Variant report

Variant	rs16858743
Chromosome Location	chr3:111587870-111587871
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs12487229	1.00[EUR][1000 genomes]
rs12488995	1.00[EUR][1000 genomes]
rs1392329	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16858719	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16858745	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16858748	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16858764	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4396866	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs57738321	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58242934	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7632432	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7646340	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829676	chr3:111464087-111619200	Genic enhancers Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111579800-111588400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:111579800-111589000	Weak transcription	Pancreas	Pancrea
3	chr3:111580000-111589200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr3:111581400-111593800	Weak transcription	Fetal Muscle Trunk	muscle
5	chr3:111582200-111593200	Weak transcription	Lung	lung
6	chr3:111583800-111591200	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr3:111584400-111589200	Enhancers	Colon Smooth Muscle	Colon
8	chr3:111584400-111589800	Enhancers	Rectal Smooth Muscle	rectum
9	chr3:111584400-111591000	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr3:111584600-111588000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr3:111584600-111588400	Weak transcription	Fetal Stomach	stomach
12	chr3:111584600-111588400	Weak transcription	HepG2	liver
13	chr3:111584600-111588400	Weak transcription	NHDF-Ad	bronchial
14	chr3:111584600-111588600	Weak transcription	Fetal Lung	lung
15	chr3:111584600-111588800	Weak transcription	Stomach Mucosa	stomach
16	chr3:111584600-111590800	Weak transcription	Fetal Kidney	kidney
17	chr3:111584600-111591000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr3:111584600-111593200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr3:111584600-111603400	Weak transcription	Fetal Intestine Large	intestine
20	chr3:111584800-111591200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr3:111585200-111588400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr3:111585200-111588400	Weak transcription	HMEC	breast
23	chr3:111585200-111589000	Weak transcription	NHLF	lung
24	chr3:111585200-111591200	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr3:111585200-111591200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr3:111585200-111591200	Weak transcription	Fetal Muscle Leg	muscle
27	chr3:111585200-111591200	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr3:111585200-111622000	Weak transcription	HSMMtube	muscle
29	chr3:111585400-111588000	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr3:111585400-111588400	Weak transcription	HUVEC	blood vessel
31	chr3:111585400-111591000	Weak transcription	Ovary	ovary
32	chr3:111585400-111592800	Weak transcription	HSMM	muscle
33	chr3:111585400-111593400	Weak transcription	Psoas Muscle	Psoas
34	chr3:111585400-111603400	Weak transcription	Spleen	Spleen
35	chr3:111585400-111609000	Weak transcription	Esophagus	oesophagus
36	chr3:111585600-111589000	Enhancers	Adipose Nuclei	Adipose
37	chr3:111585600-111589800	Enhancers	Stomach Smooth Muscle	stomach
38	chr3:111585600-111591000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr3:111585600-111592400	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr3:111585800-111589600	Weak transcription	Small Intestine	intestine
41	chr3:111586400-111593000	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr3:111586600-111588800	Weak transcription	Brain Substantia Nigra	brain
43	chr3:111586800-111588400	Enhancers	A549	lung
44	chr3:111587000-111588000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr3:111587000-111588400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr3:111587000-111589800	Genic enhancers	NH-A	brain
47	chr3:111587000-111590200	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr3:111587000-111591200	Weak transcription	Right Atrium	heart
49	chr3:111587000-111591400	Enhancers	Fetal Heart	heart
50	chr3:111587000-111591600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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