Variant report

Variant	rs6935188
Chromosome Location	chr6:128452412-128452413
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10499137	0.82[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs10499138	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10872329	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11961776	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs11962214	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11962916	1.00[JPT][hapmap]
rs11965115	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11967302	0.80[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12110357	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12110728	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055270	0.82[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs17055274	0.82[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs17055283	0.92[EUR][1000 genomes]
rs17055285	0.92[EUR][1000 genomes]
rs17055287	1.00[CEU][hapmap]
rs17055300	0.82[ASN][1000 genomes]
rs17055360	0.82[ASN][1000 genomes]
rs17055365	0.82[ASN][1000 genomes]
rs17055391	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055403	0.82[ASN][1000 genomes]
rs17055412	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17055415	0.82[ASN][1000 genomes]
rs17055421	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17055445	1.00[JPT][hapmap]
rs3923033	1.00[ASN][1000 genomes]
rs4072328	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41439546	0.82[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs4364497	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs4440487	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4496822	1.00[JPT][hapmap]
rs4498385	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs4895830	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4897244	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4897245	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4897246	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4897247	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4897248	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4897249	0.82[ASN][1000 genomes]
rs4897250	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs59636446	0.92[EUR][1000 genomes]
rs6904354	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6909380	0.82[ASN][1000 genomes]
rs6909954	0.80[EUR][1000 genomes]
rs6913738	1.00[JPT][hapmap]
rs6918772	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6929394	0.82[ASN][1000 genomes]
rs6929623	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6938199	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7356979	0.82[EUR][1000 genomes]
rs73584655	0.92[EUR][1000 genomes]
rs73584673	0.92[EUR][1000 genomes]
rs73586607	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73586609	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73586611	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73586613	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73588647	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73590658	0.89[ASN][1000 genomes]
rs7746783	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7751187	1.00[JPT][hapmap]
rs7754321	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7768121	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7769070	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7772200	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9491913	1.00[CEU][hapmap];0.82[EUR][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	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv604643	chr6:128359362-128493991	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv604644	chr6:128394889-128486139	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv886649	chr6:128399657-128808054	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv886650	chr6:128403745-128513395	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv1031827	chr6:128418702-128497881	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv528869	chr6:128421762-128496557	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv604646	chr6:128421762-128531651	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv604647	chr6:128421762-128547177	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv886651	chr6:128450019-128565778	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128419800-128455600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:128425000-128452600	Weak transcription	Primary B cells from peripheral blood	blood
3	chr6:128434400-128455800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:128434400-128456800	Weak transcription	Fetal Stomach	stomach
5	chr6:128435600-128455600	Weak transcription	Left Ventricle	heart
6	chr6:128439600-128455600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:128439600-128456400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr6:128440200-128469200	Weak transcription	HSMM	muscle
9	chr6:128443000-128455600	Weak transcription	Small Intestine	intestine
10	chr6:128443200-128455200	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr6:128445800-128455800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr6:128446600-128455600	Weak transcription	Fetal Intestine Large	intestine
13	chr6:128446600-128455600	Weak transcription	Fetal Intestine Small	intestine
14	chr6:128446800-128460800	Weak transcription	HepG2	liver
15	chr6:128448000-128455800	Weak transcription	NHEK	skin
16	chr6:128450200-128480800	Weak transcription	Primary B cells from cord blood	blood
17	chr6:128451000-128453000	Enhancers	Colon Smooth Muscle	Colon
18	chr6:128451600-128452800	Active TSS	Brain Angular Gyrus	brain
19	chr6:128451600-128452800	Active TSS	Brain Cingulate Gyrus	brain
20	chr6:128451600-128452800	Active TSS	Brain Inferior Temporal Lobe	brain
21	chr6:128451600-128452800	Enhancers	Duodenum Smooth Muscle	Duodenum
22	chr6:128451600-128453000	Enhancers	Fetal Lung	lung
23	chr6:128451800-128453200	Enhancers	Stomach Mucosa	stomach
24	chr6:128452000-128452600	Enhancers	Breast Myoepithelial Primary Cells	Breast
25	chr6:128452000-128452800	Enhancers	Cortex derived primary cultured neurospheres	brain
26	chr6:128452000-128453000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr6:128452000-128453200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr6:128452000-128453200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr6:128452200-128452600	Enhancers	Right Ventricle	heart
30	chr6:128452200-128452800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:128452200-128452800	Enhancers	Rectal Smooth Muscle	rectum
32	chr6:128452200-128452800	Enhancers	Right Atrium	heart
33	chr6:128452200-128453000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr6:128452200-128453000	Enhancers	Hela-S3	cervix
35	chr6:128452200-128453000	Enhancers	NH-A	brain
36	chr6:128452200-128453000	Enhancers	Osteobl	bone
37	chr6:128452200-128453200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr6:128452200-128453400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr6:128452400-128452600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr6:128452400-128452600	Active TSS	Brain Hippocampus Middle	brain
41	chr6:128452400-128452600	Enhancers	HSMMtube	muscle
42	chr6:128452400-128452600	Enhancers	HUVEC	blood vessel
43	chr6:128452400-128452800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:128452400-128452800	Flanking Active TSS	Brain Anterior Caudate	brain
45	chr6:128452400-128452800	Flanking Active TSS	Brain Substantia Nigra	brain
46	chr6:128452400-128452800	Weak transcription	Pancreatic Islets	Pancreatic Islet
47	chr6:128452400-128452800	Enhancers	Ovary	ovary
48	chr6:128452400-128453000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr6:128452400-128453000	Enhancers	Muscle Satellite Cultured Cells	--
50	chr6:128452400-128453000	Enhancers	Fetal Heart	heart

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