Variant report

Variant	rs6809436
Chromosome Location	chr3:101177848-101177849
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1078153	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs11924203	0.82[AMR][1000 genomes]
rs11929578	1.00[ASW][hapmap];1.00[CEU][hapmap];0.96[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12491044	0.88[EUR][1000 genomes]
rs12696325	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs1426386	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1464361	1.00[CEU][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1569071	1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[TSI][hapmap];0.89[EUR][1000 genomes]
rs2176887	0.84[EUR][1000 genomes]
rs2433032	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2449824	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2460721	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2553414	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2553420	0.89[CEU][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2553421	0.82[EUR][1000 genomes]
rs2553422	1.00[CEU][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2553423	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2553428	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2682387	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2682389	0.89[CEU][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3846092	0.89[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs41273611	0.82[AMR][1000 genomes]
rs4234491	0.89[EUR][1000 genomes]
rs4683930	1.00[CEU][hapmap];1.00[GIH][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes]
rs472751	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs485037	0.89[CEU][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs485793	0.89[CEU][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs503252	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs503669	0.89[CEU][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs504482	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs513283	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs524261	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs534119	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs535779	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.94[MKK][hapmap];0.93[TSI][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs551395	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs554030	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs556820	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.87[LWK][hapmap];0.94[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs565914	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs566292	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61379928	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs63482	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6768114	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs6768182	0.89[EUR][1000 genomes]
rs6779278	0.89[EUR][1000 genomes]
rs6779775	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6788864	1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[TSI][hapmap];0.89[EUR][1000 genomes]
rs6791803	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6805496	0.82[AMR][1000 genomes]
rs72942230	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72942264	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72948053	0.88[EUR][1000 genomes]
rs7613194	0.82[AMR][1000 genomes]
rs7618600	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[LWK][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7621062	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs7638284	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7644519	0.82[AMR][1000 genomes]
rs7648141	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs770968	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9917699	0.95[AMR][1000 genomes];1.00[EUR][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	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

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:101141000-101185600	Weak transcription	Right Ventricle	heart
2	chr3:101146000-101185600	Weak transcription	Rectal Smooth Muscle	rectum
3	chr3:101160200-101185600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr3:101160200-101210800	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr3:101160600-101183200	Weak transcription	Psoas Muscle	Psoas
6	chr3:101160600-101184000	Weak transcription	Spleen	Spleen
7	chr3:101160600-101185600	Weak transcription	Gastric	stomach
8	chr3:101161400-101183800	Weak transcription	Lung	lung
9	chr3:101161400-101185600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr3:101161400-101196800	Weak transcription	Thymus	Thymus
11	chr3:101161400-101207600	Weak transcription	Aorta	Aorta
12	chr3:101164400-101185400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr3:101164600-101179800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr3:101165200-101183200	Weak transcription	Fetal Brain Male	brain
15	chr3:101165400-101185400	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr3:101165600-101183200	Weak transcription	Brain Angular Gyrus	brain
17	chr3:101166000-101179400	Weak transcription	Brain Germinal Matrix	brain
18	chr3:101166600-101178400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr3:101167200-101184000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr3:101168000-101183000	Weak transcription	Fetal Intestine Small	intestine
21	chr3:101170600-101184000	Weak transcription	Esophagus	oesophagus
22	chr3:101170800-101185600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr3:101171000-101179800	Weak transcription	Placenta	Placenta
24	chr3:101171000-101185600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr3:101171200-101185200	Weak transcription	Fetal Heart	heart
26	chr3:101171200-101230400	Weak transcription	Brain Substantia Nigra	brain
27	chr3:101171400-101178800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:101171400-101183000	Weak transcription	Fetal Brain Female	brain
29	chr3:101171400-101193400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr3:101171400-101207800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr3:101173000-101180000	Weak transcription	Fetal Kidney	kidney
32	chr3:101173200-101183800	Weak transcription	K562	blood
33	chr3:101173400-101180200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr3:101173800-101179200	Weak transcription	Primary neutrophils fromperipheralblood	blood
35	chr3:101174000-101202000	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr3:101174600-101184000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
37	chr3:101174600-101184200	Weak transcription	HepG2	liver
38	chr3:101174600-101185000	Weak transcription	Brain Cingulate Gyrus	brain
39	chr3:101174600-101211000	Weak transcription	Duodenum Mucosa	Duodenum
40	chr3:101174800-101184200	Weak transcription	HUVEC	blood vessel
41	chr3:101175200-101178000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
42	chr3:101175400-101184200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr3:101175600-101178200	Strong transcription	Primary monocytes fromperipheralblood	blood
44	chr3:101176000-101211200	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr3:101176200-101178800	Strong transcription	Primary T helper cells fromperipheralblood	blood
46	chr3:101176400-101178000	Strong transcription	Primary B cells from peripheral blood	blood
47	chr3:101176600-101185400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr3:101176600-101185600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr3:101176600-101211600	Weak transcription	HSMM	muscle
50	chr3:101176800-101182800	Weak transcription	Fetal Stomach	stomach

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