Variant report

Variant	rs17022646
Chromosome Location	chr3:85309720-85309721
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs12489229	0.86[YRI][hapmap]
rs1376937	0.85[ASW][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.96[YRI][hapmap]
rs17022521	0.85[YRI][hapmap]
rs17022531	0.84[YRI][hapmap]
rs17022571	0.96[YRI][hapmap]
rs17022605	0.92[ASW][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs17022612	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17022614	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17022655	1.00[YRI][hapmap]
rs17022680	0.92[ASW][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.96[YRI][hapmap]
rs17022682	1.00[YRI][hapmap]
rs17022685	0.92[ASW][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1901545	0.85[YRI][hapmap];0.81[AFR][1000 genomes]
rs2101343	1.00[MEX][hapmap];0.82[YRI][hapmap]
rs2167605	1.00[YRI][hapmap];0.80[AMR][1000 genomes]
rs56773060	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56792196	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58051057	0.81[AFR][1000 genomes]
rs58725437	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59333278	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59636199	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60184399	0.81[AFR][1000 genomes]
rs60958536	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61290738	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61484584	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6770622	0.82[YRI][hapmap]
rs6774581	0.81[YRI][hapmap]
rs6796363	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72907167	0.81[AFR][1000 genomes]
rs72909170	0.90[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs72909172	0.80[AMR][1000 genomes]
rs72909174	0.86[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs72909176	0.80[AMR][1000 genomes]
rs72913051	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72913058	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72915062	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72915065	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72915067	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72915100	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72915102	0.93[AFR][1000 genomes]
rs72917112	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72917132	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72917137	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72917149	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72917150	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72917154	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72917158	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72917160	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72917162	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72917164	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72919227	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72919301	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72921304	1.00[AMR][1000 genomes]
rs72921314	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72921316	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72921317	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7611119	0.84[YRI][hapmap]
rs7618389	0.95[YRI][hapmap]
rs7622821	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7622974	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7643802	0.84[YRI][hapmap]
rs7644008	0.88[YRI][hapmap]
rs7648045	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9917693	1.00[MEX][hapmap];0.96[MKK][hapmap];0.96[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002058	chr3:84757044-85389876	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv3419993	chr3:85030343-85663403	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv492289	chr3:85066623-85319147	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2753915	chr3:85071410-85624810	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv877096	chr3:85163167-85366517	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv460747	chr3:85163167-85391672	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv590899	chr3:85163167-85391672	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv877098	chr3:85177173-85361645	ZNF genes & repeats Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv470716	chr3:85194054-85316648	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv590903	chr3:85200742-85316648	ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv999255	chr3:85222822-85323285	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv536617	chr3:85222822-85323285	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv877100	chr3:85234199-85336559	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv1006718	chr3:85243599-85323285	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv1012601	chr3:85246185-85426996	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv536618	chr3:85246185-85426996	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv948806	chr3:85304744-85463443	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
18	nsv1013407	chr3:85307022-85460325	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region miRNA	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	chr3:85308400-85309800	Weak transcription	Brain Anterior Caudate	brain
2	chr3:85308400-85310000	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr3:85308600-85310000	Enhancers	Brain Substantia Nigra	brain
4	chr3:85309600-85310200	Enhancers	Brain Angular Gyrus	brain

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