Variant report

Variant	rs12029611
Chromosome Location	chr1:169732561-169732562
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10489171	0.93[CHB][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs10919223	0.93[AMR][1000 genomes]
rs10919229	0.93[CHB][hapmap]
rs12024211	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12024321	0.81[ASN][1000 genomes]
rs12025244	0.93[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12025442	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12025581	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12025648	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12028435	0.82[ASN][1000 genomes]
rs12029669	0.80[JPT][hapmap];0.93[AMR][1000 genomes]
rs12031046	0.93[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs12037112	0.93[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12038016	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12038307	0.85[ASN][1000 genomes]
rs12042023	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12042277	0.87[ASN][1000 genomes]
rs12043338	1.00[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12044932	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12046689	1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs12047464	0.93[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs12047936	0.93[CHB][hapmap];0.95[JPT][hapmap]
rs12239757	0.93[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs16828193	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.99[ASN][1000 genomes]
rs16862668	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16862714	0.93[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs2179172	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2272913	0.93[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs2272914	0.81[ASN][1000 genomes]
rs28477509	0.85[ASN][1000 genomes]
rs35296671	0.84[ASN][1000 genomes]
rs35372000	0.81[ASN][1000 genomes]
rs3766133	0.87[ASN][1000 genomes]
rs3766136	0.93[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs3766149	0.93[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs3766153	1.00[ASW][hapmap];0.93[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap]
rs3790404	1.00[GIH][hapmap]
rs3917443	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57868479	0.83[ASN][1000 genomes]
rs58583023	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58910844	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72637234	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72637235	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72637237	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs72637238	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72637239	0.85[ASN][1000 genomes]
rs72637240	0.85[ASN][1000 genomes]
rs72637241	0.85[ASN][1000 genomes]
rs72637242	0.85[ASN][1000 genomes]
rs72637243	0.81[ASN][1000 genomes]
rs72637244	0.81[ASN][1000 genomes]
rs7674	0.90[GIH][hapmap]
rs9287096	0.83[ASN][1000 genomes]
rs9659149	1.00[ASW][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3451367	chr1:169630075-169976964	Strong transcription Flanking Active TSS Genic enhancers Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169728000-169732800	Weak transcription	Adipose Nuclei	Adipose
2	chr1:169730800-169732600	Enhancers	Sigmoid Colon	Sigmoid Colon
3	chr1:169731200-169733200	Enhancers	Rectal Mucosa Donor 31	rectum
4	chr1:169731600-169732800	Enhancers	Rectal Mucosa Donor 29	rectum
5	chr1:169731800-169732600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr1:169732200-169732800	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr1:169732200-169732800	Bivalent Enhancer	Small Intestine	intestine
8	chr1:169732200-169733000	Enhancers	Fetal Intestine Large	intestine

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