Variant report

Variant	rs1729558
Chromosome Location	chr6:131502899-131502900
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11154621	1.00[CHB][hapmap]
rs11154622	1.00[CHB][hapmap]
rs11755717	1.00[CHB][hapmap]
rs11758994	1.00[CHB][hapmap]
rs1190788	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1190794	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1190796	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1190799	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1190800	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1190801	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1190802	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs1190805	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1190806	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1190809	0.86[EUR][1000 genomes]
rs1190810	0.94[EUR][1000 genomes]
rs1190812	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs1209159	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13195700	1.00[CHB][hapmap]
rs13200165	1.00[CHB][hapmap]
rs13206776	1.00[CHB][hapmap]
rs1570348	1.00[CHB][hapmap]
rs1729549	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1746469	0.92[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs1746470	1.00[CHB][hapmap];0.88[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1746471	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1746473	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1746474	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17573187	1.00[CHB][hapmap]
rs17651753	1.00[CHB][hapmap]
rs17787964	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1885641	1.00[CHB][hapmap]
rs3777474	0.92[EUR][1000 genomes]
rs3777476	1.00[CHB][hapmap]
rs3777487	1.00[CHB][hapmap]
rs3903759	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs4310080	1.00[CHB][hapmap]
rs4424112	1.00[CHB][hapmap]
rs56318353	1.00[ASN][1000 genomes]
rs66533103	0.81[EUR][1000 genomes]
rs7743894	1.00[CHB][hapmap]
rs9492861	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs9492864	1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs9492865	1.00[CHB][hapmap]
rs9492869	1.00[CHB][hapmap]
rs9492874	0.83[ASN][1000 genomes]
rs9492883	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032955	chr6:131298803-131818502	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv538443	chr6:131298803-131818502	Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv830807	chr6:131390952-131581931	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv886664	chr6:131443843-131754930	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:131457200-131504400	Weak transcription	Spleen	Spleen
2	chr6:131457600-131505600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:131457600-131520800	Weak transcription	Right Ventricle	heart
4	chr6:131457800-131504200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr6:131457800-131504200	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr6:131458000-131505600	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr6:131458000-131505800	Weak transcription	Duodenum Mucosa	Duodenum
8	chr6:131458200-131505200	Weak transcription	Fetal Lung	lung
9	chr6:131458200-131513400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr6:131458400-131504200	Weak transcription	Dnd41	blood
11	chr6:131469200-131504200	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr6:131481200-131504400	Weak transcription	HSMM	muscle
13	chr6:131483000-131506200	Weak transcription	Primary monocytes fromperipheralblood	blood
14	chr6:131483600-131504200	Weak transcription	Pancreas	Pancrea
15	chr6:131484000-131504200	Weak transcription	Primary T cells from cord blood	blood
16	chr6:131484200-131504400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr6:131484400-131509200	Weak transcription	Rectal Smooth Muscle	rectum
18	chr6:131485000-131504200	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr6:131485200-131504200	Weak transcription	Primary B cells from peripheral blood	blood
20	chr6:131485400-131504400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr6:131485400-131509600	Weak transcription	Small Intestine	intestine
22	chr6:131485600-131504200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr6:131485600-131514000	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr6:131485800-131504200	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr6:131486000-131504200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr6:131486000-131505000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr6:131486000-131505600	Weak transcription	HepG2	liver
28	chr6:131486200-131504200	Weak transcription	Brain Cingulate Gyrus	brain
29	chr6:131486200-131504200	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr6:131486200-131505800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr6:131486400-131504600	Weak transcription	Fetal Intestine Small	intestine
32	chr6:131486400-131505000	Weak transcription	Placenta	Placenta
33	chr6:131487000-131504200	Weak transcription	Fetal Muscle Trunk	muscle
34	chr6:131487000-131505200	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr6:131487000-131512800	Weak transcription	Brain Hippocampus Middle	brain
36	chr6:131487600-131504200	Weak transcription	Primary B cells from cord blood	blood
37	chr6:131488200-131534800	Weak transcription	Gastric	stomach
38	chr6:131489000-131513000	Weak transcription	Colon Smooth Muscle	Colon
39	chr6:131490200-131503800	Weak transcription	Fetal Kidney	kidney
40	chr6:131490800-131504200	Weak transcription	Fetal Brain Male	brain
41	chr6:131491200-131508000	Weak transcription	Monocytes-CD14+_RO01746	blood
42	chr6:131493800-131504400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:131493800-131506600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr6:131494200-131505200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr6:131494800-131514000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr6:131495200-131504200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr6:131495200-131504200	Weak transcription	Brain Anterior Caudate	brain
48	chr6:131496200-131504200	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr6:131496600-131504400	Weak transcription	Right Atrium	heart
50	chr6:131496600-131507200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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