Variant report

Variant	rs9854084
Chromosome Location	chr3:136194743-136194744
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 115 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs1070230	0.92[EUR][1000 genomes]
rs1070232	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes]
rs10935182	0.93[JPT][hapmap]
rs10935183	0.87[JPT][hapmap]
rs10935184	1.00[JPT][hapmap]
rs10935186	0.93[JPT][hapmap]
rs1145106	0.84[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.85[AMR][1000 genomes]
rs1153877	1.00[JPT][hapmap]
rs11715257	0.89[CHB][hapmap];0.93[JPT][hapmap];0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11717954	0.87[JPT][hapmap]
rs11919030	0.93[JPT][hapmap]
rs12330635	0.90[CHB][hapmap]
rs12489577	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12492510	0.87[JPT][hapmap]
rs12630999	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs12635723	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.88[EUR][1000 genomes]
rs12637102	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1279086	1.00[JPT][hapmap]
rs1279425	0.95[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap]
rs1279840	0.95[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs13433980	0.82[YRI][hapmap]
rs1394092	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1484250	0.83[YRI][hapmap]
rs16843991	0.80[YRI][hapmap]
rs1711161	0.91[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap]
rs1711170	0.86[JPT][hapmap]
rs1711171	0.95[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs1964675	0.88[AMR][1000 genomes]
rs2655008	0.90[CHB][hapmap];0.93[JPT][hapmap];0.83[YRI][hapmap];0.86[AMR][1000 genomes]
rs28478252	0.83[AMR][1000 genomes]
rs35375192	0.89[YRI][hapmap]
rs3856637	0.90[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs3932048	0.93[YRI][hapmap]
rs4521165	1.00[JPT][hapmap]
rs4678433	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4678437	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4678438	0.90[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap]
rs483465	0.95[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs518972	1.00[JPT][hapmap]
rs521746	0.87[JPT][hapmap]
rs553018	0.93[JPT][hapmap]
rs556788	1.00[JPT][hapmap]
rs571513	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs595532	0.93[JPT][hapmap]
rs61789645	0.80[ASN][1000 genomes]
rs61789646	0.80[ASN][1000 genomes]
rs61789652	0.95[ASN][1000 genomes]
rs619605	0.93[JPT][hapmap]
rs6439642	0.83[YRI][hapmap]
rs6439646	0.93[EUR][1000 genomes]
rs6439649	1.00[JPT][hapmap]
rs650326	1.00[JPT][hapmap]
rs654237	0.93[JPT][hapmap]
rs655720	0.88[AMR][1000 genomes]
rs655836	0.93[JPT][hapmap]
rs667920	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6782151	0.82[YRI][hapmap]
rs6789488	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6791142	0.93[JPT][hapmap]
rs6791611	0.87[JPT][hapmap]
rs6794351	0.95[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs6800969	0.81[YRI][hapmap]
rs6804194	0.89[YRI][hapmap]
rs6808312	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs695983	0.81[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs696081	1.00[JPT][hapmap]
rs696516	0.80[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap]
rs696518	0.93[JPT][hapmap]
rs696520	1.00[JPT][hapmap]
rs698270	1.00[CHB][hapmap];0.93[JPT][hapmap];0.80[AMR][1000 genomes]
rs699165	0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs711975	0.93[JPT][hapmap]
rs711976	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7432375	0.93[JPT][hapmap]
rs7612160	0.88[YRI][hapmap]
rs7618518	1.00[JPT][hapmap]
rs7620314	0.80[YRI][hapmap]
rs7621025	0.81[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs7644346	0.82[YRI][hapmap]
rs833752	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs834304	0.85[JPT][hapmap]
rs864437	0.87[JPT][hapmap]
rs866758	0.87[JPT][hapmap]
rs900048	0.90[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[AMR][1000 genomes]
rs9289511	1.00[CHB][hapmap]
rs940174	0.93[JPT][hapmap]
rs9757777	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9759024	0.94[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9812319	0.82[YRI][hapmap]
rs9820485	1.00[CHB][hapmap]
rs9821478	0.90[CHB][hapmap]
rs9831321	0.82[YRI][hapmap]
rs9832056	1.00[CHB][hapmap]
rs9832813	1.00[CHB][hapmap]
rs9835523	0.80[ASN][1000 genomes]
rs9845396	0.80[ASN][1000 genomes]
rs9845762	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap]
rs9845950	0.82[YRI][hapmap]
rs9848883	0.89[CHB][hapmap]
rs9849696	0.95[ASN][1000 genomes]
rs9851986	1.00[CHB][hapmap]
rs9856769	0.89[CHB][hapmap]
rs9868120	0.82[YRI][hapmap]
