Variant report

Variant	rs12498008
Chromosome Location	chr3:160740016-160740017
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160739507..160741947-chr3:160747617..160749551,2	MCF-7	breast:
2	chr3:160739787..160741430-chr3:160758858..160761533,2	MCF-7	breast:

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10513558	1.00[CEU][hapmap];0.80[JPT][hapmap]
rs10513560	0.82[CHB][hapmap];0.93[JPT][hapmap]
rs11709802	1.00[CEU][hapmap];0.86[JPT][hapmap];0.92[YRI][hapmap];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12494673	0.80[JPT][hapmap]
rs12496196	0.92[CEU][hapmap];0.87[CHB][hapmap];0.87[JPT][hapmap];0.86[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13079358	0.90[CEU][hapmap]
rs13325518	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1348977	1.00[CEU][hapmap]
rs1374786	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1447608	0.80[JPT][hapmap]
rs1447617	1.00[CEU][hapmap]
rs1447624	0.80[JPT][hapmap]
rs1530635	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1530636	0.82[CHB][hapmap];0.93[JPT][hapmap]
rs1562465	0.83[CHB][hapmap];0.94[JPT][hapmap]
rs1562466	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1599382	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16831756	1.00[ASN][1000 genomes]
rs16831757	0.98[ASN][1000 genomes]
rs16831758	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];0.96[ASN][1000 genomes]
rs1868104	1.00[CEU][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes]
rs1903422	1.00[ASN][1000 genomes]
rs1971240	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2028988	1.00[CEU][hapmap];0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2061580	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4608736	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4679667	1.00[CEU][hapmap];0.80[JPT][hapmap];0.84[YRI][hapmap]
rs4679927	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56990390	0.83[ASN][1000 genomes]
rs57009978	0.96[ASN][1000 genomes]
rs58189630	0.91[ASN][1000 genomes]
rs59483687	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs60875417	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62282273	1.00[ASN][1000 genomes]
rs6441334	1.00[CEU][hapmap]
rs6441336	1.00[CEU][hapmap]
rs6441344	1.00[CEU][hapmap]
rs6441345	0.82[CHB][hapmap];0.93[JPT][hapmap]
rs6763532	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs6770488	0.80[JPT][hapmap]
rs6774203	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs6785844	1.00[CEU][hapmap]
rs6787694	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6789195	1.00[CEU][hapmap]
rs6797498	0.87[JPT][hapmap];0.82[EUR][1000 genomes]
rs6798966	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6799391	1.00[CEU][hapmap]
rs73158252	0.83[ASN][1000 genomes]
rs73158255	1.00[ASN][1000 genomes]
rs73158257	0.83[ASN][1000 genomes]
rs7610732	1.00[CEU][hapmap];0.87[JPT][hapmap];0.92[YRI][hapmap];0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7617759	0.91[CEU][hapmap];0.91[YRI][hapmap]
rs7619552	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7629001	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7653744	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs778644	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs778647	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs778650	0.84[CEU][hapmap];0.87[CHB][hapmap];0.87[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs778651	1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs778652	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs778655	0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs778656	0.90[ASN][1000 genomes]
rs778658	0.88[ASN][1000 genomes]
rs778661	0.88[ASN][1000 genomes]
rs778662	0.90[ASN][1000 genomes]
rs796610	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs814092	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs878954	0.80[EUR][1000 genomes]
rs898676	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs898678	0.98[ASN][1000 genomes]
rs898679	0.95[ASN][1000 genomes]
rs9814174	1.00[CEU][hapmap]
rs9818081	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9850546	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9879296	1.00[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	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160732800-160745000	Weak transcription	Psoas Muscle	Psoas
2	chr3:160733600-160746000	Weak transcription	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links