Variant report

Variant	rs209009
Chromosome Location	chr6:62872220-62872221
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 125 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs1070145	0.89[EUR][1000 genomes]
rs10945156	0.89[EUR][1000 genomes]
rs10945189	0.87[EUR][1000 genomes]
rs1103569	0.85[EUR][1000 genomes]
rs1204539	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1204540	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1204543	0.82[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs1204544	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12660844	0.87[EUR][1000 genomes]
rs16882876	0.89[EUR][1000 genomes]
rs16883133	0.87[EUR][1000 genomes]
rs1688991	0.87[EUR][1000 genomes]
rs169662	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs176603	0.90[EUR][1000 genomes]
rs176604	0.90[EUR][1000 genomes]
rs176609	0.90[EUR][1000 genomes]
rs176610	0.81[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs176612	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs176616	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs176618	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs176619	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs176620	0.90[EUR][1000 genomes]
rs176621	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs176622	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs185974	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs208971	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs208975	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs208976	0.89[EUR][1000 genomes]
rs208982	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs208983	0.93[EUR][1000 genomes]
rs208987	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs208989	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs208991	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs208993	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs208995	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs208996	0.81[AFR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs208997	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs208998	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs209003	0.82[AFR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs209004	0.82[AFR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs209005	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs209007	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs209010	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs209012	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs209013	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2679573	0.89[EUR][1000 genomes]
rs2814655	0.81[EUR][1000 genomes]
rs34581506	0.87[EUR][1000 genomes]
rs34693787	0.85[EUR][1000 genomes]
rs396074	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs485617	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs486719	0.89[EUR][1000 genomes]
rs492902	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs494833	0.87[EUR][1000 genomes]
rs516904	0.87[EUR][1000 genomes]
rs524169	0.87[EUR][1000 genomes]
rs530011	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs541351	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs549603	0.89[EUR][1000 genomes]
rs550126	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs551082	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs551124	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs551837	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs555222	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs567689	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs567865	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs573454	0.89[EUR][1000 genomes]
rs574337	0.88[EUR][1000 genomes]
rs577280	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs577542	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs590059	0.87[EUR][1000 genomes]
rs591353	0.87[EUR][1000 genomes]
rs591366	0.87[EUR][1000 genomes]
rs603987	0.87[EUR][1000 genomes]
rs606199	0.87[EUR][1000 genomes]
rs62414796	0.89[EUR][1000 genomes]
rs62414811	0.87[EUR][1000 genomes]
rs6908177	0.89[EUR][1000 genomes]
rs6918262	0.87[EUR][1000 genomes]
rs6934952	0.89[EUR][1000 genomes]
rs73488982	0.89[EUR][1000 genomes]
rs7742126	0.89[EUR][1000 genomes]
rs7743214	0.87[EUR][1000 genomes]
rs7750698	0.87[EUR][1000 genomes]
rs7770793	0.89[EUR][1000 genomes]
rs7772645	0.80[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs855409	0.89[EUR][1000 genomes]
rs855411	0.86[EUR][1000 genomes]
rs855412	0.89[EUR][1000 genomes]
rs855413	0.89[EUR][1000 genomes]
rs855414	0.89[EUR][1000 genomes]
rs9294829	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9294844	0.87[EUR][1000 genomes]
rs9446114	0.84[EUR][1000 genomes]
rs9446135	0.87[EUR][1000 genomes]
rs9446139	0.80[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9446154	0.87[EUR][1000 genomes]
rs9454804	0.89[EUR][1000 genomes]
rs9454831	0.87[EUR][1000 genomes]
rs9454832	0.87[EUR][1000 genomes]
rs9454834	0.80[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9454844	0.87[EUR][1000 genomes]
rs9454845	0.87[EUR][1000 genomes]
rs9454859	0.87[EUR][1000 genomes]
rs9918343	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033794	chr6:61886428-62877254	Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv1027650	chr6:61886428-62877393	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv462963	chr6:61963172-62899514	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv603266	chr6:61963172-62899514	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
5	nsv603268	chr6:61963173-62899514	Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Weak transcription Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
6	nsv932029	chr6:61967253-62900503	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
7	nsv916376	chr6:61967253-62927185	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
8	nsv529782	chr6:61971892-62877253	ZNF genes & repeats Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
9	nsv1022364	chr6:62019939-62877193	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
10	nsv538261	chr6:62019939-62877193	Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
11	esv17049	chr6:62178788-62919415	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
12	nsv603277	chr6:62183901-62899514	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
13	nsv1032202	chr6:62236498-62907004	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
14	nsv538262	chr6:62236498-62907004	ZNF genes & repeats Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
15	nsv1025290	chr6:62236498-62913561	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
16	nsv538263	chr6:62236498-62913561	Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
17	nsv948986	chr6:62504369-62899427	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
18	nsv533083	chr6:62531786-62877253	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
19	nsv603316	chr6:62600980-62927514	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
20	nsv538267	chr6:62787337-62913561	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:62866200-62888000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr6:62871400-62872800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:62872000-62873800	ZNF genes & repeats	Primary B cells from cord blood	blood
4	chr6:62872200-62873400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell

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