Variant report

Variant	rs7772366
Chromosome Location	chr6:54796830-54796831
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10485135	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10948871	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11961881	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964483	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16886234	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16886244	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16886248	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16886267	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2062780	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2062781	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55644513	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58495896	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6906651	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73432360	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73432383	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9296772	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9464164	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs9464165	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs9464168	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9464169	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9464170	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9475070	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs9475071	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs9475074	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9475076	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9475080	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9475084	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9475086	0.88[AFR][1000 genomes];1.00[AMR][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	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2763553	chr6:54687979-54820487	Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54785600-54805000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr6:54786800-54800000	Weak transcription	Hela-S3	cervix
3	chr6:54789800-54810200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:54790000-54800200	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr6:54791400-54797000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr6:54791400-54798000	Weak transcription	Fetal Intestine Large	intestine
7	chr6:54791400-54798600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr6:54793200-54797400	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:54795200-54799600	Weak transcription	NHEK	skin
10	chr6:54795400-54799400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:54795600-54797400	Weak transcription	HMEC	breast
12	chr6:54796400-54797000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
13	chr6:54796400-54797400	Weak transcription	Fetal Kidney	kidney
14	chr6:54796800-54797000	ZNF genes & repeats	Esophagus	oesophagus
15	chr6:54796800-54797200	ZNF genes & repeats	Fetal Intestine Small	intestine
16	chr6:54796800-54798000	ZNF genes & repeats	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links