Variant report

Variant	rs59090592
Chromosome Location	chr3:87026788-87026789
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10514743	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17028628	0.99[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1898266	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1898267	0.98[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1898268	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1946747	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55854261	0.98[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56077607	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56338126	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56346369	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56781488	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57070008	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs57383190	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57543641	0.93[ASN][1000 genomes]
rs57604593	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59701679	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61594756	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6551256	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6762893	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6763484	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6784668	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6788077	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6802660	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72916057	0.97[AFR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72916059	0.98[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72916062	0.98[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72916064	0.98[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72916069	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72916081	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72916083	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72916086	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72916091	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72916092	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72916098	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72916100	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72916102	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72918103	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72918106	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72918107	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72918108	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72918113	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72918116	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72918121	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72918124	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72918169	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73844420	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73844421	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73844432	0.80[AFR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73844434	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73844442	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73844457	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7617401	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7627441	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7645797	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7649313	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs959081	0.80[AFR][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	nsv534036	chr3:86967129-87283600	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:86998800-87036000	Weak transcription	Psoas Muscle	Psoas
2	chr3:87007200-87038400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr3:87008000-87028800	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr3:87008000-87032000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr3:87008000-87034200	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr3:87012600-87032600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr3:87015000-87028400	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr3:87015400-87027200	Weak transcription	Hela-S3	cervix
9	chr3:87016200-87039000	Weak transcription	Fetal Stomach	stomach
10	chr3:87016800-87036800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr3:87017000-87029400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr3:87017600-87039000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:87018200-87026800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr3:87018200-87032600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr3:87018200-87033600	Weak transcription	A549	lung
16	chr3:87018400-87036400	Weak transcription	Fetal Intestine Large	intestine
17	chr3:87018600-87034200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr3:87019400-87036600	Weak transcription	Fetal Brain Male	brain
19	chr3:87020400-87027200	Genic enhancers	NHDF-Ad	bronchial
20	chr3:87022800-87028000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr3:87023600-87026800	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr3:87023800-87027000	Strong transcription	NH-A	brain
23	chr3:87024600-87027000	Strong transcription	Osteobl	bone
24	chr3:87024800-87027000	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr3:87024800-87028200	Genic enhancers	Placenta	Placenta
26	chr3:87025200-87027200	Strong transcription	Fetal Lung	lung
27	chr3:87025200-87027400	Strong transcription	Fetal Muscle Trunk	muscle
28	chr3:87025200-87027600	Genic enhancers	NHLF	lung
29	chr3:87025400-87027000	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr3:87025600-87028000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr3:87025800-87027800	Strong transcription	Cortex derived primary cultured neurospheres	brain
32	chr3:87026200-87026800	Strong transcription	Colon Smooth Muscle	Colon
33	chr3:87026200-87027200	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr3:87026400-87026800	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr3:87026400-87026800	Strong transcription	Aorta	Aorta
36	chr3:87026400-87026800	Strong transcription	Fetal Muscle Leg	muscle
37	chr3:87026400-87026800	Genic enhancers	Ovary	ovary
38	chr3:87026400-87027000	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr3:87026400-87027000	Genic enhancers	Muscle Satellite Cultured Cells	--
40	chr3:87026400-87027400	Genic enhancers	HSMMtube	muscle
41	chr3:87026400-87027600	Genic enhancers	HSMM	muscle
42	chr3:87026400-87028000	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr3:87026400-87028000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr3:87026400-87028000	Enhancers	Adipose Nuclei	Adipose
45	chr3:87026400-87028000	Enhancers	HMEC	breast
46	chr3:87026400-87028200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr3:87026600-87026800	Enhancers	Esophagus	oesophagus
48	chr3:87026600-87026800	Enhancers	Pancreas	Pancrea
49	chr3:87026600-87027400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr3:87026600-87027600	Weak transcription	Right Atrium	heart

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