Variant report

Variant	rs2567614
Chromosome Location	chr20:23021778-23021779
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:23020985..23023221-chr20:23027756..23029605,2	MCF-7	breast:
2	chr20:23021523..23024307-chr20:23024511..23026678,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11696134	0.95[MKK][hapmap];1.00[YRI][hapmap]
rs2207106	0.82[CEU][hapmap]
rs220979	0.98[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs220990	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2235951	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2235952	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2268198	0.94[AFR][1000 genomes]
rs2567608	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2567609	1.00[CEU][hapmap];0.82[CHB][hapmap];0.91[CHD][hapmap];0.98[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2567613	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3746726	0.89[CEU][hapmap];0.82[TSI][hapmap]
rs3746728	0.89[CEU][hapmap];0.82[TSI][hapmap]
rs6076009	0.89[CEU][hapmap]
rs6082975	0.81[CEU][hapmap]
rs6082979	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6082981	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6082986	0.85[CEU][hapmap];0.82[TSI][hapmap]
rs6113897	0.80[AMR][1000 genomes]
rs6113909	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7361512	0.96[AFR][1000 genomes];0.96[ASN][1000 genomes]

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	nsv912816	chr20:22757960-23062927	Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2567614	XRN2	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23016000-23026000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr20:23016200-23028200	Weak transcription	Aorta	Aorta
3	chr20:23016600-23023600	Weak transcription	Gastric	stomach
4	chr20:23017600-23024600	Weak transcription	Spleen	Spleen
5	chr20:23020800-23026400	Weak transcription	A549	lung
6	chr20:23021000-23023600	Weak transcription	Esophagus	oesophagus
7	chr20:23021000-23026800	Weak transcription	HMEC	breast
8	chr20:23021400-23025200	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr20:23021600-23026400	Weak transcription	Lung	lung
10	chr20:23021600-23027000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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