Variant report

Variant	rs2420126
Chromosome Location	chr10:117611763-117611764
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10787603	0.95[CEU][hapmap];0.92[CHD][hapmap];0.90[GIH][hapmap];0.85[JPT][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10787607	0.86[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.92[JPT][hapmap];0.89[TSI][hapmap];0.93[ASN][1000 genomes]
rs10885800	0.82[CEU][hapmap]
rs10885811	0.82[JPT][hapmap]
rs10885812	0.82[CEU][hapmap];0.83[CHD][hapmap];0.81[GIH][hapmap];0.92[JPT][hapmap]
rs10885816	0.95[CEU][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10885818	0.84[EUR][1000 genomes]
rs10885821	0.86[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.92[JPT][hapmap];0.89[TSI][hapmap];0.93[ASN][1000 genomes]
rs10885822	0.93[ASN][1000 genomes]
rs11197430	0.82[CEU][hapmap]
rs11197453	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11197460	1.00[CEU][hapmap];0.86[CHB][hapmap];0.92[JPT][hapmap];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11197462	0.94[ASN][1000 genomes]
rs11197464	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11593928	0.86[CEU][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap];0.92[TSI][hapmap];0.82[EUR][1000 genomes]
rs12256848	0.93[ASN][1000 genomes]
rs12258630	1.00[CEU][hapmap];0.83[JPT][hapmap]
rs12411613	0.84[CEU][hapmap]
rs12413701	0.94[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1552066	0.86[CHB][hapmap];0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs2420115	0.91[CEU][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes]
rs2420121	0.95[CEU][hapmap];0.83[JPT][hapmap];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2420122	0.95[CEU][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2420125	1.00[CEU][hapmap];0.93[CHB][hapmap];0.92[CHD][hapmap];0.92[JPT][hapmap];0.94[MEX][hapmap];0.95[TSI][hapmap]
rs2907531	1.00[CEU][hapmap];0.86[CHB][hapmap];0.96[CHD][hapmap];0.90[GIH][hapmap];0.92[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2907551	1.00[CEU][hapmap];0.85[JPT][hapmap]
rs2907552	1.00[CEU][hapmap];0.85[JPT][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2907553	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2907554	1.00[CEU][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.85[JPT][hapmap];0.97[TSI][hapmap];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2907555	1.00[CEU][hapmap];0.93[CHB][hapmap];0.92[JPT][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2907556	1.00[CEU][hapmap];0.85[JPT][hapmap];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2907558	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2907559	1.00[CEU][hapmap];0.92[CHD][hapmap];0.90[GIH][hapmap];0.85[JPT][hapmap];0.97[TSI][hapmap];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2907561	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2907566	0.82[EUR][1000 genomes]
rs2907567	0.86[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.92[JPT][hapmap];0.89[TSI][hapmap];0.93[ASN][1000 genomes]
rs2907569	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2907570	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2907572	0.86[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.92[JPT][hapmap];0.89[TSI][hapmap];0.93[ASN][1000 genomes]
rs2907573	0.86[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.92[JPT][hapmap];0.89[TSI][hapmap];0.93[ASN][1000 genomes]
rs2907575	0.91[ASN][1000 genomes]
rs2907576	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2907577	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2907578	0.95[CEU][hapmap];0.92[CHD][hapmap];0.86[GIH][hapmap];0.85[JPT][hapmap];0.97[TSI][hapmap];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2907580	0.86[CEU][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes]
rs2907582	0.86[CEU][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes]
rs2907585	1.00[CEU][hapmap];0.86[CHB][hapmap];0.92[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2927373	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2960659	0.88[ASN][1000 genomes]
rs2960660	0.95[CEU][hapmap];0.93[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2960661	1.00[CEU][hapmap];0.85[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2960662	0.91[CEU][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2960664	0.95[CEU][hapmap];0.85[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2960665	0.95[CEU][hapmap];0.85[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2960666	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2960668	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2960670	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2960671	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2960672	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2960675	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2960676	1.00[CEU][hapmap];0.85[JPT][hapmap]
rs2960678	1.00[CEU][hapmap];0.85[JPT][hapmap];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2960679	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]
rs2960680	0.86[CEU][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap];0.89[TSI][hapmap]
rs2960729	0.95[CEU][hapmap];0.85[JPT][hapmap];0.86[EUR][1000 genomes]
rs4430419	0.86[CHB][hapmap];0.90[GIH][hapmap];0.92[JPT][hapmap];0.89[TSI][hapmap]
rs4447088	0.86[CEU][hapmap];0.92[CHD][hapmap];0.85[JPT][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6585366	0.95[CEU][hapmap];0.85[JPT][hapmap];0.86[EUR][1000 genomes]
rs7088912	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs723471	0.95[CEU][hapmap];0.93[CHB][hapmap];0.92[JPT][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs725556	1.00[CEU][hapmap];0.93[CHB][hapmap];0.92[CHD][hapmap];0.92[JPT][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs758579	0.86[CEU][hapmap];0.85[JPT][hapmap];0.89[TSI][hapmap]
rs875377	1.00[CEU][hapmap];0.92[CHD][hapmap];0.90[GIH][hapmap];0.85[JPT][hapmap];0.84[MEX][hapmap];0.97[TSI][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2420126	TFF2	trans	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:117605800-117612600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr10:117607600-117621400	Weak transcription	Aorta	Aorta
3	chr10:117609400-117614200	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr10:117610400-117613800	Weak transcription	Pancreas	Pancrea
5	chr10:117611200-117611800	Enhancers	Pancreatic Islets	Pancreatic Islet

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