rs9869720	1.00[CHB][hapmap];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948461	chr3:135969755-136349636	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv877519	chr3:136035737-136279390	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv877520	chr3:136056861-136310985	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv877521	chr3:136069286-136310985	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv877522	chr3:136088038-136241028	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv877523	chr3:136088038-136310985	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv520012	chr3:136088038-136314119	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
8	nsv877524	chr3:136112109-136295283	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
9	nsv877525	chr3:136112109-136310985	Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
10	nsv877526	chr3:136149139-136310985	ZNF genes & repeats Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
11	nsv877527	chr3:136182053-136310985	Weak transcription Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136176400-136314200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr3:136176600-136195000	Weak transcription	Colon Smooth Muscle	Colon
3	chr3:136176600-136195000	Weak transcription	Spleen	Spleen
4	chr3:136176600-136196600	Weak transcription	HUVEC	blood vessel
5	chr3:136176600-136212000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr3:136176600-136222800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr3:136176600-136224200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr3:136176600-136224400	Weak transcription	Brain Hippocampus Middle	brain
9	chr3:136176600-136231800	Weak transcription	Psoas Muscle	Psoas
10	chr3:136176600-136240000	Weak transcription	HMEC	breast
11	chr3:136176600-136260800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr3:136176800-136194800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:136176800-136205800	Weak transcription	Small Intestine	intestine
14	chr3:136176800-136228000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr3:136176800-136266200	Weak transcription	Hela-S3	cervix
16	chr3:136177200-136236400	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr3:136177400-136198400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr3:136178000-136212000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr3:136178400-136208200	Weak transcription	Brain Cingulate Gyrus	brain
20	chr3:136178600-136220200	Weak transcription	Fetal Brain Male	brain
21	chr3:136179400-136204000	Weak transcription	Fetal Intestine Small	intestine
22	chr3:136179800-136212000	Weak transcription	Fetal Heart	heart
23	chr3:136181200-136205400	Weak transcription	Fetal Kidney	kidney
24	chr3:136181400-136211600	Weak transcription	A549	lung
25	chr3:136181800-136196000	Weak transcription	K562	blood
26	chr3:136182000-136204400	Weak transcription	Rectal Smooth Muscle	rectum
27	chr3:136183600-136195000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr3:136183800-136195000	Weak transcription	Aorta	Aorta
29	chr3:136183800-136212000	Weak transcription	Lung	lung
30	chr3:136185200-136194800	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr3:136189400-136196600	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr3:136189800-136195600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr3:136189800-136195800	Strong transcription	Liver	Liver
34	chr3:136189800-136196600	Strong transcription	Primary hematopoietic stem cells	blood
35	chr3:136189800-136196600	Strong transcription	Primary T helper cells fromperipheralblood	blood
36	chr3:136189800-136197200	Strong transcription	Dnd41	blood
37	chr3:136189800-136197600	Weak transcription	Brain Substantia Nigra	brain
38	chr3:136190200-136195600	Strong transcription	Adipose Nuclei	Adipose
39	chr3:136190400-136195400	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr3:136190400-136195800	Strong transcription	Fetal Thymus	thymus
41	chr3:136190400-136196600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
42	chr3:136190400-136196600	Strong transcription	Primary T cells from cord blood	blood
43	chr3:136190600-136196200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr3:136190800-136195200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
45	chr3:136190800-136196400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr3:136191000-136195600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr3:136191000-136196600	Weak transcription	Gastric	stomach
48	chr3:136191000-136220000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
49	chr3:136191200-136195400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr3:136191400-136195400	Strong transcription	Fetal Muscle Leg	muscle

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