Variant report

Variant	rs3087889
Chromosome Location	chr5:127524944-127524945
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10057122	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10059867	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10060181	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10060390	1.00[CEU][hapmap];0.91[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10061367	1.00[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10064357	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10089	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10223203	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10223313	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1036171	0.80[AMR][1000 genomes]
rs10463838	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10463839	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10478796	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10478798	1.00[CEU][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes]
rs10478803	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11957052	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13355233	1.00[CEU][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13356473	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13357268	1.00[CEU][hapmap];0.91[JPT][hapmap];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1432614	0.95[CEU][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes]
rs1432615	0.95[CEU][hapmap];0.91[JPT][hapmap];0.80[AMR][1000 genomes]
rs1559263	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1560636	1.00[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17164310	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17164427	0.95[CEU][hapmap];0.91[JPT][hapmap]
rs17764954	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1842006	1.00[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1864922	1.00[CEU][hapmap];0.84[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1864923	1.00[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1962291	1.00[CEU][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2016015	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2054444	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2228112	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2409109	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2898096	1.00[CEU][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes]
rs3792866	1.00[CEU][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3805606	1.00[CEU][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3805607	1.00[CEU][hapmap];0.84[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3805612	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3805615	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3805616	0.83[JPT][hapmap]
rs3816006	1.00[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4835940	0.80[AMR][1000 genomes]
rs4835941	1.00[CEU][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4835943	1.00[CEU][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4835944	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4835945	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4836360	1.00[CEU][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4836361	1.00[CEU][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4836363	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4836366	1.00[CEU][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4836367	1.00[CEU][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4836368	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4836369	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4836370	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56066100	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59484271	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6595800	0.80[AMR][1000 genomes]
rs6595806	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6595807	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6862701	0.95[CEU][hapmap];0.87[JPT][hapmap];0.80[AMR][1000 genomes]
rs6873339	0.95[CEU][hapmap];0.95[JPT][hapmap]
rs6875982	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6887674	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6887847	1.00[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72794392	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72794396	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72794400	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72794401	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs736969	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7703634	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7713860	1.00[CEU][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes]
rs7718286	1.00[CEU][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs883074	0.90[CEU][hapmap];0.86[JPT][hapmap]
rs891886	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9968597	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[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	nsv830482	chr5:127475398-127665377	Strong transcription Genic enhancers Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 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	chr5:127441200-127536800	Weak transcription	Colonic Mucosa	Colon
2	chr5:127442400-127525000	Weak transcription	Right Ventricle	heart
3	chr5:127447000-127525000	Weak transcription	Fetal Brain Male	brain
4	chr5:127453600-127525400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr5:127457600-127534400	Weak transcription	Pancreas	Pancrea
6	chr5:127460800-127525200	Weak transcription	Spleen	Spleen
7	chr5:127463200-127533000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr5:127465400-127532200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr5:127467600-127525000	Weak transcription	Thymus	Thymus
10	chr5:127468000-127536800	Weak transcription	Fetal Brain Female	brain
11	chr5:127478600-127531600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr5:127479200-127532200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr5:127480600-127532400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr5:127480600-127534400	Weak transcription	Gastric	stomach
15	chr5:127485000-127536800	Weak transcription	Colon Smooth Muscle	Colon
16	chr5:127488600-127533200	Weak transcription	Stomach Mucosa	stomach
17	chr5:127490400-127532800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr5:127490800-127529200	Weak transcription	Aorta	Aorta
19	chr5:127490800-127536600	Weak transcription	Brain Cingulate Gyrus	brain
20	chr5:127492200-127527200	Weak transcription	NHDF-Ad	bronchial
21	chr5:127493200-127529200	Weak transcription	Psoas Muscle	Psoas
22	chr5:127494400-127526800	Weak transcription	Fetal Lung	lung
23	chr5:127494400-127534800	Weak transcription	Liver	Liver
24	chr5:127494400-127536800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr5:127494600-127534400	Weak transcription	HUVEC	blood vessel
26	chr5:127496600-127525800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr5:127498400-127532200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr5:127499000-127532400	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr5:127499000-127533400	Weak transcription	GM12878-XiMat	blood
30	chr5:127499200-127534600	Weak transcription	Lung	lung
31	chr5:127499400-127528400	Weak transcription	Fetal Intestine Small	intestine
32	chr5:127500400-127532400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr5:127500400-127536800	Weak transcription	NHEK	skin
34	chr5:127504600-127536800	Weak transcription	Rectal Smooth Muscle	rectum
35	chr5:127508400-127533200	Weak transcription	A549	lung
36	chr5:127510000-127532600	Weak transcription	Fetal Heart	heart
37	chr5:127511000-127532400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr5:127511400-127535000	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr5:127513000-127529200	Strong transcription	Duodenum Mucosa	Duodenum
40	chr5:127514000-127529200	Weak transcription	HSMMtube	muscle
41	chr5:127514400-127533000	Weak transcription	NHLF	lung
42	chr5:127515400-127528600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr5:127515600-127529400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr5:127515600-127533200	Weak transcription	Fetal Muscle Leg	muscle
45	chr5:127516400-127528200	Weak transcription	Fetal Stomach	stomach
46	chr5:127516400-127536800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr5:127516600-127534600	Weak transcription	HMEC	breast
48	chr5:127516800-127534400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr5:127517200-127526800	Weak transcription	Primary monocytes fromperipheralblood	blood
50	chr5:127517400-127532200	Weak transcription	K562	blood

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