Variant report

Variant	rs62280665
Chromosome Location	chr3:101084053-101084054
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10451923	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10511189	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1520654	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16843627	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16843634	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16843699	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16843817	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2271972	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35902489	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3732893	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3773915	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3773917	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3773918	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4260407	0.93[EUR][1000 genomes]
rs4553955	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62280636	0.84[EUR][1000 genomes]
rs62280637	0.87[EUR][1000 genomes]
rs62280663	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62280664	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62280669	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62280670	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62280671	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62280673	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62280674	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62280675	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62280719	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62280720	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62280721	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62280722	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62280725	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62280726	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62280728	0.94[EUR][1000 genomes]
rs62280731	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62280733	0.94[EUR][1000 genomes]
rs62280735	0.94[EUR][1000 genomes]
rs62280737	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62280745	0.94[EUR][1000 genomes]
rs62280747	0.93[EUR][1000 genomes]
rs62282871	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62282873	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62282875	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62282885	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62282886	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62282887	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62282888	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62282889	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62282890	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62282892	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6441595	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6796058	0.81[EUR][1000 genomes]
rs6798685	0.81[EUR][1000 genomes]
rs72487765	0.81[EUR][1000 genomes]
rs72932462	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7611378	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7621506	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7622461	0.94[EUR][1000 genomes]
rs7632064	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7634592	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9790303	0.94[EUR][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	nsv931417	chr3:100547347-101183844	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	esv3439278	chr3:100936513-101162102	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1003475	chr3:101005238-101120030	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:101030800-101096400	Weak transcription	Rectal Smooth Muscle	rectum
2	chr3:101038600-101101800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr3:101038800-101089800	Weak transcription	Pancreas	Pancrea
4	chr3:101039800-101106600	Weak transcription	Thymus	Thymus
5	chr3:101040600-101086800	Weak transcription	Brain Cingulate Gyrus	brain
6	chr3:101040800-101090000	Weak transcription	Brain Angular Gyrus	brain
7	chr3:101042800-101089600	Weak transcription	NH-A	brain
8	chr3:101043200-101105000	Weak transcription	Brain Anterior Caudate	brain
9	chr3:101043800-101096600	Weak transcription	Brain Substantia Nigra	brain
10	chr3:101044400-101103000	Weak transcription	Gastric	stomach
11	chr3:101045800-101110800	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr3:101046400-101089000	Weak transcription	Fetal Brain Male	brain
13	chr3:101047400-101096000	Weak transcription	Psoas Muscle	Psoas
14	chr3:101048400-101084400	Weak transcription	HSMM	muscle
15	chr3:101048600-101088000	Weak transcription	HUVEC	blood vessel
16	chr3:101049200-101096000	Weak transcription	Ovary	ovary
17	chr3:101049200-101102200	Weak transcription	Right Ventricle	heart
18	chr3:101054600-101085000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr3:101056200-101084600	Weak transcription	Fetal Heart	heart
20	chr3:101066000-101089800	Weak transcription	Brain Germinal Matrix	brain
21	chr3:101066000-101094000	Weak transcription	Fetal Intestine Large	intestine
22	chr3:101066200-101089000	Weak transcription	Fetal Lung	lung
23	chr3:101066200-101095400	Weak transcription	Fetal Kidney	kidney
24	chr3:101066200-101096000	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr3:101066400-101085000	Weak transcription	Placenta	Placenta
26	chr3:101069000-101089800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr3:101073200-101091000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr3:101074600-101092200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr3:101075000-101084600	Weak transcription	Fetal Brain Female	brain
30	chr3:101075000-101085600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr3:101076000-101085600	Strong transcription	Primary T helper cells fromperipheralblood	blood
32	chr3:101076000-101088000	Weak transcription	NHLF	lung
33	chr3:101076200-101102000	Weak transcription	Lung	lung
34	chr3:101076200-101105600	Weak transcription	Esophagus	oesophagus
35	chr3:101076600-101091400	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr3:101076600-101096400	Weak transcription	Brain Hippocampus Middle	brain
37	chr3:101076800-101092800	Weak transcription	Fetal Muscle Leg	muscle
38	chr3:101076800-101093400	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr3:101077000-101086800	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr3:101077000-101095800	Weak transcription	Colon Smooth Muscle	Colon
41	chr3:101077000-101096000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr3:101077000-101102200	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr3:101077200-101089000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr3:101077800-101085800	Strong transcription	Monocytes-CD14+_RO01746	blood
45	chr3:101077800-101086600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr3:101077800-101086800	Strong transcription	Primary monocytes fromperipheralblood	blood
47	chr3:101077800-101094400	Weak transcription	Fetal Intestine Small	intestine
48	chr3:101077800-101096000	Weak transcription	Small Intestine	intestine
49	chr3:101077800-101101000	Weak transcription	NHDF-Ad	bronchial
50	chr3:101077800-101102000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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