Variant report

Variant	rs12110728
Chromosome Location	chr6:128460112-128460113
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:128458668..128461582-chr6:128461796..128463394,2	MCF-7	breast:

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

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];0.86[YRI][hapmap];0.89[AFR][1000 genomes];0.90[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];0.86[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	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12110357	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[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];0.85[YRI][hapmap];0.85[AFR][1000 genomes];0.90[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];0.81[YRI][hapmap];0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs4895830	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.84[AFR][1000 genomes];0.90[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	0.85[AFR][1000 genomes];0.90[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]
rs6935188	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]
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	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73586611	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73586613	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73588647	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73588649	0.84[AMR][1000 genomes]
rs73590658	0.89[ASN][1000 genomes]
rs7746783	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[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:13 , 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
12	nsv886652	chr6:128455539-128496557	Strong transcription Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv886653	chr6:128455539-128555805	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128440200-128469200	Weak transcription	HSMM	muscle
2	chr6:128446800-128460800	Weak transcription	HepG2	liver
3	chr6:128450200-128480800	Weak transcription	Primary B cells from cord blood	blood
4	chr6:128452600-128505200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr6:128452800-128464800	Weak transcription	Ovary	ovary
6	chr6:128453000-128462600	Weak transcription	Fetal Lung	lung
7	chr6:128453000-128471600	Weak transcription	NH-A	brain
8	chr6:128453800-128461000	Weak transcription	NHLF	lung
9	chr6:128456000-128461200	Weak transcription	Duodenum Mucosa	Duodenum
10	chr6:128456000-128465400	Weak transcription	Left Ventricle	heart
11	chr6:128456000-128468400	Weak transcription	Fetal Intestine Small	intestine
12	chr6:128456600-128460200	Weak transcription	A549	lung
13	chr6:128456600-128461000	Weak transcription	Osteobl	bone
14	chr6:128456600-128468200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr6:128456800-128460800	Weak transcription	NHEK	skin
16	chr6:128456800-128461000	Weak transcription	Fetal Intestine Large	intestine
17	chr6:128456800-128471000	Weak transcription	HSMMtube	muscle
18	chr6:128456800-128488800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr6:128457000-128461000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr6:128458200-128460600	Weak transcription	Stomach Mucosa	stomach
21	chr6:128458200-128460800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr6:128458200-128471800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr6:128459400-128461000	Enhancers	Brain Cingulate Gyrus	brain
24	chr6:128459600-128461400	Enhancers	Duodenum Smooth Muscle	Duodenum
25	chr6:128459800-128460200	Enhancers	Brain Inferior Temporal Lobe	brain
26	chr6:128459800-128460200	Enhancers	Brain Substantia Nigra	brain
27	chr6:128459800-128460400	Enhancers	Fetal Heart	heart
28	chr6:128459800-128461000	Enhancers	Brain Hippocampus Middle	brain
29	chr6:128460000-128460200	Enhancers	Brain Anterior Caudate	brain
30	chr6:128460000-128460200	Enhancers	Pancreatic Islets	Pancreatic Islet
31	chr6:128460000-128461000	Enhancers	Brain Angular Gyrus	brain
32	chr6:128460000-128461400	Enhancers	Small Intestine	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links