Variant report

Variant	rs6728877
Chromosome Location	chr2:190057477-190057478
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10165257	0.91[ASN][1000 genomes]
rs1016622	0.84[AFR][1000 genomes]
rs10166385	0.92[ASN][1000 genomes]
rs10167242	0.84[ASN][1000 genomes]
rs10172607	0.94[ASN][1000 genomes]
rs10173224	0.92[ASN][1000 genomes]
rs10184895	0.94[ASN][1000 genomes]
rs10755002	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10931401	0.92[ASN][1000 genomes]
rs10931403	0.90[ASN][1000 genomes]
rs10931405	0.88[ASN][1000 genomes]
rs10931411	0.82[ASN][1000 genomes]
rs11901914	0.92[ASN][1000 genomes]
rs12105389	0.81[AFR][1000 genomes]
rs12474942	0.96[ASN][1000 genomes]
rs12621657	0.84[ASN][1000 genomes]
rs12999125	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13005834	0.82[AFR][1000 genomes]
rs13006065	0.92[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs13015183	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13028226	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13031609	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs13408928	0.92[ASN][1000 genomes]
rs13411992	0.92[ASN][1000 genomes]
rs13413518	0.92[ASN][1000 genomes]
rs1356161	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1356165	0.85[AFR][1000 genomes]
rs1356166	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1399991	0.83[AFR][1000 genomes]
rs1464135	0.91[ASN][1000 genomes]
rs1474000	0.85[ASN][1000 genomes]
rs1515866	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1533618	0.94[ASN][1000 genomes]
rs1546617	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1913892	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1973666	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1983318	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2351631	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2351632	0.93[ASN][1000 genomes]
rs2351633	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2351635	0.84[ASN][1000 genomes]
rs4667266	0.81[AFR][1000 genomes]
rs4667268	0.85[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs4667270	0.92[ASN][1000 genomes]
rs4667271	0.94[ASN][1000 genomes]
rs4667275	0.84[ASN][1000 genomes]
rs6434334	0.87[ASN][1000 genomes]
rs6434337	0.83[ASN][1000 genomes]
rs6704568	0.86[ASN][1000 genomes]
rs6732534	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6737071	0.82[AFR][1000 genomes]
rs6752781	0.81[AFR][1000 genomes]
rs6761868	0.86[ASN][1000 genomes]
rs7574281	0.82[ASN][1000 genomes]
rs7599222	0.92[ASN][1000 genomes]
rs7603704	0.87[ASN][1000 genomes]
rs939158	0.84[ASN][1000 genomes]
rs939160	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv875613	chr2:189999011-190324685	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190046600-190057600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr2:190056800-190069400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr2:190057200-190058000	Enhancers	A549	lung
4	chr2:190057200-190068200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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