Variant report

Variant	rs34165586
Chromosome Location	chr3:136172419-136172420
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs12330800	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16843991	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28396702	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs28889583	0.82[EUR][1000 genomes]
rs34523567	0.84[EUR][1000 genomes]
rs34962604	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35058853	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35375192	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35644083	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3932048	0.83[AMR][1000 genomes]
rs5026242	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs55797013	0.80[EUR][1000 genomes]
rs56040643	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56251259	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6439638	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6439642	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6766450	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6769934	0.82[EUR][1000 genomes]
rs6776841	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6783337	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6789761	0.84[EUR][1000 genomes]
rs6799368	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6804194	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7612160	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7615706	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7621017	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7622833	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7648591	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9809184	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9811261	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9811490	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9812319	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9812513	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9819496	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9831321	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9833162	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9850383	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9853387	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9858457	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9860801	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9866535	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9868120	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 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

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136079400-136174200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
2	chr3:136085800-136174800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:136086200-136174800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr3:136110800-136174200	Weak transcription	Esophagus	oesophagus
5	chr3:136112200-136174200	Weak transcription	Osteobl	bone
6	chr3:136113000-136174200	Weak transcription	Aorta	Aorta
7	chr3:136115400-136174200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr3:136116200-136173400	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr3:136116600-136174400	Weak transcription	Hela-S3	cervix
10	chr3:136124600-136174000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr3:136129800-136174200	Weak transcription	HSMMtube	muscle
12	chr3:136131400-136175400	Weak transcription	HMEC	breast
13	chr3:136133200-136173800	Weak transcription	Fetal Heart	heart
14	chr3:136133600-136173400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr3:136135200-136173400	Weak transcription	NHEK	skin
16	chr3:136138200-136173600	Weak transcription	Brain Angular Gyrus	brain
17	chr3:136138800-136174200	Weak transcription	Brain Anterior Caudate	brain
18	chr3:136139800-136175400	Weak transcription	Small Intestine	intestine
19	chr3:136139800-136175800	Weak transcription	Right Ventricle	heart
20	chr3:136140000-136174200	Weak transcription	Pancreas	Pancrea
21	chr3:136140000-136175800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr3:136143200-136174000	Weak transcription	GM12878-XiMat	blood
23	chr3:136148000-136174400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr3:136158800-136174400	Weak transcription	NHDF-Ad	bronchial
25	chr3:136160600-136174000	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr3:136160600-136174200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr3:136161000-136172800	Weak transcription	Fetal Brain Female	brain
28	chr3:136161000-136173200	Weak transcription	Brain Germinal Matrix	brain
29	chr3:136161000-136174000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr3:136161000-136176000	Weak transcription	NHLF	lung
31	chr3:136161200-136173600	Weak transcription	Fetal Kidney	kidney
32	chr3:136161200-136174200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr3:136161200-136175000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
34	chr3:136161400-136172800	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr3:136161400-136173400	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr3:136161600-136174600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr3:136161800-136173000	Weak transcription	Fetal Muscle Trunk	muscle
38	chr3:136161800-136173200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr3:136161800-136174200	Weak transcription	Stomach Smooth Muscle	stomach
40	chr3:136161800-136174200	Weak transcription	Spleen	Spleen
41	chr3:136161800-136174400	Weak transcription	Gastric	stomach
42	chr3:136161800-136176000	Weak transcription	Rectal Smooth Muscle	rectum
43	chr3:136162000-136174200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr3:136162000-136174200	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr3:136162200-136173600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr3:136162200-136174000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr3:136162400-136174000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr3:136163000-136173400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr3:136166200-136173200	Weak transcription	Thymus	Thymus
50	chr3:136166200-136173800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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