Variant report

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10028355	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1027815	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10519584	0.83[GIH][hapmap]
rs12509440	0.86[GIH][hapmap]
rs1507178	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs187139	1.00[EUR][1000 genomes]
rs189568	1.00[EUR][1000 genomes]
rs2033612	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs354939	0.97[EUR][1000 genomes]
rs354941	0.98[EUR][1000 genomes]
rs3913899	0.86[GIH][hapmap]
rs4123363	0.98[EUR][1000 genomes]
rs4629541	0.86[GIH][hapmap]
rs4956515	0.98[EUR][1000 genomes]
rs4956516	0.98[EUR][1000 genomes]
rs4956517	1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[TSI][hapmap];0.98[EUR][1000 genomes]
rs4956518	1.00[CEU][hapmap];1.00[GIH][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62324904	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62324905	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6537030	0.86[GIH][hapmap]
rs6835953	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6853785	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72724492	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7669929	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7683490	0.86[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880167	chr4:141616979-142092124	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv880170	chr4:142046828-142137165	Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv2757959	chr4:142065661-142367951	Enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	esv2759287	chr4:142065661-142367951	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10519586	MGST2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:142062600-142066800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr4:142066600-142067200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

Quick Search: