0.94[CEU][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4542994	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4634085	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs4682313	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs56052712	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56215064	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57902958	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs58124137	0.93[EUR][1000 genomes]
rs58663746	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60867472	0.93[EUR][1000 genomes]
rs6438012	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs66651424	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs66786213	0.93[EUR][1000 genomes]
rs66856712	0.93[EUR][1000 genomes]
rs66975684	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6762246	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs6762572	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs6778818	0.93[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes]
rs6782513	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs6787278	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs6789977	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs6790355	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs6790521	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs6790612	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs6790825	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs6790977	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs6795947	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs67970120	0.83[EUR][1000 genomes]
rs6798476	0.82[JPT][hapmap]
rs6800047	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs6800065	0.94[CEU][hapmap];0.93[EUR][1000 genomes]
rs6800922	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6802960	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs73220212	0.87[ASN][1000 genomes]
rs73222475	0.93[EUR][1000 genomes]
rs73222500	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7614433	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7627909	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9842396	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9843288	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs9850748	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9858064	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9858228	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9862472	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9868898	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs9871034	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9877777	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9880633	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv591290	chr3:111427455-111462570	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111415200-111454200	Weak transcription	Small Intestine	intestine
2	chr3:111427600-111456000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr3:111441600-111452800	Weak transcription	Placenta	Placenta
4	chr3:111442000-111452000	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr3:111442000-111454200	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr3:111442400-111456000	Weak transcription	Lung	lung
7	chr3:111442800-111455800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr3:111443200-111454800	Weak transcription	Primary T cells from cord blood	blood
9	chr3:111444200-111456000	Weak transcription	Aorta	Aorta
10	chr3:111445200-111456800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr3:111447200-111451800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr3:111448800-111453600	Weak transcription	Right Atrium	heart
13	chr3:111448800-111454200	Weak transcription	Adipose Nuclei	Adipose
14	chr3:111449000-111453400	Weak transcription	Fetal Heart	heart
15	chr3:111449000-111453600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr3:111449000-111453600	Weak transcription	HUVEC	blood vessel
17	chr3:111449000-111454200	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr3:111449000-111455800	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr3:111449200-111453600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr3:111449200-111453600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr3:111449400-111453400	Weak transcription	HSMMtube	muscle
22	chr3:111449400-111456000	Weak transcription	Colon Smooth Muscle	Colon
23	chr3:111449600-111452600	Weak transcription	HSMM	muscle
24	chr3:111449600-111452800	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr3:111449600-111452800	Weak transcription	Hela-S3	cervix
26	chr3:111449600-111452800	Weak transcription	Osteobl	bone
27	chr3:111449600-111453400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr3:111449600-111453400	Weak transcription	NH-A	brain
29	chr3:111449600-111453600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr3:111449600-111453800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr3:111449600-111453800	Weak transcription	NHLF	lung
32	chr3:111449600-111456000	Weak transcription	Esophagus	oesophagus
33	chr3:111449800-111453600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr3:111449800-111453600	Weak transcription	NHDF-Ad	bronchial
35	chr3:111450200-111452800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr3:111451000-111453000	Active TSS	Fetal Kidney	kidney
37	chr3:111451200-111452000	Enhancers	HMEC	breast
38	chr3:111451200-111452200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr3:111451200-111452400	Active TSS	Pancreas	Pancrea
40	chr3:111451200-111452600	Active TSS	Fetal Stomach	stomach
41	chr3:111451200-111452600	Active TSS	Rectal Mucosa Donor 29	rectum
42	chr3:111451200-111453400	Active TSS	Liver	Liver
43	chr3:111451200-111453600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr3:111451200-111454400	Active TSS	Pancreatic Islets	Pancreatic Islet
45	chr3:111451400-111451800	Flanking Active TSS	Fetal Intestine Small	intestine
46	chr3:111451400-111451800	Active TSS	A549	lung
47	chr3:111451400-111452400	Active TSS	Colonic Mucosa	Colon
48	chr3:111451400-111452400	Flanking Active TSS	Fetal Intestine Large	intestine
49	chr3:111451400-111452400	Active TSS	Gastric	stomach
50	chr3:111451400-111452400	Active TSS	Stomach Mucosa	stomach

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