Variant report

Variant	rs9836755
Chromosome Location	chr3:85839371-85839372
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10511067	0.82[CEU][hapmap];0.93[TSI][hapmap]
rs10511068	0.82[CEU][hapmap];0.93[TSI][hapmap]
rs11127905	0.90[JPT][hapmap]
rs11711972	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11926422	0.82[CEU][hapmap]
rs12494196	0.90[JPT][hapmap]
rs12495178	0.82[CEU][hapmap];0.93[TSI][hapmap];0.86[EUR][1000 genomes]
rs1375218	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs1375219	1.00[CHB][hapmap];0.84[CHD][hapmap];0.90[JPT][hapmap]
rs1448607	1.00[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap];1.00[ASN][1000 genomes]
rs1448613	0.81[CEU][hapmap]
rs1448614	0.84[CEU][hapmap]
rs1448616	1.00[CHB][hapmap];0.84[CHD][hapmap];0.90[JPT][hapmap]
rs17334733	0.90[JPT][hapmap]
rs2029051	0.90[JPT][hapmap]
rs2029052	0.90[JPT][hapmap]
rs2029053	0.90[JPT][hapmap]
rs2044654	1.00[JPT][hapmap]
rs2325036	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2325037	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2875529	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3901898	0.94[CHB][hapmap];0.82[CHD][hapmap];0.82[JPT][hapmap]
rs3902500	0.81[CEU][hapmap]
rs3906942	0.89[ASN][1000 genomes]
rs3911063	0.81[TSI][hapmap]
rs3930071	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs4302392	0.90[JPT][hapmap]
rs4488844	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs4504176	1.00[ASN][1000 genomes]
rs4555536	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap]
rs4555539	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs4618235	0.89[JPT][hapmap]
rs4856279	0.88[CHB][hapmap]
rs4856606	0.80[CHB][hapmap]
rs6549054	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6549055	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6787851	0.81[CEU][hapmap]
rs6787901	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs6796380	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs6796402	0.81[JPT][hapmap]
rs6799453	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap]
rs7429346	0.88[ASN][1000 genomes]
rs7431895	0.80[CEU][hapmap];0.87[EUR][1000 genomes]
rs7611409	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap]
rs7612371	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7613695	0.81[CEU][hapmap]
rs7621146	0.87[CHB][hapmap]
rs7624423	0.90[JPT][hapmap]
rs7637221	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs7638774	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7642281	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs7653470	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9309992	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs9681744	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs9820133	0.90[JPT][hapmap]
rs9820262	0.90[JPT][hapmap]
rs9843797	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap]
rs9844720	0.89[JPT][hapmap]
rs9851502	0.81[CHB][hapmap]
rs9864042	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap]
rs9876664	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9881886	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010541	chr3:85505839-85870597	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv536625	chr3:85505839-85870597	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv532629	chr3:85763873-86608579	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv877106	chr3:85814620-86006210	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv877107	chr3:85814620-86037162	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9836755	ZNF654	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85832800-85839400	Weak transcription	Brain Substantia Nigra	brain

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