Variant report

Variant	rs550690
Chromosome Location	chr6:101754020-101754021
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1415946	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1475916	1.00[JPT][hapmap]
rs189739	0.85[EUR][1000 genomes]
rs2350100	0.87[CEU][hapmap]
rs2518226	1.00[JPT][hapmap]
rs2518228	1.00[JPT][hapmap]
rs2518231	1.00[JPT][hapmap]
rs2518234	1.00[JPT][hapmap]
rs2518235	1.00[JPT][hapmap]
rs2518238	1.00[JPT][hapmap]
rs2518249	1.00[JPT][hapmap]
rs2579933	1.00[JPT][hapmap]
rs2579934	1.00[JPT][hapmap]
rs2629989	0.81[EUR][1000 genomes]
rs2788276	1.00[JPT][hapmap]
rs283182	0.85[EUR][1000 genomes]
rs283188	0.85[EUR][1000 genomes]
rs283211	0.85[EUR][1000 genomes]
rs283227	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs283228	0.85[EUR][1000 genomes]
rs283229	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2852501	0.84[ASN][1000 genomes]
rs2852508	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2852532	1.00[JPT][hapmap]
rs3811080	1.00[JPT][hapmap]
rs386552	0.85[EUR][1000 genomes]
rs439291	0.85[EUR][1000 genomes]
rs471631	0.97[AFR][1000 genomes]
rs473846	0.97[AFR][1000 genomes]
rs484819	0.97[AFR][1000 genomes]
rs485947	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs489458	0.94[AFR][1000 genomes]
rs493123	0.94[AFR][1000 genomes]
rs500305	0.97[AFR][1000 genomes]
rs504406	0.97[AFR][1000 genomes]
rs504408	0.94[AFR][1000 genomes]
rs512464	0.84[ASN][1000 genomes]
rs516735	0.81[EUR][1000 genomes]
rs517552	0.81[EUR][1000 genomes]
rs528879	0.94[AFR][1000 genomes]
rs542820	0.95[AFR][1000 genomes]
rs542923	0.94[AFR][1000 genomes]
rs546327	0.97[AFR][1000 genomes]
rs566507	0.88[AFR][1000 genomes]
rs584655	0.94[AFR][1000 genomes]
rs594870	0.97[AFR][1000 genomes]
rs597750	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs600842	0.97[AFR][1000 genomes]
rs606901	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs608847	0.97[AFR][1000 genomes]
rs636796	0.97[AFR][1000 genomes]
rs638255	0.94[AFR][1000 genomes]
rs649828	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs662916	0.94[AFR][1000 genomes]
rs668267	0.94[AFR][1000 genomes]
rs683149	0.94[AFR][1000 genomes]
rs683830	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs684160	0.97[AFR][1000 genomes]
rs685002	0.94[AFR][1000 genomes]
rs697440	0.95[AFR][1000 genomes]
rs697441	0.97[AFR][1000 genomes]
rs705629	0.84[EUR][1000 genomes]
rs808952	0.97[AFR][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	nsv1020400	chr6:101172705-101981665	Weak transcription Bivalent/Poised TSS Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv538390	chr6:101172705-101981665	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:101751800-101754800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links