Variant report

Variant	rs4097648
Chromosome Location	chr9:86104376-86104377
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10120060	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.91[EUR][1000 genomes]
rs10746709	0.91[CEU][hapmap];0.88[MEX][hapmap]
rs10780606	0.85[AMR][1000 genomes]
rs10868018	0.86[AMR][1000 genomes]
rs10868023	0.87[CEU][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs12343646	0.83[CEU][hapmap]
rs3860929	1.00[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap];0.89[EUR][1000 genomes]
rs3860931	0.82[CEU][hapmap];0.90[YRI][hapmap];0.86[AMR][1000 genomes]
rs3860935	0.83[CEU][hapmap];0.85[AMR][1000 genomes]
rs3860937	0.85[AMR][1000 genomes]
rs3860939	0.83[CEU][hapmap];0.85[AMR][1000 genomes]
rs3860943	0.82[CEU][hapmap];0.81[AMR][1000 genomes]
rs4120051	0.86[AMR][1000 genomes]
rs4520248	0.84[EUR][1000 genomes]
rs4877256	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.91[EUR][1000 genomes]
rs4877772	0.89[EUR][1000 genomes]
rs4877782	0.83[AMR][1000 genomes]
rs4877788	0.83[CEU][hapmap]
rs6559726	0.81[EUR][1000 genomes]
rs6559727	0.95[CEU][hapmap];0.90[CHB][hapmap];0.85[CHD][hapmap];0.98[GIH][hapmap];0.96[MEX][hapmap];0.97[TSI][hapmap];0.88[EUR][1000 genomes]
rs6559731	0.80[MEX][hapmap]
rs7019435	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7023693	0.88[ASN][1000 genomes]
rs7032223	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.90[EUR][1000 genomes]
rs7035629	0.81[AMR][1000 genomes]
rs7041666	0.92[ASN][1000 genomes]
rs7043389	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7043959	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7855304	0.90[EUR][1000 genomes]
rs7863524	0.80[MEX][hapmap]
rs7873385	0.83[CEU][hapmap];0.90[YRI][hapmap];0.85[AMR][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:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4097648	FRMD3	cis	cerebellum	SCAN
rs4097648	TLE1	cis	cerebellum	SCAN

Chromatin state (count:3 , 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
3	chr9:86104000-86106200	Weak transcription	Left Ventricle	heart

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