Variant report

Variant	rs3897996
Chromosome Location	chr16:10072629-10072630
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs11866570	1.00[JPT][hapmap]
rs17569609	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17569693	0.89[YRI][hapmap]
rs17569940	0.85[EUR][1000 genomes]
rs17670318	0.96[EUR][1000 genomes]
rs17670396	0.97[EUR][1000 genomes]
rs17670509	1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17670544	1.00[YRI][hapmap]
rs17670766	0.85[EUR][1000 genomes]
rs1827197	0.86[EUR][1000 genomes]
rs2315510	0.90[EUR][1000 genomes]
rs4107019	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4254328	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4780792	1.00[JPT][hapmap]
rs4998386	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs57497843	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs57576479	0.93[EUR][1000 genomes]
rs59775432	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60547225	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7190619	0.90[YRI][hapmap]
rs7190716	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7191736	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7192121	0.96[EUR][1000 genomes]
rs7193123	0.86[EUR][1000 genomes]
rs7193471	0.82[EUR][1000 genomes]
rs7197048	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7200719	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72772131	0.94[EUR][1000 genomes]
rs72772153	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72772155	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72772157	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72772164	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72772166	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72772167	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72772168	0.93[EUR][1000 genomes]
rs72772169	0.93[EUR][1000 genomes]
rs72772342	0.82[EUR][1000 genomes]
rs72772347	0.86[EUR][1000 genomes]
rs72772360	0.82[EUR][1000 genomes]
rs72772361	0.82[EUR][1000 genomes]
rs72772364	0.82[EUR][1000 genomes]
rs72774046	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72774047	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72774048	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72774051	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72774055	0.86[EUR][1000 genomes]
rs72774059	0.85[EUR][1000 genomes]
rs72774081	0.86[EUR][1000 genomes]
rs8043728	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8045558	0.82[YRI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9925439	0.96[EUR][1000 genomes]
rs9929020	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949196	chr16:9937980-10182349	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1037001	chr16:10008023-10476482	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv2422500	chr16:10008309-10415517	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1045882	chr16:10025402-10117992	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1052566	chr16:10033178-10260068	Enhancers Transcr. at gene 5' and 3' Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv905333	chr16:10055461-10079124	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv2758410	chr16:10060976-10257550	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	esv2758629	chr16:10060976-10257550	Weak transcription Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv427973	chr16:10060976-10257550	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 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	chr16:10068800-10075000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr16:10069000-10073200	Enhancers	Brain Cingulate Gyrus	brain
3	chr16:10069200-10073000	Enhancers	Brain Hippocampus Middle	brain
4	chr16:10072600-10077000	Weak transcription	GM12878-XiMat	blood

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