Variant report

Variant	rs6797289
Chromosome Location	chr3:155597787-155597788
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10936021	0.86[AFR][1000 genomes]
rs11712694	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12634282	0.87[AFR][1000 genomes]
rs12636569	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12638792	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12638836	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1356252	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1711084	1.00[CHB][hapmap];0.97[CHD][hapmap];0.90[JPT][hapmap]
rs1878211	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2067877	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2320318	0.96[EUR][1000 genomes]
rs28438758	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2874232	0.84[AFR][1000 genomes]
rs3772112	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs401514	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.92[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs406701	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs445758	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4679757	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4679758	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];0.92[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4680222	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs519400	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60788059	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6441022	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6441023	1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[GIH][hapmap];0.90[MKK][hapmap];0.89[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6441024	0.86[AFR][1000 genomes]
rs6766927	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6775044	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6777776	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6806109	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs819844	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs819858	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];0.92[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs843931	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9820534	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9825321	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9846097	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9875112	0.84[EUR][1000 genomes]
rs9883153	0.83[AFR][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	nsv877680	chr3:155438022-155723064	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	esv2753744	chr3:155487298-155707298	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv877681	chr3:155535670-155654017	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155589600-155599600	Weak transcription	Spleen	Spleen
2	chr3:155589800-155607000	Weak transcription	Pancreas	Pancrea
3	chr3:155590000-155599400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:155590200-155599000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr3:155590200-155599400	Weak transcription	Right Ventricle	heart
6	chr3:155590200-155608400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr3:155590200-155643000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr3:155590200-155667400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr3:155590600-155597800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr3:155590800-155607200	Weak transcription	Brain Angular Gyrus	brain
11	chr3:155591000-155598000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr3:155591000-155598200	Weak transcription	Rectal Smooth Muscle	rectum
13	chr3:155591000-155599000	Weak transcription	Duodenum Mucosa	Duodenum
14	chr3:155591000-155599200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr3:155591000-155599400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr3:155591000-155599400	Weak transcription	Colon Smooth Muscle	Colon
17	chr3:155591000-155599800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:155591000-155607200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr3:155591000-155611200	Weak transcription	Fetal Muscle Leg	muscle
20	chr3:155591000-155611800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr3:155591200-155607800	Weak transcription	Fetal Intestine Small	intestine
22	chr3:155591200-155612600	Weak transcription	Primary B cells from cord blood	blood
23	chr3:155591400-155602200	Weak transcription	Fetal Lung	lung
24	chr3:155591400-155606600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr3:155591400-155611200	Weak transcription	Fetal Thymus	thymus
26	chr3:155591400-155616200	Weak transcription	NHEK	skin
27	chr3:155592000-155611800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr3:155592200-155607000	Weak transcription	NHDF-Ad	bronchial
29	chr3:155592200-155607200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr3:155592600-155599400	Weak transcription	A549	lung
31	chr3:155592600-155608400	Weak transcription	Hela-S3	cervix
32	chr3:155593200-155599400	Weak transcription	Ovary	ovary
33	chr3:155593200-155607000	Weak transcription	Aorta	Aorta
34	chr3:155593200-155607000	Weak transcription	Psoas Muscle	Psoas
35	chr3:155593400-155607000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr3:155593400-155607000	Weak transcription	Gastric	stomach
37	chr3:155594200-155599400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr3:155594200-155599400	Weak transcription	Right Atrium	heart
39	chr3:155594200-155622000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr3:155594400-155598000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr3:155594400-155598000	Weak transcription	Fetal Heart	heart
42	chr3:155594400-155599600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
43	chr3:155594400-155607200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr3:155594400-155607800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr3:155594600-155606600	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr3:155594800-155599600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr3:155595400-155598800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
48	chr3:155595400-155600000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
49	chr3:155596600-155598000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr3:155596600-155599400	Weak transcription	Primary T cells fromperipheralblood	blood

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