Variant report

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

rs_ID	r²[population]
rs1233582	0.81[AMR][1000 genomes]
rs169682	1.00[ASN][1000 genomes]
rs185982	1.00[ASN][1000 genomes]
rs209181	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs209190	1.00[ASN][1000 genomes]
rs209192	1.00[ASN][1000 genomes]
rs209193	1.00[ASN][1000 genomes]
rs209199	1.00[ASN][1000 genomes]
rs2754761	0.85[ASN][1000 genomes]
rs2754762	1.00[ASN][1000 genomes]
rs2765220	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2765222	1.00[ASN][1000 genomes]
rs2765223	1.00[ASN][1000 genomes]
rs3131344	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3132372	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs398795	1.00[ASN][1000 genomes]
rs417919	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56030816	1.00[ASN][1000 genomes]
rs56308612	1.00[ASN][1000 genomes]
rs56374518	1.00[ASN][1000 genomes]
rs57491524	1.00[ASN][1000 genomes]
rs6938988	0.92[ASN][1000 genomes]
rs6939948	0.92[ASN][1000 genomes]
rs7739915	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9257190	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv534089	chr6:28636972-28841640	Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv883517	chr6:28751727-28802149	Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9257226	BTN3A2	Cis_chr	lymphoblastoid	RTeQTL
rs9257226	BTN3A2///BTN3A3	Cis_chr	lymphoblastoid	RTeQTL
rs9257226	ZFP57	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28786000-28792200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:28786400-28791000	Weak transcription	A549	lung
3	chr6:28786400-28791200	Weak transcription	K562	blood

Quick Search: