Variant report

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10007142	1.00[JPT][hapmap]
rs10488877	0.80[MEX][hapmap]
rs11943443	0.89[YRI][hapmap]
rs11946089	0.89[YRI][hapmap]
rs12640239	0.84[CEU][hapmap];0.85[AMR][1000 genomes]
rs12647173	0.84[CEU][hapmap];0.83[AMR][1000 genomes]
rs13126849	0.83[CEU][hapmap]
rs17039959	0.84[CEU][hapmap]
rs17040080	0.89[YRI][hapmap]
rs17040084	0.89[YRI][hapmap]
rs17040089	0.89[YRI][hapmap]
rs17040091	0.89[YRI][hapmap]
rs17040094	0.89[YRI][hapmap]
rs17040097	0.89[YRI][hapmap]
rs2158469	0.80[MEX][hapmap]
rs2158470	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2158471	0.89[EUR][1000 genomes]
rs2189705	0.89[YRI][hapmap]
rs35702755	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs41390947	0.89[YRI][hapmap]
rs41395650	0.85[YRI][hapmap]
rs4956247	0.84[CEU][hapmap];0.86[MEX][hapmap]
rs6533420	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6533421	1.00[CEU][hapmap];1.00[MEX][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7656748	0.89[YRI][hapmap]
rs7675810	0.89[YRI][hapmap]
rs7682615	0.81[MEX][hapmap]
rs7692009	0.89[YRI][hapmap]
rs7695378	0.87[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461613	chr4:109922064-110593460	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv595129	chr4:109922064-110593460	Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12640304	GAR1	cis	parietal	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110152600-110155600	Enhancers	HSMM	muscle
2	chr4:110152600-110156000	Enhancers	Muscle Satellite Cultured Cells	--
3	chr4:110152800-110155200	Enhancers	HSMMtube	muscle
4	chr4:110154000-110155400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr4:110154000-110155800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr4:110154400-110155200	Enhancers	Hela-S3	cervix
7	chr4:110154400-110155200	Enhancers	NHEK	skin
8	chr4:110154600-110155600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr4:110155000-110155200	Enhancers	Skeletal Muscle Male	skeletal muscle
10	chr4:110155000-110155200	Enhancers	Skeletal Muscle Female	skeletal muscle

Quick Search: