Variant report

Variant	rs62270122
Chromosome Location	chr3:110381341-110381342
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10934063	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10934064	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11925026	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12053862	0.83[EUR][1000 genomes]
rs12053901	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13098277	0.82[ASN][1000 genomes]
rs1462295	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1512662	0.84[EUR][1000 genomes]
rs1606350	0.84[EUR][1000 genomes]
rs16845001	0.88[ASN][1000 genomes]
rs2055968	0.84[EUR][1000 genomes]
rs2895375	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4682017	0.84[AMR][1000 genomes]
rs57198450	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57680282	0.89[EUR][1000 genomes]
rs59612531	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59985710	0.89[EUR][1000 genomes]
rs60302938	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62270060	0.89[EUR][1000 genomes]
rs62270063	0.89[EUR][1000 genomes]
rs62270076	0.89[EUR][1000 genomes]
rs62270083	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62270086	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62270095	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62270100	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62270121	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270123	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270124	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62270127	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62270128	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62270129	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs62270130	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62270134	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62271606	0.89[EUR][1000 genomes]
rs62271607	0.89[EUR][1000 genomes]
rs62271608	0.89[EUR][1000 genomes]
rs62271609	0.89[EUR][1000 genomes]
rs62271610	0.89[EUR][1000 genomes]
rs62271612	0.89[EUR][1000 genomes]
rs62271615	0.89[EUR][1000 genomes]
rs62271616	0.89[EUR][1000 genomes]
rs62271618	0.89[EUR][1000 genomes]
rs62271620	0.89[EUR][1000 genomes]
rs62271621	0.89[EUR][1000 genomes]
rs62271636	0.89[EUR][1000 genomes]
rs62271639	0.89[EUR][1000 genomes]
rs62271642	0.89[EUR][1000 genomes]
rs62271644	0.89[EUR][1000 genomes]
rs62271647	0.89[EUR][1000 genomes]
rs62271761	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62271763	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62271766	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62271784	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62271785	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62271788	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62271789	0.92[ASN][1000 genomes]
rs62271790	0.83[EUR][1000 genomes]
rs6765569	0.89[EUR][1000 genomes]
rs6768474	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6772035	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6776067	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6781483	0.89[EUR][1000 genomes]
rs6809227	0.83[ASN][1000 genomes]
rs7609852	0.92[ASN][1000 genomes]
rs7618299	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7629179	0.92[ASN][1000 genomes]
rs7631316	0.89[EUR][1000 genomes]
rs7632974	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7634524	0.89[EUR][1000 genomes]
rs7634536	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7640442	0.83[EUR][1000 genomes]
rs7641379	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7650722	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7652062	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9653909	0.89[EUR][1000 genomes]
rs9809312	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9825259	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9858359	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9873714	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	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
5	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
6	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
7	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
8	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
9	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
10	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
11	nsv829673	chr3:110378069-110530815	Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110379000-110382600	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr3:110380400-110381400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:110380400-110381600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr3:110381200-110381400	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr3:110381200-110381800	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links