Variant report

Variant	rs5943019
Chromosome Location	chrX:109879017-109879018
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10047014	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10126502	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs10521528	1.00[MEX][hapmap];0.88[TSI][hapmap]
rs12006849	1.00[CHB][hapmap];0.93[MEX][hapmap];0.85[TSI][hapmap]
rs12012172	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs12395955	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap]
rs12396834	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12857107	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs191800	1.00[CHB][hapmap]
rs197023	1.00[CHB][hapmap]
rs197036	1.00[CHB][hapmap]
rs2016878	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs2073785	0.85[CEU][hapmap];1.00[CHB][hapmap];0.93[MEX][hapmap];0.85[TSI][hapmap]
rs2073787	1.00[CHB][hapmap]
rs2206971	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2223782	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs2404177	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[YRI][hapmap]
rs5942660	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs5942661	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5942674	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap]
rs5942675	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs5942676	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs5942677	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs5942678	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs5942680	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs5942681	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap]
rs5942931	0.85[CEU][hapmap];1.00[CHB][hapmap];0.93[MEX][hapmap];0.85[TSI][hapmap]
rs5942953	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap]
rs5942955	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5943044	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap]
rs5943045	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs5943046	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs5943047	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs5943048	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs5943050	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs5943051	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs5943052	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs5943053	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs5943055	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs5943056	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs5943057	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs5985302	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs5985519	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5985544	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs5985545	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs5985546	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.92[MEX][hapmap];0.94[TSI][hapmap]
rs6655082	0.93[MEX][hapmap];0.88[TSI][hapmap]
rs7060124	0.95[CEU][hapmap];1.00[CHB][hapmap];0.84[LWK][hapmap];0.89[YRI][hapmap]

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	nsv817233	chrX:109693720-110244649	Weak transcription Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs5943019	RGAG1	cis	lymphoblastoid	seeQTL

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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