Variant report

Variant	rs10947820
Chromosome Location	chr6:39553485-39553486
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1026525	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10807209	0.95[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs10947823	0.87[CHB][hapmap]
rs10947824	0.83[CEU][hapmap];0.87[CHB][hapmap]
rs10947825	0.82[CEU][hapmap];0.86[CHB][hapmap];0.82[MEX][hapmap]
rs1520	0.80[MEX][hapmap]
rs2061465	0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs2092524	0.84[JPT][hapmap]
rs2446647	0.87[CHB][hapmap]
rs2446648	0.87[CHB][hapmap]
rs2446652	0.87[CHB][hapmap]
rs2446653	0.86[CHB][hapmap]
rs2466408	0.87[CHB][hapmap]
rs2466409	0.87[CHB][hapmap]
rs2466411	0.87[CHB][hapmap]
rs2480089	0.95[CEU][hapmap];0.87[CHB][hapmap];0.87[MEX][hapmap];0.87[TSI][hapmap]
rs2499453	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4363024	1.00[CHB][hapmap];0.95[CHD][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs4601114	0.98[ASN][1000 genomes]
rs4612160	0.99[ASN][1000 genomes]
rs4714261	0.91[MEX][hapmap]
rs4714262	0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs4714263	0.89[ASN][1000 genomes]
rs4714264	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs4714265	0.98[ASN][1000 genomes]
rs59125547	0.97[ASN][1000 genomes]
rs60689582	0.81[ASN][1000 genomes]
rs6911091	0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs725841	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7738236	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7738728	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7744341	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7769800	0.82[MEX][hapmap]
rs7776284	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9367020	0.96[ASN][1000 genomes]
rs9367021	1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs9471131	0.83[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	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv508405	chr6:39538802-39602108	Enhancers Weak transcription Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv462920	chr6:39544831-39588118	Weak transcription Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv602964	chr6:39544831-39588118	Enhancers Weak transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39545800-39554400	Weak transcription	Brain Cingulate Gyrus	brain
2	chr6:39550200-39555000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr6:39551400-39561200	Weak transcription	Brain Substantia Nigra	brain
4	chr6:39551400-39585000	Weak transcription	Brain Hippocampus Middle	brain

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