Variant report

Variant	rs1980060
Chromosome Location	chr6:127867668-127867669
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs1080436	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1115440	1.00[ASN][1000 genomes]
rs12201026	1.00[ASN][1000 genomes]
rs12201136	1.00[ASN][1000 genomes]
rs1318049	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1374983	0.80[CEU][hapmap];1.00[ASN][1000 genomes]
rs1448055	0.89[CEU][hapmap]
rs1448056	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1512455	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1512456	1.00[CEU][hapmap];0.90[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1512461	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1512462	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1512463	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1533186	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1550942	0.91[AFR][1000 genomes]
rs1588647	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1588648	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1606331	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1606333	1.00[CEU][hapmap];0.90[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1606335	0.89[EUR][1000 genomes]
rs17205908	1.00[ASN][1000 genomes]
rs1828612	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1913079	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1913080	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1949173	0.92[CEU][hapmap];0.88[EUR][1000 genomes]
rs2068626	1.00[ASN][1000 genomes]
rs2068981	1.00[ASN][1000 genomes]
rs2166835	1.00[ASN][1000 genomes]
rs2221878	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3948102	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs486235	1.00[ASN][1000 genomes]
rs4897215	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs490008	1.00[ASN][1000 genomes]
rs505827	1.00[ASN][1000 genomes]
rs550875	1.00[ASN][1000 genomes]
rs564461	1.00[ASN][1000 genomes]
rs583072	1.00[ASN][1000 genomes]
rs583956	1.00[ASN][1000 genomes]
rs607496	1.00[ASN][1000 genomes]
rs614885	1.00[ASN][1000 genomes]
rs648151	1.00[ASN][1000 genomes]
rs655681	1.00[ASN][1000 genomes]
rs6569495	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6569497	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs674751	1.00[ASN][1000 genomes]
rs680544	1.00[ASN][1000 genomes]
rs682312	1.00[ASN][1000 genomes]
rs683202	1.00[ASN][1000 genomes]
rs6909510	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6919416	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs6920033	1.00[ASN][1000 genomes]
rs6921497	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6929441	0.81[EUR][1000 genomes]
rs766819	1.00[ASN][1000 genomes]
rs766820	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7746884	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7747070	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7749538	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7749800	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7751559	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7751643	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7754603	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs7761797	0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7765261	0.85[CEU][hapmap]
rs7766541	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9385434	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9388583	0.81[EUR][1000 genomes]
rs9398851	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs956693	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs976089	0.82[CEU][hapmap]

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	nsv966660	chr6:127838481-127890221	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv830798	chr6:127841026-127987850	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:127867200-127868400	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr6:127867600-127867800	Active TSS	Brain Germinal Matrix	brain
3	chr6:127867600-127868200	Enhancers	Fetal Brain Male	brain

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