Variant report

Variant	rs2836602
Chromosome Location	chr21:40039169-40039170
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr21:40039125..40041659-chr21:40042209..40043754,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11088437	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11701577	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11701855	0.94[ASN][1000 genomes]
rs11702165	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2212606	0.95[EUR][1000 genomes]
rs2836582	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2836597	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2836598	1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2836610	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2836611	0.96[ASN][1000 genomes]
rs2836615	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2836621	0.84[EUR][1000 genomes]
rs4143428	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4514962	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55955614	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58120977	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61085980	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61189207	0.88[ASN][1000 genomes]
rs62217513	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62217517	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62217518	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62217519	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73902704	0.88[ASN][1000 genomes]
rs743444	0.94[ASN][1000 genomes]
rs764482	0.89[EUR][1000 genomes]
rs8128137	0.86[ASN][1000 genomes]
rs8130434	0.85[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8132069	0.88[EUR][1000 genomes]
rs9647181	0.86[ASN][1000 genomes]
rs991816	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2836602	SETD4	cis	parietal	SCAN
rs2836602	RUNX1	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:40036600-40039600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr21:40039000-40040800	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr21:40039000-40041000	Enhancers	Monocytes-CD14+_RO01746	blood

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