Variant report

Variant	rs6786612
Chromosome Location	chr3:111493083-111493084
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:111485439..111489234-chr3:111490972..111493959,3	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10212300	0.88[ASN][1000 genomes]
rs10470303	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10934106	1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs10934107	1.00[CHB][hapmap];0.91[JPT][hapmap];0.95[ASN][1000 genomes]
rs11710738	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11711533	0.88[CEU][hapmap]
rs11711582	0.92[CEU][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12330761	0.93[CEU][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12490166	1.00[CHB][hapmap];0.91[JPT][hapmap];0.98[ASN][1000 genomes]
rs12490595	0.94[ASN][1000 genomes]
rs12496925	0.94[ASN][1000 genomes]
rs12496971	0.94[ASN][1000 genomes]
rs12497012	0.85[ASN][1000 genomes]
rs13069980	0.93[ASN][1000 genomes]
rs13074817	0.95[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs13079085	1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs2137595	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs4284954	1.00[CHB][hapmap];0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs4413291	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs4431081	1.00[CHB][hapmap];0.91[JPT][hapmap];0.98[ASN][1000 genomes]
rs4682057	0.96[CHB][hapmap];0.91[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4682299	0.96[CEU][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4682303	0.93[CEU][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4682305	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4682312	0.93[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs4682314	0.92[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs56028731	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62273780	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62275532	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6438008	0.94[ASN][1000 genomes]
rs6438009	0.94[ASN][1000 genomes]
rs6764720	0.83[ASN][1000 genomes]
rs6768713	1.00[CHB][hapmap];0.91[JPT][hapmap];0.95[ASN][1000 genomes]
rs6777540	1.00[CHB][hapmap];0.91[JPT][hapmap];0.98[ASN][1000 genomes]
rs6784753	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6786292	0.87[AFR][1000 genomes]
rs6786386	1.00[CHB][hapmap];0.91[JPT][hapmap];0.98[ASN][1000 genomes]
rs6788543	0.92[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6790072	1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs6790079	0.98[ASN][1000 genomes]
rs6792493	0.82[ASN][1000 genomes]
rs6796087	0.92[CEU][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6802995	0.96[ASN][1000 genomes]
rs7427201	1.00[CHB][hapmap];0.91[JPT][hapmap];0.98[ASN][1000 genomes]
rs7609653	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7614443	0.98[ASN][1000 genomes]
rs955381	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs959540	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9818574	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9823974	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9825915	1.00[CHB][hapmap];0.90[JPT][hapmap];0.98[ASN][1000 genomes]
rs9834030	1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs9838371	0.98[ASN][1000 genomes]
rs9863403	0.98[ASN][1000 genomes]
rs9868171	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9868909	0.96[CEU][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9870656	0.92[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs9870823	0.93[ASN][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	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv829676	chr3:111464087-111619200	Genic enhancers Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111487800-111521000	Weak transcription	Gastric	stomach
2	chr3:111488000-111493400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:111488000-111501400	Weak transcription	Psoas Muscle	Psoas
4	chr3:111488400-111496800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:111489000-111495200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr3:111489400-111500600	Weak transcription	Fetal Lung	lung
7	chr3:111492400-111493200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:111492400-111494200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr3:111492600-111493400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr3:111492800-111493200	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr3:111493000-111493400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr3:111493000-111493600	Enhancers	Liver	Liver
13	chr3:111493000-111496000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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