Variant report

Variant	rs9653909
Chromosome Location	chr3:110311451-110311452
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 134 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:119)

rs_ID	r²[population]
rs1022206	0.89[ASN][1000 genomes]
rs10934063	0.89[EUR][1000 genomes]
rs10934064	0.89[EUR][1000 genomes]
rs11925026	0.89[EUR][1000 genomes]
rs12053862	0.83[EUR][1000 genomes]
rs12053901	0.89[EUR][1000 genomes]
rs12489421	0.89[ASN][1000 genomes]
rs1355627	0.90[ASN][1000 genomes]
rs1398340	0.90[ASN][1000 genomes]
rs1398342	0.90[ASN][1000 genomes]
rs1398344	0.84[ASN][1000 genomes]
rs1398355	0.90[ASN][1000 genomes]
rs1398357	0.90[ASN][1000 genomes]
rs1398358	0.90[ASN][1000 genomes]
rs1462295	0.89[EUR][1000 genomes]
rs1512512	0.90[ASN][1000 genomes]
rs1512662	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1606350	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16856946	0.89[EUR][1000 genomes]
rs1877461	0.90[ASN][1000 genomes]
rs1913092	0.89[ASN][1000 genomes]
rs1913093	0.89[ASN][1000 genomes]
rs1913096	0.90[ASN][1000 genomes]
rs1913097	0.90[ASN][1000 genomes]
rs2055968	0.95[EUR][1000 genomes]
rs2089941	0.88[ASN][1000 genomes]
rs2089942	0.89[ASN][1000 genomes]
rs2175608	0.86[ASN][1000 genomes]
rs2399329	0.89[ASN][1000 genomes]
rs2399331	0.90[ASN][1000 genomes]
rs2399332	0.83[ASN][1000 genomes]
rs2895375	0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3899903	0.90[ASN][1000 genomes]
rs4682009	0.90[ASN][1000 genomes]
rs4682010	0.90[ASN][1000 genomes]
rs4682011	0.90[ASN][1000 genomes]
rs4682186	0.90[ASN][1000 genomes]
rs57198450	0.94[EUR][1000 genomes]
rs57680282	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58500543	0.89[EUR][1000 genomes]
rs59612531	0.94[EUR][1000 genomes]
rs59985710	1.00[EUR][1000 genomes]
rs60302938	0.89[EUR][1000 genomes]
rs62270060	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62270063	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270076	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62270083	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62270086	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62270095	1.00[EUR][1000 genomes]
rs62270100	1.00[EUR][1000 genomes]
rs62270121	0.89[EUR][1000 genomes]
rs62270122	0.89[EUR][1000 genomes]
rs62270123	0.89[EUR][1000 genomes]
rs62270124	0.94[EUR][1000 genomes]
rs62270127	0.89[EUR][1000 genomes]
rs62270128	0.94[EUR][1000 genomes]
rs62270130	0.89[EUR][1000 genomes]
rs62270134	0.94[EUR][1000 genomes]
rs62271562	0.84[EUR][1000 genomes]
rs62271576	0.89[EUR][1000 genomes]
rs62271578	0.84[EUR][1000 genomes]
rs62271586	0.89[EUR][1000 genomes]
rs62271587	0.89[EUR][1000 genomes]
rs62271588	0.89[EUR][1000 genomes]
rs62271591	0.89[EUR][1000 genomes]
rs62271592	0.89[EUR][1000 genomes]
rs62271606	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62271607	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62271608	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62271609	1.00[EUR][1000 genomes]
rs62271610	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62271612	1.00[EUR][1000 genomes]
rs62271615	1.00[EUR][1000 genomes]
rs62271616	1.00[EUR][1000 genomes]
rs62271618	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62271620	1.00[EUR][1000 genomes]
rs62271621	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62271636	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62271639	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62271642	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62271644	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62271646	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62271647	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62271761	0.83[EUR][1000 genomes]
rs62271763	0.89[EUR][1000 genomes]
rs62271766	0.94[EUR][1000 genomes]
rs62271784	0.94[EUR][1000 genomes]
rs62271785	0.94[EUR][1000 genomes]
rs62271788	0.83[EUR][1000 genomes]
rs62271790	0.83[EUR][1000 genomes]
rs6765569	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6768474	0.81[EUR][1000 genomes]
rs6768646	0.90[ASN][1000 genomes]
rs6768745	0.90[ASN][1000 genomes]
rs6772035	0.89[EUR][1000 genomes]
rs6776067	0.89[EUR][1000 genomes]
rs6781483	1.00[EUR][1000 genomes]
rs6781525	0.90[ASN][1000 genomes]
rs6781864	0.90[ASN][1000 genomes]
rs6784648	0.89[EUR][1000 genomes]
rs7617903	0.84[EUR][1000 genomes]
rs7618299	0.83[EUR][1000 genomes]
rs7621339	0.90[ASN][1000 genomes]
rs7628651	0.90[ASN][1000 genomes]
rs7628733	0.89[EUR][1000 genomes]
rs7631316	1.00[EUR][1000 genomes]
rs7632974	0.89[EUR][1000 genomes]
rs7634524	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7634536	0.84[EUR][1000 genomes]
rs7640442	0.83[EUR][1000 genomes]
rs7641379	0.83[EUR][1000 genomes]
rs7650722	0.89[EUR][1000 genomes]
rs7652062	0.81[EUR][1000 genomes]
rs9809312	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9825259	0.89[EUR][1000 genomes]
rs9858359	0.89[EUR][1000 genomes]
rs9866331	0.83[ASN][1000 genomes]
rs9873714	0.89[EUR][1000 genomes]
rs9874430	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999414	chr3:110103126-110340180	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv520365	chr3:110155172-110441165	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1001144	chr3:110158316-110431113	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv536687	chr3:110158316-110431113	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1001810	chr3:110158316-110522247	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1010230	chr3:110204439-110588814	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv536688	chr3:110204439-110588814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv829672	chr3:110206693-110361632	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1011034	chr3:110209344-110559021	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv536689	chr3:110209344-110559021	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
12	nsv460820	chr3:110283716-110321035	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv591274	chr3:110283716-110321035	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv1014199	chr3:110293896-110754155	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
15	nsv1007973	chr3:110296571-110313934	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110302800-110311600	Weak transcription	Dnd41	blood
2	chr3:110310600-110311600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell

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