Variant report

Variant	rs2960679
Chromosome Location	chr10:117605972-117605973
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10787603	0.95[CEU][hapmap];0.92[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10787607	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.90[ASN][1000 genomes]
rs10885800	0.82[CEU][hapmap];0.83[JPT][hapmap]
rs10885811	0.90[JPT][hapmap];0.81[AMR][1000 genomes]
rs10885812	0.82[CEU][hapmap];0.87[CHD][hapmap];0.83[JPT][hapmap]
rs10885816	0.95[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10885818	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10885821	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.90[ASN][1000 genomes]
rs10885822	0.90[ASN][1000 genomes]
rs11197430	0.82[CEU][hapmap]
rs11197439	0.84[JPT][hapmap]
rs11197453	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11197460	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11197462	0.91[ASN][1000 genomes]
rs11197464	0.81[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap]
rs11593928	0.86[CEU][hapmap];0.95[CHD][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12256848	0.90[ASN][1000 genomes]
rs12258630	1.00[CEU][hapmap];0.92[CHB][hapmap];0.90[JPT][hapmap]
rs12411613	0.84[CEU][hapmap]
rs12413701	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1552066	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs2420115	0.91[CEU][hapmap];0.85[CHB][hapmap];0.92[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2420121	0.95[CEU][hapmap];0.92[CHB][hapmap];0.90[JPT][hapmap];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2420122	0.95[CEU][hapmap];0.92[CHB][hapmap];0.91[JPT][hapmap];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2420125	1.00[CEU][hapmap];0.95[CHD][hapmap];0.91[JPT][hapmap];0.84[MEX][hapmap];0.95[TSI][hapmap]
rs2420126	1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.92[JPT][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2907531	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2907551	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap]
rs2907552	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2907553	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2907554	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2907555	1.00[CEU][hapmap];0.83[JPT][hapmap];0.96[EUR][1000 genomes]
rs2907556	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2907558	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2907559	1.00[CEU][hapmap];0.92[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2907561	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2907566	0.84[EUR][1000 genomes]
rs2907567	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.90[ASN][1000 genomes]
rs2907569	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2907570	0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2907572	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.90[ASN][1000 genomes]
rs2907573	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.90[ASN][1000 genomes]
rs2907575	0.88[ASN][1000 genomes]
rs2907576	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2907577	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2907578	0.95[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2907580	0.86[CEU][hapmap];0.85[CHB][hapmap];0.92[JPT][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2907582	0.86[CEU][hapmap];0.85[CHB][hapmap];0.92[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2907585	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2927373	0.86[CHB][hapmap];0.92[JPT][hapmap]
rs2960660	0.95[CEU][hapmap];0.91[CHD][hapmap];0.90[GIH][hapmap];0.83[JPT][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2960661	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2960662	0.91[CEU][hapmap];0.91[CHD][hapmap];0.90[GIH][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2960664	0.95[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2960665	0.95[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2960666	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2960668	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2960670	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2960671	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2960672	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2960675	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2960676	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap]
rs2960678	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2960680	0.86[CEU][hapmap];0.87[CHD][hapmap];0.92[JPT][hapmap];0.89[MEX][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes]
rs2960681	0.82[EUR][1000 genomes]
rs2960729	0.95[CEU][hapmap];0.85[CHB][hapmap];0.92[JPT][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4430419	1.00[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap]
rs4447088	0.86[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6585366	0.95[CEU][hapmap];0.85[CHB][hapmap];0.92[JPT][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7088912	0.85[EUR][1000 genomes]
rs723471	0.95[CEU][hapmap];0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs725556	1.00[CEU][hapmap];0.95[CHD][hapmap];0.83[JPT][hapmap];0.95[TSI][hapmap];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7478359	0.81[AMR][1000 genomes]
rs758579	0.86[CEU][hapmap];0.91[CHD][hapmap];0.92[JPT][hapmap];0.89[MEX][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes]
rs875377	1.00[CEU][hapmap];0.92[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.89[MEX][hapmap];0.97[TSI][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2960679	TFF2	trans	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:117603800-117606400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr10:117604400-117606000	Weak transcription	Fetal Heart	heart
3	chr10:117605200-117608800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr10:117605800-117612600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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