Variant report

Variant	rs2567609
Chromosome Location	chr20:23017017-23017018
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1883957	0.81[GIH][hapmap]
rs2207106	0.82[CEU][hapmap]
rs220990	1.00[CEU][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2235951	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2235952	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2567608	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2567613	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2567614	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[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	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6082981	0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6082986	0.85[CEU][hapmap];0.82[TSI][hapmap]
rs6113897	0.84[AMR][1000 genomes]
rs6113909	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7361512	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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
2	nsv524981	chr20:23011468-23021597	Bivalent Enhancer Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv3400736	chr20:23014752-23018200	Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv520810	chr20:23016970-23017082	Bivalent Enhancer Weak transcription Enhancers ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2567609	XRN2	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23013200-23017400	Enhancers	Fetal Heart	heart
2	chr20:23015800-23017600	ZNF genes & repeats	Spleen	Spleen
3	chr20:23016000-23026000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr20:23016200-23019200	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr20:23016200-23019600	Enhancers	Dnd41	blood
6	chr20:23016200-23020600	Weak transcription	Right Atrium	heart
7	chr20:23016200-23028200	Weak transcription	Aorta	Aorta
8	chr20:23016600-23023600	Weak transcription	Gastric	stomach
9	chr20:23016800-23017200	Bivalent Enhancer	Fetal Muscle Leg	muscle

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Input of quick search could be:

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

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