Variant report

Variant	rs6548790
Chromosome Location	chr3:82030062-82030063
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 110 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs11127754	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11127757	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11127758	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11916839	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11917347	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11918223	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11919912	0.83[EUR][1000 genomes]
rs11922298	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11929553	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12630225	0.84[EUR][1000 genomes]
rs13059531	0.84[EUR][1000 genomes]
rs13088518	0.87[EUR][1000 genomes]
rs13314987	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13321907	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1534668	0.88[EUR][1000 genomes]
rs17019551	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1919559	0.88[EUR][1000 genomes]
rs2068210	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2068211	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2141489	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2178315	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2178316	0.90[EUR][1000 genomes]
rs2316703	0.93[ASN][1000 genomes]
rs28455989	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28475537	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28536106	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28561953	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28564625	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28683026	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4521254	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60509851	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60782263	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62265731	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62265755	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62265756	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62265757	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62268572	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6419747	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6548789	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6548793	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs66870475	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6763269	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767358	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6769852	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6773980	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6774064	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6774157	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6776655	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6778814	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6781140	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6805116	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7611244	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7611492	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7612452	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7614689	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7615354	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7619146	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7622355	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7623648	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7634781	0.86[EUR][1000 genomes]
rs7635092	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9309885	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9811625	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9812010	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9812960	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9814587	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9815442	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9816690	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9817048	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9819290	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9820525	0.92[EUR][1000 genomes]
rs9820687	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9821368	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9821506	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9821800	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9822483	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9831887	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9832377	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9834983	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9836048	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9838997	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9840948	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9843444	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9845227	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9848134	0.84[EUR][1000 genomes]
rs9853043	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9857313	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9857742	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9858684	0.83[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9859766	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9863450	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9866029	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9866312	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9866476	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9867563	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9868182	0.86[EUR][1000 genomes]
rs9869419	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9869718	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9872972	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9873073	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9875359	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9876062	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9876340	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9878115	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9878768	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9882486	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9882687	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9883163	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9883264	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752870	chr3:82014410-82050310	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:82029800-82030200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:82029800-82030800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr3:82029800-82031000	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr3:82029800-82031600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:82030000-82030600	Enhancers	iPS-20b Cell Line	embryonic stem cell

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