Variant report

Variant	rs5942680
Chromosome Location	chrX:109938188-109938189
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

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];0.96[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs12012172	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs12395955	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.85[MEX][hapmap]
rs12396834	0.95[CEU][hapmap];1.00[CHB][hapmap]
rs12857107	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[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]
rs2206971	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs2223782	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs2404177	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[MEX][hapmap]
rs5942660	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap]
rs5942661	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs5942674	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[TSI][hapmap]
rs5942675	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];0.85[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];1.00[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs5942678	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs5942681	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap]
rs5942953	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.85[MEX][hapmap]
rs5942955	0.95[CEU][hapmap];1.00[CHB][hapmap]
rs5943019	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs5943044	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs5943045	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs5943046	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs5943047	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs5943048	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][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];1.00[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs5943053	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[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];1.00[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs5985302	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs5985519	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs5985544	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[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];0.90[GIH][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap]
rs7060124	0.95[CEU][hapmap];1.00[CHB][hapmap];0.83[LWK][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 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
2	nsv7037	chrX:109927893-109972675	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:109919400-109938200	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chrX:109919400-109948800	Weak transcription	Adipose Nuclei	Adipose
3	chrX:109935400-109939200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chrX:109936800-109941000	Weak transcription	Fetal Thymus	thymus
5	chrX:109937000-109940800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chrX:109937200-109941200	Weak transcription	Primary hematopoietic stem cells	blood
7	chrX:109937400-109940800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chrX:109938000-109938200	Bivalent Enhancer	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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