Variant report

Variant	rs66504654
Chromosome Location	chr3:28948250-28948251
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10510612	0.92[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs10510613	0.85[EUR][1000 genomes]
rs1463873	0.85[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1500010	0.92[AFR][1000 genomes]
rs17022076	0.93[ASN][1000 genomes]
rs17022080	0.93[ASN][1000 genomes]
rs17022084	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17022110	0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs17022129	0.92[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs17022147	1.00[ASN][1000 genomes]
rs17022169	0.92[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs17022186	0.85[ASN][1000 genomes]
rs17022195	0.90[ASN][1000 genomes]
rs1909602	0.92[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs1965351	0.85[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs2221153	0.88[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs4016429	0.90[ASN][1000 genomes]
rs55744505	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55779594	0.81[AMR][1000 genomes]
rs55862620	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs56077194	0.89[EUR][1000 genomes]
rs56229054	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs56242906	0.88[EUR][1000 genomes]
rs56402145	0.89[EUR][1000 genomes]
rs57529509	0.90[ASN][1000 genomes]
rs58720305	0.98[ASN][1000 genomes]
rs58767158	0.92[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs59357000	0.90[ASN][1000 genomes]
rs59924449	0.90[ASN][1000 genomes]
rs60187021	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60896865	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs60978369	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61579277	0.93[ASN][1000 genomes]
rs66470677	0.90[ASN][1000 genomes]
rs67397931	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6806139	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72920904	0.92[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs72920918	0.92[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs72920919	0.86[ASN][1000 genomes]
rs72920921	0.93[ASN][1000 genomes]
rs72920927	0.90[ASN][1000 genomes]
rs72920940	0.90[ASN][1000 genomes]
rs72920943	0.85[ASN][1000 genomes]
rs72927814	0.84[AFR][1000 genomes]
rs72927837	0.93[ASN][1000 genomes]
rs72927847	0.92[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs72927849	0.92[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs73056063	0.85[EUR][1000 genomes]
rs73056074	0.85[EUR][1000 genomes]
rs73056075	0.85[EUR][1000 genomes]
rs73056077	0.85[EUR][1000 genomes]
rs73056080	0.85[EUR][1000 genomes]
rs73056082	0.85[EUR][1000 genomes]
rs73056083	0.85[EUR][1000 genomes]
rs73057948	0.89[EUR][1000 genomes]
rs73057951	0.89[EUR][1000 genomes]
rs73057959	0.89[EUR][1000 genomes]
rs73057967	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73057974	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73057993	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73058055	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73058088	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73060071	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73060075	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73060080	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73060083	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73060084	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73060088	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7434023	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7622848	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7632195	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7632592	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7634786	0.85[EUR][1000 genomes]
rs7649669	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs952628	0.93[ASN][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	nsv916364	chr3:28468275-29146280	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv590011	chr3:28780713-29044437	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv876653	chr3:28819123-29366164	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv876654	chr3:28882980-29105082	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1008133	chr3:28910310-28950047	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
6	nsv590023	chr3:28926923-29038253	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv998023	chr3:28939535-29207462	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv590024	chr3:28947691-29192092	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv590025	chr3:28947691-29201460	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 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	chr3:28943800-28949000	Weak transcription	Hela-S3	cervix
2	chr3:28947000-28948800	Enhancers	Dnd41	blood
3	chr3:28948000-28948600	Enhancers	HSMM	muscle
4	chr3:28948200-28948400	Enhancers	HSMMtube	muscle

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