Variant report

Variant	rs6785030
Chromosome Location	chr3:60873983-60873984
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10048949	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10510855	1.00[CEU][hapmap];0.87[GIH][hapmap];0.95[TSI][hapmap]
rs13067776	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13071895	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap]
rs13075102	0.82[CEU][hapmap];0.83[TSI][hapmap];0.83[EUR][1000 genomes]
rs13078972	1.00[CEU][hapmap]
rs1447913	0.99[EUR][1000 genomes]
rs1447914	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1947159	1.00[CEU][hapmap]
rs1947160	0.94[CEU][hapmap]
rs2100152	0.83[CEU][hapmap]
rs2223084	0.82[CEU][hapmap];0.94[TSI][hapmap]
rs2250114	0.83[CEU][hapmap]
rs2594132	0.84[CEU][hapmap]
rs2736748	0.82[CEU][hapmap]
rs2736750	0.83[CEU][hapmap]
rs2736751	0.83[CEU][hapmap];0.92[TSI][hapmap]
rs2736752	0.83[CEU][hapmap];0.86[TSI][hapmap]
rs34412028	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34686536	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34700535	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35744933	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4974235	1.00[CEU][hapmap];0.87[GIH][hapmap];0.95[TSI][hapmap]
rs67192280	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs67231683	0.86[EUR][1000 genomes]
rs6765028	0.82[TSI][hapmap]
rs6766713	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap]
rs6769544	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6772360	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6772719	0.84[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6772800	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6780515	1.00[CEU][hapmap];0.90[LWK][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6783370	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs6785032	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6785095	0.94[CEU][hapmap];0.93[GIH][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs6785140	1.00[CEU][hapmap];0.93[GIH][hapmap];0.97[TSI][hapmap]
rs6787793	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6787911	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6788110	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6791272	0.94[CEU][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6793095	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs6793385	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6793580	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6795855	1.00[CEU][hapmap];0.93[GIH][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap]
rs6796455	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6803394	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6804167	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73097803	0.93[EUR][1000 genomes]
rs7613542	0.93[CEU][hapmap];0.87[GIH][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap]
rs7622729	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7627303	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7636351	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7638932	0.82[CEU][hapmap]
rs7643970	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7644380	1.00[CEU][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7646851	0.82[CEU][hapmap];0.86[MEX][hapmap];0.86[TSI][hapmap];0.84[EUR][1000 genomes]
rs7649286	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9754605	1.00[CEU][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9755687	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9758127	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9827591	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9834435	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9849318	1.00[CEU][hapmap];0.93[GIH][hapmap];0.80[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9849474	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9849492	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9869424	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9870639	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9870642	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9870929	0.95[AMR][1000 genomes];0.98[EUR][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	nsv534038	chr3:60781917-60993082	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	esv2757872	chr3:60781943-61019003	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	esv2759152	chr3:60781943-61220809	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6785030	DNAH12	cis	parietal	SCAN
rs6785030	ACOX2	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:60871400-60876000	Weak transcription	Pancreas	Pancrea
2	chr3:60872600-60879600	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr3:60872800-60876000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr3:60873600-60874000	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr3:60873600-60874000	Enhancers	H1 Cell Line	embryonic stem cell
6	chr3:60873800-60874000	Enhancers	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links