Variant report

Variant	rs7873385
Chromosome Location	chr9:86102933-86102934
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10120060	0.83[CEU][hapmap];0.90[YRI][hapmap]
rs10780606	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10780607	0.83[CEU][hapmap];0.87[CHB][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs10868018	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12343646	1.00[CEU][hapmap];0.88[CHB][hapmap];0.91[JPT][hapmap];0.93[EUR][1000 genomes]
rs3860929	0.83[CEU][hapmap]
rs3860931	1.00[CEU][hapmap];0.88[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3860935	1.00[CEU][hapmap];0.94[CHB][hapmap];0.87[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3860936	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3860937	0.94[CHB][hapmap];0.83[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3860939	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];0.83[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3860943	0.91[CEU][hapmap];0.94[CHB][hapmap];0.83[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4097647	0.85[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4097648	0.83[CEU][hapmap];0.90[YRI][hapmap];0.85[AMR][1000 genomes]
rs4120051	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4877256	0.83[CEU][hapmap]
rs4877778	0.92[EUR][1000 genomes]
rs4877779	0.93[CHB][hapmap];0.95[JPT][hapmap];0.81[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs4877782	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4877788	0.91[CEU][hapmap];0.87[CHB][hapmap]
rs6559731	0.83[CEU][hapmap];0.87[CHB][hapmap];0.95[CHD][hapmap];0.82[GIH][hapmap];0.83[JPT][hapmap];0.87[MEX][hapmap];0.87[ASN][1000 genomes]
rs7032223	0.82[CEU][hapmap]
rs7035629	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7043959	0.83[CEU][hapmap]
rs7850633	0.80[MEX][hapmap]
rs7863524	0.83[CEU][hapmap];0.87[CHB][hapmap];0.95[CHD][hapmap];0.82[GIH][hapmap];0.83[JPT][hapmap];0.87[MEX][hapmap];0.87[ASN][1000 genomes]

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	nsv893512	chr9:86022215-86323309	Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv1038884	chr9:86089963-86215800	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7873385	FRMD3	cis	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:86089800-86106600	Weak transcription	Hela-S3	cervix
2	chr9:86098000-86106400	Weak transcription	Psoas Muscle	Psoas

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